Citrus Sinensis ID: 046446

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240----
Protein Sequence
ILINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFTVHERQEEVDESNVK
Secondary Structure (PSIPRED)
cEEEcccccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHcccccccEEHHHHHHHHHccccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHcccccccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccc
Coil and Loop (DISEMBL)
ilingycknKEIEGALNLYSEMLskgikpdvviHNTLFIGLFEIHQVERAFKLFDEMqrdgvaadtrTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFhslprgvlVADVVTYSIMIHGlyndgqmdkAHDLFLDMeenavapnvitfgtlihgfirinEPSKVIELLHKMKeknvmpdaSIVSIVVDLLAKneislnslpsftvherqeevdesnvk
Flexible Loop (DISEMBL)
ilingycknkeIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEislnslpsftvherqeevdesnvk
Low Complexity Region (SEG)
ILINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFTVHERQEEVDESNVK
Disordered region (IsUnstruct)
**INGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNS*******************
Disordered Region (DISOPRED)
ILINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFTVHER**********
Disordered Region (DISEMBL)
ILINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFTV*************
Disordered Region (DISPRO)
ILINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFTVHERQEEV******
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
ILINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFTVHERQEEVDESNVK
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	244	2.2.26 [Sep-21-2011]
Q9LQ14	629	Pentatricopeptide repeat-	yes	no	0.827	0.321	0.367	8e-37
Q9ASZ8	621	Pentatricopeptide repeat-	no	no	0.762	0.299	0.384	5e-36
Q9SXD8	634	Pentatricopeptide repeat-	no	no	0.737	0.283	0.358	1e-35
Q9C8T7	559	Pentatricopeptide repeat-	no	no	0.737	0.322	0.353	4e-35
Q0WKV3	637	Pentatricopeptide repeat-	no	no	0.877	0.335	0.366	6e-35
P0C7Q7	602	Putative pentatricopeptid	no	no	0.893	0.362	0.35	7e-35
Q9CAN0	630	Pentatricopeptide repeat-	no	no	0.827	0.320	0.344	3e-34
Q6NQ83	619	Pentatricopeptide repeat-	no	no	0.823	0.324	0.339	9e-34
Q9SXD1	630	Pentatricopeptide repeat-	no	no	0.827	0.320	0.344	2e-33
Q9CAN5	614	Pentatricopeptide repeat-	no	no	0.790	0.314	0.339	2e-33

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

 Score =  154 bits (388), Expect = 8e-37,   Method: Compositional matrix adjust.
 Identities = 79/215 (36%), Positives = 129/215 (60%)

Query: 2   LINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDG 61
           LI G+CK K +E  + L+ EM  +G+  + V +NTL  GLF+    + A K+F +M  DG
Sbjct: 401 LIKGFCKAKRVEEGMELFREMSQRGLVGNTVTYNTLIQGLFQAGDCDMAQKIFKKMVSDG 460

Query: 62  VAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIAL 121
           V  D  TY+I +DGLCK G + +++ +F  L+  K E DI  Y+ +I+G+CK+G++E   
Sbjct: 461 VPPDIITYSILLDGLCKYGKLEKALVVFEYLQKSKMEPDIYTYNIMIEGMCKAGKVEDGW 520

Query: 122 ELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGF 181
           +LF SL    +  +V+ Y+ MI G    G  ++A  LF +M+E+   PN  T+ TLI   
Sbjct: 521 DLFCSLSLKGVKPNVIIYTTMISGFCRKGLKEEADALFREMKEDGTLPNSGTYNTLIRAR 580

Query: 182 IRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLL 216
           +R  + +   EL+ +M+    + DAS +S+V+++L
Sbjct: 581 LRDGDKAASAELIKEMRSCGFVGDASTISMVINML 615

Arabidopsis thaliana (taxid: 3702)

>sp|Q9ASZ8|PPR37_ARATH Pentatricopeptide repeat-containing protein At1g12620 OS=Arabidopsis thaliana GN=At1g12620 PE=2 SV=1

 Score =  151 bits (381), Expect = 5e-36,   Method: Compositional matrix adjust.
 Identities = 85/221 (38%), Positives = 128/221 (57%)

Query: 1   ILINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRD 60
           ILINGYCK   I+  L L+ +M  +G+  D V +NTL  G  E+ ++E A +LF EM   
Sbjct: 392 ILINGYCKANLIDDGLELFRKMSLRGVVADTVTYNTLIQGFCELGKLEVAKELFQEMVSR 451

Query: 61  GVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIA 120
            V  D  +Y I +DGLC NG   +++E+F  +   K ELDI  Y+ +I G+C + +++ A
Sbjct: 452 RVRPDIVSYKILLDGLCDNGEPEKALEIFEKIEKSKMELDIGIYNIIIHGMCNASKVDDA 511

Query: 121 LELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHG 180
            +LF SLP   +  DV TY+IMI GL   G + +A  LF  MEE+  +PN  T+  LI  
Sbjct: 512 WDLFCSLPLKGVKPDVKTYNIMIGGLCKKGSLSEADLLFRKMEEDGHSPNGCTYNILIRA 571

Query: 181 FIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEI 221
            +   + +K  +L+ ++K      DAS V +VVD+L+   +
Sbjct: 572 HLGEGDATKSAKLIEEIKRCGFSVDASTVKMVVDMLSDGRL 612

Arabidopsis thaliana (taxid: 3702)

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

 Score =  149 bits (377), Expect = 1e-35,   Method: Compositional matrix adjust.
 Identities = 77/215 (35%), Positives = 128/215 (59%)

Query: 2   LINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDG 61
           LI G+CK+K +E    L+ EM  +G+  D V + TL  GLF     + A K+F +M  DG
Sbjct: 406 LIKGFCKSKRVEDGTELFREMSHRGLVGDTVTYTTLIQGLFHDGDCDNAQKVFKQMVSDG 465

Query: 62  VAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIAL 121
           V  D  TY+I +DGLC NG + +++E+F  ++  + +LDI  Y+ +I+G+CK+G+++   
Sbjct: 466 VPPDIMTYSILLDGLCNNGKLEKALEVFDYMQKSEIKLDIYIYTTMIEGMCKAGKVDDGW 525

Query: 122 ELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGF 181
           +LF SL    +  +VVTY+ MI GL +   + +A+ L   M+E+   PN  T+ TLI   
Sbjct: 526 DLFCSLSLKGVKPNVVTYNTMISGLCSKRLLQEAYALLKKMKEDGPLPNSGTYNTLIRAH 585

Query: 182 IRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLL 216
           +R  + +   EL+ +M+    + DAS + +V ++L
Sbjct: 586 LRDGDKAASAELIREMRSCRFVGDASTIGLVANML 620

Arabidopsis thaliana (taxid: 3702)

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

 Score =  148 bits (373), Expect = 4e-35,   Method: Compositional matrix adjust.
 Identities = 76/215 (35%), Positives = 128/215 (59%)

Query: 2   LINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDG 61
           LI G+CK+K +E    L+ EM  +G+  D V + TL  GLF     + A K+F +M  DG
Sbjct: 331 LIKGFCKSKRVEDGTELFREMSHRGLVGDTVTYTTLIQGLFHDGDCDNAQKVFKQMVSDG 390

Query: 62  VAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIAL 121
           V  D  TY+I +DGLC NG + +++E+F  ++  + +LDI  Y+ +I+G+CK+G+++   
Sbjct: 391 VPPDIMTYSILLDGLCNNGKLEKALEVFDYMQKSEIKLDIYIYTTMIEGMCKAGKVDDGW 450

Query: 122 ELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGF 181
           +LF SL    +  +VVTY+ MI GL +   + +A+ L   M+E+   P+  T+ TLI   
Sbjct: 451 DLFCSLSLKGVKPNVVTYNTMISGLCSKRLLQEAYALLKKMKEDGPLPDSGTYNTLIRAH 510

Query: 182 IRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLL 216
           +R  + +   EL+ +M+    + DAS + +V ++L
Sbjct: 511 LRDGDKAASAELIREMRSCRFVGDASTIGLVANML 545

Arabidopsis thaliana (taxid: 3702)

>sp|Q0WKV3|PPR36_ARATH Pentatricopeptide repeat-containing protein At1g12300, mitochondrial OS=Arabidopsis thaliana GN=At1g12300 PE=2 SV=1

 Score =  147 bits (372), Expect = 6e-35,   Method: Compositional matrix adjust.
 Identities = 81/221 (36%), Positives = 127/221 (57%)

Query: 1   ILINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRD 60
           ILINGYCK   I+  L L+ +M  +G+  D V +NTL  G  E+ ++  A +LF EM   
Sbjct: 408 ILINGYCKANRIDDGLELFRKMSLRGVVADTVTYNTLIQGFCELGKLNVAKELFQEMVSR 467

Query: 61  GVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIA 120
            V  +  TY I +DGLC NG   +++E+F  +   K ELDI  Y+ +I G+C + +++ A
Sbjct: 468 KVPPNIVTYKILLDGLCDNGESEKALEIFEKIEKSKMELDIGIYNIIIHGMCNASKVDDA 527

Query: 121 LELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHG 180
            +LF SLP   +   V TY+IMI GL   G + +A  LF  MEE+  AP+  T+  LI  
Sbjct: 528 WDLFCSLPLKGVKPGVKTYNIMIGGLCKKGPLSEAELLFRKMEEDGHAPDGWTYNILIRA 587

Query: 181 FIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEI 221
            +   + +K ++L+ ++K      DAS + +V+D+L+   +
Sbjct: 588 HLGDGDATKSVKLIEELKRCGFSVDASTIKMVIDMLSDGRL 628

Arabidopsis thaliana (taxid: 3702)

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

 Score =  147 bits (371), Expect = 7e-35,   Method: Compositional matrix adjust.
 Identities = 77/220 (35%), Positives = 128/220 (58%)

Query: 2   LINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDG 61
           LI GYC  K ++  + ++  +  +G+  + V ++ L  G  +  +++ A +LF EM   G
Sbjct: 374 LIKGYCMVKRVDDGMKVFRNISKRGLVANAVTYSILVQGFCQSGKIKLAEELFQEMVSHG 433

Query: 62  VAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIAL 121
           V  D  TY I +DGLC NG + +++E+F  L+  K +L I  Y+ +I+G+CK G++E A 
Sbjct: 434 VLPDVMTYGILLDGLCDNGKLEKALEIFEDLQKSKMDLGIVMYTTIIEGMCKGGKVEDAW 493

Query: 122 ELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGF 181
            LF SLP   +  +V+TY++MI GL   G + +A+ L   MEE+  APN  T+ TLI   
Sbjct: 494 NLFCSLPCKGVKPNVMTYTVMISGLCKKGSLSEANILLRKMEEDGNAPNDCTYNTLIRAH 553

Query: 182 IRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEI 221
           +R  + +   +L+ +MK      DAS + +V+D+L   E+
Sbjct: 554 LRDGDLTASAKLIEEMKSCGFSADASSIKMVIDMLLSGEL 593

Arabidopsis thaliana (taxid: 3702)

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

 Score =  145 bits (365), Expect = 3e-34,   Method: Compositional matrix adjust.
 Identities = 74/215 (34%), Positives = 124/215 (57%)

Query: 2   LINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDG 61
           LI G+CK K ++  + L+ EM  +G+  + V + TL  G F+  + + A  +F +M  DG
Sbjct: 402 LIKGFCKAKRVDEGMELFREMSQRGLVGNTVTYTTLIHGFFQARECDNAQIVFKQMVSDG 461

Query: 62  VAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIAL 121
           V  D  TY+I +DGLC NG +  ++ +F  L+  K E DI  Y+ +I+G+CK+G++E   
Sbjct: 462 VLPDIMTYSILLDGLCNNGKVETALVVFEYLQRSKMEPDIYTYNIMIEGMCKAGKVEDGW 521

Query: 122 ELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGF 181
           +LF SL    +  +VVTY+ M+ G    G  ++A  LF +M+E    P+  T+ TLI   
Sbjct: 522 DLFCSLSLKGVKPNVVTYTTMMSGFCRKGLKEEADALFREMKEEGPLPDSGTYNTLIRAH 581

Query: 182 IRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLL 216
           +R  + +   EL+ +M+    + DAS + +V ++L
Sbjct: 582 LRDGDKAASAELIREMRSCRFVGDASTIGLVTNML 616

Arabidopsis thaliana (taxid: 3702)

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

 Score =  143 bits (361), Expect = 9e-34,   Method: Compositional matrix adjust.
 Identities = 75/221 (33%), Positives = 126/221 (57%)

Query: 1   ILINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRD 60
           ILIN YCK K ++  + L+ E+ SKG+ P+ + +NTL +G  +  ++  A +LF EM   
Sbjct: 390 ILINSYCKAKRVDDGMRLFREISSKGLIPNTITYNTLVLGFCQSGKLNAAKELFQEMVSR 449

Query: 61  GVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIA 120
           GV     TY I +DGLC NG + +++E+F  ++  +  L I  Y+ +I G+C + +++ A
Sbjct: 450 GVPPSVVTYGILLDGLCDNGELNKALEIFEKMQKSRMTLGIGIYNIIIHGMCNASKVDDA 509

Query: 121 LELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHG 180
             LF SL    +  DVVTY++MI GL   G + +A  LF  M+E+   P+  T+  LI  
Sbjct: 510 WSLFCSLSDKGVKPDVVTYNVMIGGLCKKGSLSEADMLFRKMKEDGCTPDDFTYNILIRA 569

Query: 181 FIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEI 221
            +  +     +EL+ +MK      D+S + +V+D+L+   +
Sbjct: 570 HLGGSGLISSVELIEEMKVCGFSADSSTIKMVIDMLSDRRL 610

Arabidopsis thaliana (taxid: 3702)

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

 Score =  142 bits (359), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 74/215 (34%), Positives = 121/215 (56%)

Query: 2   LINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDG 61
           LI G+CK K +E  + ++ EM  +G+  + V +N L  GLF+    + A ++F EM  DG
Sbjct: 402 LIKGFCKYKRVEEGMEVFREMSQRGLVGNTVTYNILIQGLFQAGDCDMAQEIFKEMVSDG 461

Query: 62  VAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIAL 121
           V  +  TY   +DGLCKNG + +++ +F  L+  K E  I  Y+ +I+G+CK+G++E   
Sbjct: 462 VPPNIMTYNTLLDGLCKNGKLEKAMVVFEYLQRSKMEPTIYTYNIMIEGMCKAGKVEDGW 521

Query: 122 ELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGF 181
           +LF +L    +  DVV Y+ MI G    G  ++A  LF +M+E+   PN   + TLI   
Sbjct: 522 DLFCNLSLKGVKPDVVAYNTMISGFCRKGSKEEADALFKEMKEDGTLPNSGCYNTLIRAR 581

Query: 182 IRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLL 216
           +R  +     EL+ +M+      DAS + +V ++L
Sbjct: 582 LRDGDREASAELIKEMRSCGFAGDASTIGLVTNML 616

Arabidopsis thaliana (taxid: 3702)

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

 Score =  142 bits (359), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 73/215 (33%), Positives = 122/215 (56%)

Query: 2   LINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDG 61
           LING+CK K++   + L+ +M  +G+  + V + TL  G F+    + A  +F +M  DG
Sbjct: 386 LINGFCKAKKVVDGMELFRDMSRRGLVGNTVTYTTLIHGFFQASDCDNAQMVFKQMVSDG 445

Query: 62  VAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIAL 121
           V  +  TY   +DGLCKNG + +++ +F  L+  K E DI  Y+ + +G+CK+G++E   
Sbjct: 446 VHPNIMTYNTLLDGLCKNGKLEKAMVVFEYLQKSKMEPDIYTYNIMSEGMCKAGKVEDGW 505

Query: 122 ELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGF 181
           +LF SL    +  DV+ Y+ MI G    G  ++A+ LF+ M+E+   P+  T+ TLI   
Sbjct: 506 DLFCSLSLKGVKPDVIAYNTMISGFCKKGLKEEAYTLFIKMKEDGPLPDSGTYNTLIRAH 565

Query: 182 IRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLL 216
           +R  + +   EL+ +M+      DAS   +V D+L
Sbjct: 566 LRDGDKAASAELIKEMRSCRFAGDASTYGLVTDML 600

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	244
449529622	618	PREDICTED: pentatricopeptide repeat-cont	0.950	0.375	0.489	3e-55
359479583	627	PREDICTED: pentatricopeptide repeat-cont	0.950	0.370	0.480	9e-55
449468059	225	PREDICTED: pentatricopeptide repeat-cont	0.905	0.982	0.477	3e-53
449520325	605	PREDICTED: pentatricopeptide repeat-cont	0.971	0.391	0.452	8e-52
449462479	580	PREDICTED: pentatricopeptide repeat-cont	0.971	0.408	0.452	9e-52
449444222	588	PREDICTED: pentatricopeptide repeat-cont	0.877	0.363	0.459	1e-48
449462477	597	PREDICTED: pentatricopeptide repeat-cont	0.823	0.336	0.478	2e-48
449520323	605	PREDICTED: pentatricopeptide repeat-cont	0.831	0.335	0.478	2e-48
255559961	628	pentatricopeptide repeat-containing prot	0.913	0.355	0.443	6e-48
449444228	585	PREDICTED: pentatricopeptide repeat-cont	0.877	0.365	0.459	3e-47

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

 Score =  221 bits (562), Expect = 3e-55,   Method: Compositional matrix adjust.
 Identities = 115/235 (48%), Positives = 159/235 (67%), Gaps = 3/235 (1%)

Query: 2   LINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDG 61
           LINGYCK  +++ A+NLY+EML  G  P+V  + TL  GLF+  +V  A KLF  M+  G
Sbjct: 383 LINGYCKTWKVKEAMNLYNEMLQVGKSPNVTTYGTLLKGLFQKGKVGDAKKLFGVMKTYG 442

Query: 62  VAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIAL 121
           V+A+++ Y IF+DGLCKN  + E++ELF  L+    +L+I+ YSCLIDGLCK+G+LE A 
Sbjct: 443 VSANSQIYGIFLDGLCKNDCLFEAMELFNELKSYNFKLNIENYSCLIDGLCKAGKLETAW 502

Query: 122 ELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGF 181
           ELF  L +  L  DVVTY+IMIHG    GQ+D A+ LF  MEEN   P++I + TL+ GF
Sbjct: 503 ELFEKLSQEGLQPDVVTYNIMIHGFCKVGQVDNANILFEKMEENGCTPDIIAYNTLLCGF 562

Query: 182 IRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEIS---LNSLPSFTVHE 233
              N+  +VI+LLHKM +K+V P+A+  +IVVD+L K+E     ++ LP F V  
Sbjct: 563 CEGNKLEEVIKLLHKMVQKDVSPNAASCTIVVDMLCKDEKYKKFVDLLPKFPVQR 617

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  219 bits (558), Expect = 9e-55,   Method: Compositional matrix adjust.
 Identities = 113/235 (48%), Positives = 156/235 (66%), Gaps = 3/235 (1%)

Query: 1   ILINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRD 60
           +LINGYCK+  +  A  LY EM+ K I P V+ +NTL  GLF   +V  A+ LF EM+  
Sbjct: 383 VLINGYCKSGRMVEAKKLYREMMCKEIMPTVITYNTLLTGLFREGKVRDAWNLFGEMKVH 442

Query: 61  GVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIA 120
            +  ++ TY I +DGLCKN ++ E++ELF  L     +  IQ ++CLIDGLCK+ ++EIA
Sbjct: 443 DLTPESCTYNILLDGLCKNNHLSEAMELFHYLENHDFQPSIQIFNCLIDGLCKARKIEIA 502

Query: 121 LELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHG 180
            ELF+ L    L  +V+TY++MIHGL   GQ++ A DLFL MEE   APN++TF TL+ G
Sbjct: 503 RELFNRLSHEGLEPNVITYTVMIHGLCKSGQLENAKDLFLGMEEKGCAPNLVTFNTLMRG 562

Query: 181 FIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEI---SLNSLPSFTVH 232
           F + +E  KV+ELL +M EK+  PDAS +SIVVDLL+K+E     L+ LP+F   
Sbjct: 563 FCQNDEMQKVVELLQEMAEKDFSPDASTISIVVDLLSKDEKYREYLHLLPTFPAQ 617

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449468059|ref|XP_004151739.1| PREDICTED: pentatricopeptide repeat-containing protein At3g22470, mitochondrial-like [Cucumis sativus]

 Score =  214 bits (544), Expect = 3e-53,   Method: Compositional matrix adjust.
 Identities = 107/224 (47%), Positives = 154/224 (68%), Gaps = 3/224 (1%)

Query: 16  LNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDG 75
           +NLY+EML  G +P+   + TL  GLF+  +V  A KLF  ++  G++AD+  Y IF+DG
Sbjct: 1   MNLYNEMLQVGKRPNATTYGTLLTGLFQTGKVGDAKKLFRVLKTYGISADSCIYRIFLDG 60

Query: 76  LCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVAD 135
           LCKNG + E++E F  L+    +LDI++Y+CLIDGLCK+G+LE A ELF  L +  L +D
Sbjct: 61  LCKNGCLYEAMEHFNQLKSYNIKLDIESYNCLIDGLCKAGKLETAWELFEKLYQEGLQSD 120

Query: 136 VVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLH 195
           VVTY+IMIHG    GQ+DKA+ LF  MEEN   P++IT+ TL+ GF + N+  +V++LLH
Sbjct: 121 VVTYNIMIHGFCKVGQVDKANILFEKMEENGCTPDIITYNTLLCGFCQSNKSDEVVKLLH 180

Query: 196 KMKEKNVMPDASIVSIVVDLLAKNEI---SLNSLPSFTVHERQE 236
           KM ++++ PDA   +IV+D+L K+E     L+ LP F V ER+ 
Sbjct: 181 KMIQRDMSPDAISCNIVIDMLRKDEKYQECLDLLPRFLVQERRR 224

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  209 bits (532), Expect = 8e-52,   Method: Compositional matrix adjust.
 Identities = 110/243 (45%), Positives = 163/243 (67%), Gaps = 6/243 (2%)

Query: 1   ILINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRD 60
           +LINGY K  ++E A+ LY+EML  G +P+V+ +++L  G+F   +V+ A KLF  M+  
Sbjct: 360 VLINGYSKTLKVEEAMKLYNEMLLVGKRPNVITYDSLLKGIFLAGKVDDAKKLFSVMKAH 419

Query: 61  GVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIA 120
           G+A ++ TY IF+DGLCKN  + E+++LF  L+    +L+I+  +CLIDGLCK+G+LE A
Sbjct: 420 GIAENSYTYGIFLDGLCKNDCLFEAMKLFTELKSSNFKLEIENLNCLIDGLCKAGKLETA 479

Query: 121 LELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHG 180
            ELF  L       +VVTY+IMIHG   +GQ+DKA+ L   ME N   P++IT+ TL+ G
Sbjct: 480 WELFEKLSNEGHEPNVVTYTIMIHGFCREGQVDKANVLIQKMEANGCTPDIITYNTLMRG 539

Query: 181 FIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEI---SLNSLPSFTVHERQEE 237
           F   N+  +V++LLH+M +K+V PDA   SIVVD+L+K+E     L+ LP F +   Q+ 
Sbjct: 540 FYESNKLEEVVQLLHRMAQKDVSPDAITCSIVVDMLSKDEKYQECLHLLPRFPI---QKG 596

Query: 238 VDE 240
           VD+
Sbjct: 597 VDK 599

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  209 bits (531), Expect = 9e-52,   Method: Compositional matrix adjust.
 Identities = 110/243 (45%), Positives = 163/243 (67%), Gaps = 6/243 (2%)

Query: 1   ILINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRD 60
           +LINGY K  ++E A+ LY+EML  G +P+V+ +++L  G+F   +V+ A KLF  M+  
Sbjct: 335 VLINGYSKTLKVEEAMKLYNEMLLVGKRPNVITYDSLLKGIFLAGKVDDAKKLFSVMKAH 394

Query: 61  GVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIA 120
           G+A ++ TY IF+DGLCKN  + E+++LF  L+    +L+I+  +CLIDGLCK+G+LE A
Sbjct: 395 GIAENSYTYGIFLDGLCKNDCLFEAMKLFTELKSSNFKLEIENLNCLIDGLCKAGKLETA 454

Query: 121 LELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHG 180
            ELF  L       +VVTY+IMIHG   +GQ+DKA+ L   ME N   P++IT+ TL+ G
Sbjct: 455 WELFEKLSNEGHEPNVVTYTIMIHGFCREGQVDKANVLIQKMEANGCTPDIITYNTLMRG 514

Query: 181 FIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEI---SLNSLPSFTVHERQEE 237
           F   N+  +V++LLH+M +K+V PDA   SIVVD+L+K+E     L+ LP F +   Q+ 
Sbjct: 515 FYESNKLEEVVQLLHRMAQKDVSPDAITCSIVVDMLSKDEKYQECLHLLPRFPI---QKG 571

Query: 238 VDE 240
           VD+
Sbjct: 572 VDK 574

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  198 bits (504), Expect = 1e-48,   Method: Compositional matrix adjust.
 Identities = 101/220 (45%), Positives = 141/220 (64%)

Query: 1   ILINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRD 60
           +LINGYCK  ++E A+ L++EML  G+ PDV     L   LF   +V+ A +LF  ++  
Sbjct: 347 MLINGYCKTLKVEEAMKLFNEMLHVGMWPDVKTSGVLLKALFLAGKVDDAKELFRVIKPY 406

Query: 61  GVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIA 120
            +  D     IF+DGLCKNGYI E+++LF  L     +LDI+ + CLIDGLCK+G+LE A
Sbjct: 407 AMPKDLCICCIFLDGLCKNGYIFEAMKLFNELESYNMKLDIETFGCLIDGLCKAGKLETA 466

Query: 121 LELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHG 180
            ELF  L    +  D + YS MIHG    GQ+DKA+ LF  MEEN  +P++IT+  L+ G
Sbjct: 467 WELFEKLYEEGIQPDAMAYSSMIHGFCKKGQVDKANILFQKMEENGCSPDLITYSILMRG 526

Query: 181 FIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNE 220
           F   N+  KV++LLH+M EK+V PD  I +IV D++ K+E
Sbjct: 527 FYESNKLEKVVQLLHRMIEKDVWPDDGIYAIVEDMVCKDE 566

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  198 bits (503), Expect = 2e-48,   Method: Compositional matrix adjust.
 Identities = 100/209 (47%), Positives = 137/209 (65%)

Query: 1   ILINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRD 60
           +LINGYCK  ++E A+ LY+ ML  G +PDV  +  L  GLF+  +V  A KLF  M+  
Sbjct: 379 VLINGYCKTSKVEEAMKLYNGMLQVGKRPDVKTYGALLTGLFQGGKVGDAKKLFGVMKVY 438

Query: 61  GVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIA 120
           G+  D   Y IF++GLCKNG + E++ELF  L+    +LDI+ ++CLIDGLCK+G+LE A
Sbjct: 439 GIPGDLYIYGIFLNGLCKNGCLFEAMELFNKLKSYNIKLDIECFNCLIDGLCKAGKLETA 498

Query: 121 LELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHG 180
            ELF  LP+  L  DVVTY+IMIH     GQ+ KA+ LF  ME+N   P+ IT+ TLI G
Sbjct: 499 WELFEKLPQEELQPDVVTYNIMIHEFCRGGQVVKANILFQKMEKNGCTPDKITYATLIRG 558

Query: 181 FIRINEPSKVIELLHKMKEKNVMPDASIV 209
           F    +  KV+ELLH M +++V  D +I+
Sbjct: 559 FFESKKLEKVVELLHMMVQRDVSLDVNIL 587

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  197 bits (502), Expect = 2e-48,   Method: Compositional matrix adjust.
 Identities = 100/209 (47%), Positives = 137/209 (65%)

Query: 1   ILINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRD 60
           +LINGYCK  ++E A+ LY+ ML  G +PDV  +  L  GLF+  +V  A KLF  M+  
Sbjct: 387 VLINGYCKTSKVEEAMKLYNGMLQVGKRPDVKTYGALLTGLFQGGKVGDAKKLFGVMKVY 446

Query: 61  GVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIA 120
           G+  D   Y IF++GLCKNG + E++ELF  L+    +LDI+ ++CLIDGLCK+G+LE A
Sbjct: 447 GIPGDLYIYGIFLNGLCKNGCLFEAMELFNKLKSYNIKLDIECFNCLIDGLCKAGKLETA 506

Query: 121 LELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHG 180
            ELF  LP+  L  DVVTY+IMIH     GQ+ KA+ LF  ME+N   P+ IT+ TLI G
Sbjct: 507 WELFEKLPQEELQPDVVTYNIMIHEFCRGGQVVKANILFQKMEKNGCTPDKITYATLIRG 566

Query: 181 FIRINEPSKVIELLHKMKEKNVMPDASIV 209
           F    +  KV+ELLH M +++V  D +I+
Sbjct: 567 FFESKKLEKVVELLHMMVQRDVSLDVNIL 595

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  196 bits (498), Expect = 6e-48,   Method: Compositional matrix adjust.
 Identities = 106/239 (44%), Positives = 154/239 (64%), Gaps = 16/239 (6%)

Query: 1   ILINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRD 60
           IL+  YCK+ E+ GA+ LY EM+ +GI+P V+ ++          +V  A KLF E+Q  
Sbjct: 398 ILMKAYCKDSEVHGAMILYREMMDRGIQPTVITYS----------KVGDARKLFGEIQFQ 447

Query: 61  GVAADTRTYTIF---IDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRL 117
            +  D+ +Y+I+   +DGLCKNG + E++++F  L   K   ++  ++ LI+G+C+S +L
Sbjct: 448 DMVLDSISYSIYNVYLDGLCKNGCVSEALDVFYGLENCKFASNVAIFNSLINGMCRSEKL 507

Query: 118 EIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTL 177
           EIA ELF+ L    L  DVVTY+IMI+GL   GQ  KA+DLFL+MEE   APNV+TF TL
Sbjct: 508 EIAWELFNRLCNEALQPDVVTYTIMIYGLCKVGQPQKAYDLFLEMEEKGCAPNVVTFNTL 567

Query: 178 IHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEI---SLNSLPSFTVHE 233
           + G    +E  K++ELLHKM  + + PDAS + IV+D+L K+E     LN LP+F V E
Sbjct: 568 MRGLCLNSERPKIVELLHKMAARKLSPDASTLLIVMDILLKDENYHECLNLLPTFPVQE 626

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  194 bits (492), Expect = 3e-47,   Method: Compositional matrix adjust.
 Identities = 101/220 (45%), Positives = 145/220 (65%)

Query: 1   ILINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRD 60
           +LI GYCK   +E A+ LY+EML  G  PD+     L  GLF   +V  A KLF  ++  
Sbjct: 347 VLIYGYCKTFNVEEAMKLYNEMLRVGKWPDMKTFCVLLKGLFLAGKVGDAKKLFGVVKPH 406

Query: 61  GVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIA 120
            V  +    ++F+DGLCKNG + E++ELF  L+    +LDI++++CLIDGLCK+ +LE A
Sbjct: 407 AVPKNLYICSVFLDGLCKNGCLFEAMELFNELKSYNMKLDIESFNCLIDGLCKARKLETA 466

Query: 121 LELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHG 180
            ELF  L +  L  DVVTY IMI+G   +GQ+D A+ LF  MEEN   PN++T+  L+HG
Sbjct: 467 WELFEKLSQEGLQPDVVTYCIMINGFCKNGQVDNANILFQMMEENGCTPNLLTYSALLHG 526

Query: 181 FIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNE 220
           F + N+  +V++LLHKM +K+V   ASI +IV D+++K+E
Sbjct: 527 FYKNNKLEEVVKLLHKMIQKDVSLAASIYTIVEDMVSKDE 566

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

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	244
TAIR|locus:2195047	621	AT1G12620 [Arabidopsis thalian	0.926	0.363	0.380	5.8e-35
TAIR|locus:2015494	629	RPF3 "RNA processing factor 3"	0.881	0.341	0.367	1e-34
TAIR|locus:2203916	634	AT1G62590 [Arabidopsis thalian	0.881	0.339	0.358	6.6e-34
TAIR|locus:2034760	637	AT1G12300 [Arabidopsis thalian	0.926	0.354	0.362	8.6e-34
TAIR|locus:1009023134	644	AT1G12775 [Arabidopsis thalian	0.922	0.349	0.365	1.1e-32
TAIR|locus:2015208	630	AT1G63130 [Arabidopsis thalian	0.881	0.341	0.344	1.3e-32
TAIR|locus:2077061	619	AT3G22470 "AT3G22470" [Arabido	0.926	0.365	0.336	1.6e-32
TAIR|locus:2015228	614	AT1G63080 [Arabidopsis thalian	0.881	0.350	0.339	7e-32
TAIR|locus:2026192	630	RPF2 "rna processing factor 2"	0.881	0.341	0.344	1e-31
TAIR|locus:2015218	590	AT1G63070 [Arabidopsis thalian	0.881	0.364	0.339	2.1e-31

TAIR|locus:2195047 AT1G12620 [Arabidopsis thaliana (taxid:3702)]

 Score = 383 (139.9 bits), Expect = 5.8e-35, P = 5.8e-35
 Identities = 86/226 (38%), Positives = 130/226 (57%)

Query:     1 ILINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRD 60
             ILINGYCK   I+  L L+ +M  +G+  D V +NTL  G  E+ ++E A +LF EM   
Sbjct:   392 ILINGYCKANLIDDGLELFRKMSLRGVVADTVTYNTLIQGFCELGKLEVAKELFQEMVSR 451

Query:    61 GVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIA 120
              V  D  +Y I +DGLC NG   +++E+F  +   K ELDI  Y+ +I G+C + +++ A
Sbjct:   452 RVRPDIVSYKILLDGLCDNGEPEKALEIFEKIEKSKMELDIGIYNIIIHGMCNASKVDDA 511

Query:   121 LELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHG 180
              +LF SLP   +  DV TY+IMI GL   G + +A  LF  MEE+  +PN  T+  LI  
Sbjct:   512 WDLFCSLPLKGVKPDVKTYNIMIGGLCKKGSLSEADLLFRKMEEDGHSPNGCTYNILIRA 571

Query:   181 FIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSL 226
              +   + +K  +L+ ++K      DAS V +VVD+L+   +  + L
Sbjct:   572 HLGEGDATKSAKLIEEIKRCGFSVDASTVKMVVDMLSDGRLKKSFL 617

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 381 (139.2 bits), Expect = 1.0e-34, P = 1.0e-34
 Identities = 79/215 (36%), Positives = 129/215 (60%)

Query:     2 LINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDG 61
             LI G+CK K +E  + L+ EM  +G+  + V +NTL  GLF+    + A K+F +M  DG
Sbjct:   401 LIKGFCKAKRVEEGMELFREMSQRGLVGNTVTYNTLIQGLFQAGDCDMAQKIFKKMVSDG 460

Query:    62 VAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIAL 121
             V  D  TY+I +DGLCK G + +++ +F  L+  K E DI  Y+ +I+G+CK+G++E   
Sbjct:   461 VPPDIITYSILLDGLCKYGKLEKALVVFEYLQKSKMEPDIYTYNIMIEGMCKAGKVEDGW 520

Query:   122 ELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGF 181
             +LF SL    +  +V+ Y+ MI G    G  ++A  LF +M+E+   PN  T+ TLI   
Sbjct:   521 DLFCSLSLKGVKPNVIIYTTMISGFCRKGLKEEADALFREMKEDGTLPNSGTYNTLIRAR 580

Query:   182 IRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLL 216
             +R  + +   EL+ +M+    + DAS +S+V+++L
Sbjct:   581 LRDGDKAASAELIKEMRSCGFVGDASTISMVINML 615

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0006397 "mRNA processing" evidence=IMP

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

 Score = 374 (136.7 bits), Expect = 6.6e-34, P = 6.6e-34
 Identities = 77/215 (35%), Positives = 128/215 (59%)

Query:     2 LINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDG 61
             LI G+CK+K +E    L+ EM  +G+  D V + TL  GLF     + A K+F +M  DG
Sbjct:   406 LIKGFCKSKRVEDGTELFREMSHRGLVGDTVTYTTLIQGLFHDGDCDNAQKVFKQMVSDG 465

Query:    62 VAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIAL 121
             V  D  TY+I +DGLC NG + +++E+F  ++  + +LDI  Y+ +I+G+CK+G+++   
Sbjct:   466 VPPDIMTYSILLDGLCNNGKLEKALEVFDYMQKSEIKLDIYIYTTMIEGMCKAGKVDDGW 525

Query:   122 ELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGF 181
             +LF SL    +  +VVTY+ MI GL +   + +A+ L   M+E+   PN  T+ TLI   
Sbjct:   526 DLFCSLSLKGVKPNVVTYNTMISGLCSKRLLQEAYALLKKMKEDGPLPNSGTYNTLIRAH 585

Query:   182 IRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLL 216
             +R  + +   EL+ +M+    + DAS + +V ++L
Sbjct:   586 LRDGDKAASAELIREMRSCRFVGDASTIGLVANML 620

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 373 (136.4 bits), Expect = 8.6e-34, P = 8.6e-34
 Identities = 82/226 (36%), Positives = 129/226 (57%)

Query:     1 ILINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRD 60
             ILINGYCK   I+  L L+ +M  +G+  D V +NTL  G  E+ ++  A +LF EM   
Sbjct:   408 ILINGYCKANRIDDGLELFRKMSLRGVVADTVTYNTLIQGFCELGKLNVAKELFQEMVSR 467

Query:    61 GVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIA 120
              V  +  TY I +DGLC NG   +++E+F  +   K ELDI  Y+ +I G+C + +++ A
Sbjct:   468 KVPPNIVTYKILLDGLCDNGESEKALEIFEKIEKSKMELDIGIYNIIIHGMCNASKVDDA 527

Query:   121 LELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHG 180
              +LF SLP   +   V TY+IMI GL   G + +A  LF  MEE+  AP+  T+  LI  
Sbjct:   528 WDLFCSLPLKGVKPGVKTYNIMIGGLCKKGPLSEAELLFRKMEEDGHAPDGWTYNILIRA 587

Query:   181 FIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSL 226
              +   + +K ++L+ ++K      DAS + +V+D+L+   +  + L
Sbjct:   588 HLGDGDATKSVKLIEELKRCGFSVDASTIKMVIDMLSDGRLKKSFL 633

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 363 (132.8 bits), Expect = 1.1e-32, P = 1.1e-32
 Identities = 83/227 (36%), Positives = 127/227 (55%)

Query:     1 ILINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRD 60
             ILINGYCK   I+  L L+ EM  +G+  + V +NTL  G  +  ++E A KLF EM   
Sbjct:   408 ILINGYCKANRIDDGLELFREMSLRGVIANTVTYNTLVQGFCQSGKLEVAKKLFQEMVSR 467

Query:    61 GVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIA 120
              V  D  +Y I +DGLC NG + +++E+F  +   K ELDI  Y  +I G+C + +++ A
Sbjct:   468 RVRPDIVSYKILLDGLCDNGELEKALEIFGKIEKSKMELDIGIYMIIIHGMCNASKVDDA 527

Query:   121 LELFHSLP-RGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIH 179
              +LF SLP +GV + D   Y+IMI  L     + KA  LF  M E   AP+ +T+  LI 
Sbjct:   528 WDLFCSLPLKGVKL-DARAYNIMISELCRKDSLSKADILFRKMTEEGHAPDELTYNILIR 586

Query:   180 GFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSL 226
               +  ++ +   EL+ +MK      D S V +V+++L+  E+  + L
Sbjct:   587 AHLGDDDATTAAELIEEMKSSGFPADVSTVKMVINMLSSGELDKSFL 633

GO:0005739 "mitochondrion" evidence=ISM

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

 Score = 362 (132.5 bits), Expect = 1.3e-32, P = 1.3e-32
 Identities = 74/215 (34%), Positives = 124/215 (57%)

Query:     2 LINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDG 61
             LI G+CK K ++  + L+ EM  +G+  + V + TL  G F+  + + A  +F +M  DG
Sbjct:   402 LIKGFCKAKRVDEGMELFREMSQRGLVGNTVTYTTLIHGFFQARECDNAQIVFKQMVSDG 461

Query:    62 VAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIAL 121
             V  D  TY+I +DGLC NG +  ++ +F  L+  K E DI  Y+ +I+G+CK+G++E   
Sbjct:   462 VLPDIMTYSILLDGLCNNGKVETALVVFEYLQRSKMEPDIYTYNIMIEGMCKAGKVEDGW 521

Query:   122 ELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGF 181
             +LF SL    +  +VVTY+ M+ G    G  ++A  LF +M+E    P+  T+ TLI   
Sbjct:   522 DLFCSLSLKGVKPNVVTYTTMMSGFCRKGLKEEADALFREMKEEGPLPDSGTYNTLIRAH 581

Query:   182 IRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLL 216
             +R  + +   EL+ +M+    + DAS + +V ++L
Sbjct:   582 LRDGDKAASAELIREMRSCRFVGDASTIGLVTNML 616

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 361 (132.1 bits), Expect = 1.6e-32, P = 1.6e-32
 Identities = 76/226 (33%), Positives = 128/226 (56%)

Query:     1 ILINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRD 60
             ILIN YCK K ++  + L+ E+ SKG+ P+ + +NTL +G  +  ++  A +LF EM   
Sbjct:   390 ILINSYCKAKRVDDGMRLFREISSKGLIPNTITYNTLVLGFCQSGKLNAAKELFQEMVSR 449

Query:    61 GVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIA 120
             GV     TY I +DGLC NG + +++E+F  ++  +  L I  Y+ +I G+C + +++ A
Sbjct:   450 GVPPSVVTYGILLDGLCDNGELNKALEIFEKMQKSRMTLGIGIYNIIIHGMCNASKVDDA 509

Query:   121 LELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHG 180
               LF SL    +  DVVTY++MI GL   G + +A  LF  M+E+   P+  T+  LI  
Sbjct:   510 WSLFCSLSDKGVKPDVVTYNVMIGGLCKKGSLSEADMLFRKMKEDGCTPDDFTYNILIRA 569

Query:   181 FIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSL 226
              +  +     +EL+ +MK      D+S + +V+D+L+   +  + L
Sbjct:   570 HLGGSGLISSVELIEEMKVCGFSADSSTIKMVIDMLSDRRLDKSFL 615

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 355 (130.0 bits), Expect = 7.0e-32, P = 7.0e-32
 Identities = 73/215 (33%), Positives = 122/215 (56%)

Query:     2 LINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDG 61
             LING+CK K++   + L+ +M  +G+  + V + TL  G F+    + A  +F +M  DG
Sbjct:   386 LINGFCKAKKVVDGMELFRDMSRRGLVGNTVTYTTLIHGFFQASDCDNAQMVFKQMVSDG 445

Query:    62 VAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIAL 121
             V  +  TY   +DGLCKNG + +++ +F  L+  K E DI  Y+ + +G+CK+G++E   
Sbjct:   446 VHPNIMTYNTLLDGLCKNGKLEKAMVVFEYLQKSKMEPDIYTYNIMSEGMCKAGKVEDGW 505

Query:   122 ELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGF 181
             +LF SL    +  DV+ Y+ MI G    G  ++A+ LF+ M+E+   P+  T+ TLI   
Sbjct:   506 DLFCSLSLKGVKPDVIAYNTMISGFCKKGLKEEAYTLFIKMKEDGPLPDSGTYNTLIRAH 565

Query:   182 IRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLL 216
             +R  + +   EL+ +M+      DAS   +V D+L
Sbjct:   566 LRDGDKAASAELIKEMRSCRFAGDASTYGLVTDML 600

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 354 (129.7 bits), Expect = 1.0e-31, P = 1.0e-31
 Identities = 74/215 (34%), Positives = 121/215 (56%)

Query:     2 LINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDG 61
             LI G+CK K +E  + ++ EM  +G+  + V +N L  GLF+    + A ++F EM  DG
Sbjct:   402 LIKGFCKYKRVEEGMEVFREMSQRGLVGNTVTYNILIQGLFQAGDCDMAQEIFKEMVSDG 461

Query:    62 VAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIAL 121
             V  +  TY   +DGLCKNG + +++ +F  L+  K E  I  Y+ +I+G+CK+G++E   
Sbjct:   462 VPPNIMTYNTLLDGLCKNGKLEKAMVVFEYLQRSKMEPTIYTYNIMIEGMCKAGKVEDGW 521

Query:   122 ELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGF 181
             +LF +L    +  DVV Y+ MI G    G  ++A  LF +M+E+   PN   + TLI   
Sbjct:   522 DLFCNLSLKGVKPDVVAYNTMISGFCRKGSKEEADALFKEMKEDGTLPNSGCYNTLIRAR 581

Query:   182 IRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLL 216
             +R  +     EL+ +M+      DAS + +V ++L
Sbjct:   582 LRDGDREASAELIKEMRSCGFAGDASTIGLVTNML 616

GO:0005739 "mitochondrion" evidence=ISM;IDA

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

GO:0003723 "RNA binding" evidence=IDA

TAIR|locus:2015218 AT1G63070 [Arabidopsis thaliana (taxid:3702)]

 Score = 350 (128.3 bits), Expect = 2.1e-31, P = 2.1e-31
 Identities = 73/215 (33%), Positives = 121/215 (56%)

Query:     2 LINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDG 61
             LI G+CK K +E  + ++ EM  +G+  + V + TL  G F+    + A  +F +M  DG
Sbjct:   362 LIKGFCKYKRVEEGMEVFREMSQRGLVGNTVTYTTLIHGFFQARDCDNAQMVFKQMVSDG 421

Query:    62 VAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIAL 121
             V  D  TY I +DGLC NG +  ++ +F  ++    +LDI  Y+ +I+ LCK+G++E   
Sbjct:   422 VHPDIMTYNILLDGLCNNGNVETALVVFEYMQKRDMKLDIVTYTTMIEALCKAGKVEDGW 481

Query:   122 ELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGF 181
             +LF SL    +  +VVTY+ M+ G    G  ++A  LF++M+E+   PN  T+ TLI   
Sbjct:   482 DLFCSLSLKGVKPNVVTYTTMMSGFCRKGLKEEADALFVEMKEDGPLPNSGTYNTLIRAR 541

Query:   182 IRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLL 216
             +R  + +   EL+ +M+      DAS   +V ++L
Sbjct:   542 LRDGDEAASAELIKEMRSCGFAGDASTFGLVTNML 576

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: GSVIVG00023872001 SubName- Full=Chromosome chr7 scaffold_31, whole genome shotgun sequence; (660 aa) (Vitis vinifera)

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	244
pfam13041	50	pfam13041, PPR_2, PPR repeat family	5e-16
pfam13041	50	pfam13041, PPR_2, PPR repeat family	4e-15
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-13
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	4e-13
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	8e-13
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	6e-12
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	6e-12
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-11
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-11
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-11
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	3e-10
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-08
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	4e-07
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	7e-07
pfam12854	34	pfam12854, PPR_1, PPR repeat	4e-06
pfam12854	34	pfam12854, PPR_1, PPR repeat	1e-05
pfam12854	34	pfam12854, PPR_1, PPR repeat	1e-05
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	3e-05
pfam01535	31	pfam01535, PPR, PPR repeat	5e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	6e-05
pfam12854	34	pfam12854, PPR_1, PPR repeat	8e-05
pfam01535	31	pfam01535, PPR, PPR repeat	1e-04
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	3e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	3e-04
pfam12854	34	pfam12854, PPR_1, PPR repeat	5e-04
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	6e-04
pfam01535	31	pfam01535, PPR, PPR repeat	0.001
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	0.002
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	0.003
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	0.003
pfam01535	31	pfam01535, PPR, PPR repeat	0.003
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	0.003
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	0.004

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

 Score = 69.4 bits (171), Expect = 5e-16
 Identities = 26/50 (52%), Positives = 35/50 (70%)

Query: 29 PDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCK 78
          PDVV +NTL  G  +  +VE A KLF+EM++ G+  +  TY+I IDGLCK
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 = 67.0 bits (165), Expect = 4e-15
 Identities = 19/47 (40%), Positives = 30/47 (63%)

Query: 135 DVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGF 181
           DVVTY+ +I G    G++++A  LF +M++  + PNV T+  LI G 
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 48

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

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

 Score = 69.1 bits (169), Expect = 2e-13
 Identities = 41/178 (23%), Positives = 85/178 (47%)

Query: 1   ILINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRD 60
           I +N   +  + + AL++Y +M  KG+KPD V  + L         +++AF++  + ++ 
Sbjct: 619 IAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQ 678

Query: 61  GVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIA 120
           G+   T +Y+  +          +++EL+  ++ +K    +   + LI  LC+  +L  A
Sbjct: 679 GIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKA 738

Query: 121 LELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLI 178
           LE+   + R  L  + +TYSI++         D   DL    +E+ + PN++    + 
Sbjct: 739 LEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCIT 796

Length = 1060

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

 Score = 68.0 bits (166), Expect = 4e-13
 Identities = 55/220 (25%), Positives = 104/220 (47%), Gaps = 15/220 (6%)

Query: 2   LINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDG 61
           LI  Y K K I+ AL ++  +  K    DV+   ++  GL   ++   A   F +M    
Sbjct: 430 LIEMYSKCKCIDKALEVFHNIPEK----DVISWTSIIAGLRLNNRCFEALIFFRQMLLT- 484

Query: 62  VAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAY--SCLIDGLCKSGRLEI 119
           +  ++ T    +    + G ++   E+     +L+  +    +  + L+D   + GR+  
Sbjct: 485 LKPNSVTLIAALSACARIGALMCGKEIHA--HVLRTGIGFDGFLPNALLDLYVRCGRMNY 542

Query: 120 ALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIH 179
           A   F+S  +     DVV+++I++ G    G+   A +LF  M E+ V P+ +TF +L+ 
Sbjct: 543 AWNQFNSHEK-----DVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLC 597

Query: 180 GFIRINEPSKVIELLHKMKEK-NVMPDASIVSIVVDLLAK 218
              R    ++ +E  H M+EK ++ P+    + VVDLL +
Sbjct: 598 ACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGR 637

Length = 857

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

 Score = 67.2 bits (164), Expect = 8e-13
 Identities = 53/174 (30%), Positives = 86/174 (49%), Gaps = 10/174 (5%)

Query: 2   LINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIH-QVERAFKLFDEMQRD 60
           LI+ Y K  +IE A  ++  M  K      V  N++  G + +H   E A  L+ EM+  
Sbjct: 265 LIDMYSKCGDIEDARCVFDGMPEK----TTVAWNSMLAG-YALHGYSEEALCLYYEMRDS 319

Query: 61  GVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIA 120
           GV+ D  T++I I    +   +  + +    L      LDI A + L+D   K GR+E A
Sbjct: 320 GVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDA 379

Query: 121 LELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITF 174
             +F  +PR     ++++++ +I G  N G+  KA ++F  M    VAPN +TF
Sbjct: 380 RNVFDRMPR----KNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTF 429

Length = 697

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

 Score = 64.5 bits (157), Expect = 6e-12
 Identities = 47/219 (21%), Positives = 97/219 (44%), Gaps = 10/219 (4%)

Query: 2   LINGYCKNKEIEGALNLYSEMLSKGIK--PDV---VIHNTLFIGLFEIHQVERAFKLFDE 56
           L+       +++ A  +Y  +    IK  P+V    +++    G       + A  ++D+
Sbjct: 585 LMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKG-----DWDFALSIYDD 639

Query: 57  MQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGR 116
           M++ GV  D   ++  +D     G + ++ E+ +  R    +L   +YS L+     +  
Sbjct: 640 MKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKN 699

Query: 117 LEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGT 176
            + ALEL+  +    L   V T + +I  L    Q+ KA ++  +M+   + PN IT+  
Sbjct: 700 WKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSI 759

Query: 177 LIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDL 215
           L+    R ++    ++LL + KE  + P+  +   +  L
Sbjct: 760 LLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGL 798

Length = 1060

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

 Score = 64.5 bits (157), Expect = 6e-12
 Identities = 60/249 (24%), Positives = 99/249 (39%), Gaps = 47/249 (18%)

Query: 1   ILINGYCKNKEIEGALNLYSEMLSKGIKPDVV--------------------IH------ 34
           +L+ GY K    + AL LY  ML  G++PDV                     +H      
Sbjct: 157 VLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRF 216

Query: 35  ---------NTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVES 85
                    N L     +   V  A  +FD M R     D  ++   I G  +NG  +E 
Sbjct: 217 GFELDVDVVNALITMYVKCGDVVSARLVFDRMPR----RDCISWNAMISGYFENGECLEG 272

Query: 86  VELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHG 145
           +ELF T+R L  + D+   + +I      G   +  E+   + +     DV   + +I  
Sbjct: 273 LELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQM 332

Query: 146 LYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPD 205
             + G   +A  +F  ME      + +++  +I G+ +   P K +E    M++ NV PD
Sbjct: 333 YLSLGSWGEAEKVFSRMETK----DAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPD 388

Query: 206 ----ASIVS 210
               AS++S
Sbjct: 389 EITIASVLS 397

Length = 857

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

 Score = 57.4 bits (140), Expect = 2e-11
 Identities = 22/47 (46%), Positives = 33/47 (70%)

Query: 100 DIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGL 146
           D+  Y+ LIDG CK G++E AL+LF+ + +  +  +V TYSI+I GL
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 48

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

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

 Score = 63.0 bits (153), Expect = 2e-11
 Identities = 53/221 (23%), Positives = 101/221 (45%), Gaps = 24/221 (10%)

Query: 7   CKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADT 66
             +++I+GAL +   +   G+K D  ++ TL     +  +V+  F++F EM   GV A+ 
Sbjct: 448 ASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANV 507

Query: 67  RTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELF-- 124
            T+   IDG  + G + ++   +  +R    + D   ++ LI    +SG ++ A ++   
Sbjct: 508 HTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAE 567

Query: 125 ---HSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAV--APNVITFGTLIH 179
               + P   +  D +T   ++    N GQ+D+A +++  + E  +   P V T      
Sbjct: 568 MKAETHP---IDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYT------ 618

Query: 180 GFIRINEPSK------VIELLHKMKEKNVMPDASIVSIVVD 214
             I +N  S+       + +   MK+K V PD    S +VD
Sbjct: 619 --IAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVD 657

Length = 1060

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

 Score = 63.0 bits (153), Expect = 2e-11
 Identities = 45/212 (21%), Positives = 93/212 (43%), Gaps = 10/212 (4%)

Query: 2   LINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDG 61
           LI+G  +  ++  A   Y  M SK +KPD V+ N L     +   V+RAF +  EM+ + 
Sbjct: 513 LIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAET 572

Query: 62  --VAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQA----YSCLIDGLCKSG 115
             +  D  T    +      G +  + E+++ +     E +I+     Y+  ++   + G
Sbjct: 573 HPIDPDHITVGALMKACANAGQVDRAKEVYQMIH----EYNIKGTPEVYTIAVNSCSQKG 628

Query: 116 RLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFG 175
             + AL ++  + +  +  D V +S ++    + G +DKA ++  D  +  +    +++ 
Sbjct: 629 DWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYS 688

Query: 176 TLIHGFIRINEPSKVIELLHKMKEKNVMPDAS 207
           +L+          K +EL   +K   + P  S
Sbjct: 689 SLMGACSNAKNWKKALELYEDIKSIKLRPTVS 720

Length = 1060

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

 Score = 59.5 bits (144), Expect = 3e-10
 Identities = 49/211 (23%), Positives = 82/211 (38%), Gaps = 45/211 (21%)

Query: 10  KEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEM-QRDGVAADTRT 68
           K I     +Y  + S G +PD  + N + +   +   +  A +LFDEM +R+       +
Sbjct: 137 KSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPERNLA-----S 191

Query: 69  YTIFIDGLCKNGYIVESVELFRTL-----------------------------RILKCEL 99
           +   I GL   G   E+  LFR +                             ++  C L
Sbjct: 192 WGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVL 251

Query: 100 DIQAY-----SC-LIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMD 153
                     SC LID   K G +E A  +F  +P        V ++ M+ G    G  +
Sbjct: 252 KTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPE----KTTVAWNSMLAGYALHGYSE 307

Query: 154 KAHDLFLDMEENAVAPNVITFGTLIHGFIRI 184
           +A  L+ +M ++ V+ +  TF  +I  F R+
Sbjct: 308 EALCLYYEMRDSGVSIDQFTFSIMIRIFSRL 338

Length = 697

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

 Score = 48.9 bits (118), Expect = 2e-08
 Identities = 16/50 (32%), Positives = 33/50 (66%)

Query: 169 PNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAK 218
           P+V+T+ TLI G+ +  +  + ++L ++MK++ + P+    SI++D L 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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 44.8 bits (107), Expect = 4e-07
 Identities = 16/31 (51%), Positives = 21/31 (67%)

Query: 1  ILINGYCKNKEIEGALNLYSEMLSKGIKPDV 31
           LI+G CK   +E AL L+ EM  +GI+PDV
Sbjct: 5  TLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

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

 Score = 49.5 bits (118), Expect = 7e-07
 Identities = 40/154 (25%), Positives = 69/154 (44%), Gaps = 3/154 (1%)

Query: 52  KLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGL 111
            L ++M++ G+    + Y       CK    V+  E FR  ++++    +  ++ L+   
Sbjct: 391 DLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVK--EAFRFAKLIR-NPTLSTFNMLMSVC 447

Query: 112 CKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNV 171
             S  ++ AL +   +    L AD   Y+ +I      G++D   ++F +M    V  NV
Sbjct: 448 ASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANV 507

Query: 172 ITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPD 205
            TFG LI G  R  + +K       M+ KNV PD
Sbjct: 508 HTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPD 541

Length = 1060

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

 Score = 42.3 bits (101), Expect = 4e-06
 Identities = 14/31 (45%), Positives = 18/31 (58%)

Query: 60 DGVAADTRTYTIFIDGLCKNGYIVESVELFR 90
           G+  D  TY   IDGLC+ G + E+VEL  
Sbjct: 1  KGLKPDVVTYNTLIDGLCRAGRVDEAVELLD 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

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

 Score = 40.8 bits (97), Expect = 1e-05
 Identities = 15/32 (46%), Positives = 22/32 (68%)

Query: 132 LVADVVTYSIMIHGLYNDGQMDKAHDLFLDME 163
           L  DVVTY+ +I GL   G++D+A +L  +ME
Sbjct: 3   LKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 34

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

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

 Score = 40.8 bits (97), Expect = 1e-05
 Identities = 13/28 (46%), Positives = 21/28 (75%)

Query: 97  CELDIQAYSCLIDGLCKSGRLEIALELF 124
            + D+  Y+ LIDGLC++GR++ A+EL 
Sbjct: 3   LKPDVVTYNTLIDGLCRAGRVDEAVELL 30

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

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

 Score = 44.1 bits (104), Expect = 3e-05
 Identities = 38/182 (20%), Positives = 78/182 (42%), Gaps = 8/182 (4%)

Query: 2   LINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDG 61
           LI+   K+ +++    ++ EM++ G++ +V     L  G     QV +AF  +  M+   
Sbjct: 478 LISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKN 537

Query: 62  VAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCEL-----DIQAYSCLIDGLCKSGR 116
           V  D   +   I    ++G +  +   F  L  +K E      D      L+     +G+
Sbjct: 538 VKPDRVVFNALISACGQSGAVDRA---FDVLAEMKAETHPIDPDHITVGALMKACANAGQ 594

Query: 117 LEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGT 176
           ++ A E++  +    +      Y+I ++     G  D A  ++ DM++  V P+ + F  
Sbjct: 595 VDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSA 654

Query: 177 LI 178
           L+
Sbjct: 655 LV 656

Length = 1060

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

 Score = 39.0 bits (92), Expect = 5e-05
 Identities = 14/27 (51%), Positives = 19/27 (70%)

Query: 1  ILINGYCKNKEIEGALNLYSEMLSKGI 27
           LI+GYCK  ++E AL L+ EM  KG+
Sbjct: 5  SLISGYCKAGKLEEALELFKEMKEKGV 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 = 39.0 bits (92), Expect = 6e-05
 Identities = 14/35 (40%), Positives = 25/35 (71%)

Query: 137 VTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNV 171
           VTY+ +I GL   G++++A +LF +M+E  + P+V
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

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

 Score = 38.5 bits (91), Expect = 8e-05
 Identities = 18/34 (52%), Positives = 24/34 (70%)

Query: 25 KGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQ 58
          KG+KPDVV +NTL  GL    +V+ A +L DEM+
Sbjct: 1  KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 34

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

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

 Score = 37.8 bits (89), Expect = 1e-04
 Identities = 11/29 (37%), Positives = 20/29 (68%)

Query: 137 VTYSIMIHGLYNDGQMDKAHDLFLDMEEN 165
           VTY+ +I G    G++++A +LF +M+E 
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEK 29

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

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

 Score = 41.4 bits (97), Expect = 3e-04
 Identities = 41/184 (22%), Positives = 79/184 (42%), Gaps = 7/184 (3%)

Query: 2   LINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLF-EIHQVERAFKLFDEMQRD 60
           ++ GY  +   E AL LY EM   G+  D    + + I +F  +  +E A +    + R 
Sbjct: 296 MLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIM-IRIFSRLALLEHAKQAHAGLIRT 354

Query: 61  GVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIA 120
           G   D    T  +D   K G + ++  +F  +       ++ +++ LI G    GR   A
Sbjct: 355 GFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRK----NLISWNALIAGYGNHGRGTKA 410

Query: 121 LELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEEN-AVAPNVITFGTLIH 179
           +E+F  +    +  + VT+  ++      G  ++  ++F  M EN  + P  + +  +I 
Sbjct: 411 VEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIE 470

Query: 180 GFIR 183
              R
Sbjct: 471 LLGR 474

Length = 697

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

 Score = 37.1 bits (87), Expect = 3e-04
 Identities = 12/35 (34%), Positives = 20/35 (57%)

Query: 172 ITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDA 206
           +T+ TLI G  +     + +EL  +MKE+ + PD 
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

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

 Score = 36.2 bits (85), Expect = 5e-04
 Identities = 12/32 (37%), Positives = 20/32 (62%)

Query: 167 VAPNVITFGTLIHGFIRINEPSKVIELLHKMK 198
           + P+V+T+ TLI G  R     + +ELL +M+
Sbjct: 3   LKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 34

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

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

 Score = 36.0 bits (84), Expect = 6e-04
 Identities = 9/29 (31%), Positives = 15/29 (51%)

Query: 1  ILINGYCKNKEIEGALNLYSEMLSKGIKP 29
           L+    K  + + AL +  EM + G+KP
Sbjct: 6  ALLLALAKAGDPDLALAVLEEMKASGLKP 34

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

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

 Score = 35.1 bits (82), Expect = 0.001
 Identities = 11/31 (35%), Positives = 20/31 (64%)

Query: 172 ITFGTLIHGFIRINEPSKVIELLHKMKEKNV 202
           +T+ +LI G+ +  +  + +EL  +MKEK V
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 = 34.7 bits (81), Expect = 0.002
 Identities = 15/35 (42%), Positives = 22/35 (62%)

Query: 67  RTYTIFIDGLCKNGYIVESVELFRTLRILKCELDI 101
            TY   IDGLCK G + E++ELF+ ++    E D+
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|215563 PLN03081, PLN03081, pentatricopeptide (PPR) repeat-containing protein; Provisional

 Score = 37.9 bits (88), Expect = 0.003
 Identities = 29/128 (22%), Positives = 60/128 (46%), Gaps = 5/128 (3%)

Query: 2   LINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDG 61
           L++ Y K   +E A N++  M  K    +++  N L  G     +  +A ++F+ M  +G
Sbjct: 366 LVDLYSKWGRMEDARNVFDRMPRK----NLISWNALIAGYGNHGRGTKAVEMFERMIAEG 421

Query: 62  VAADTRTYTIFIDGLCKNGYIVESVELFRTL-RILKCELDIQAYSCLIDGLCKSGRLEIA 120
           VA +  T+   +     +G   +  E+F+++    + +     Y+C+I+ L + G L+ A
Sbjct: 422 VAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEA 481

Query: 121 LELFHSLP 128
             +    P
Sbjct: 482 YAMIRRAP 489

Length = 697

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

 Score = 34.0 bits (79), Expect = 0.003
 Identities = 15/35 (42%), Positives = 21/35 (60%)

Query: 32 VIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADT 66
          V +NTL  GL +  +VE A +LF EM+  G+  D 
Sbjct: 1  VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

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

 Score = 34.0 bits (79), Expect = 0.003
 Identities = 14/27 (51%), Positives = 18/27 (66%)

Query: 103 AYSCLIDGLCKSGRLEIALELFHSLPR 129
            Y+ LI G CK+G+LE ALELF  +  
Sbjct: 2   TYNSLISGYCKAGKLEEALELFKEMKE 28

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

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

 Score = 34.5 bits (80), Expect = 0.003
 Identities = 7/34 (20%), Positives = 16/34 (47%)

Query: 171 VITFGTLIHGFIRINEPSKVIELLHKMKEKNVMP 204
           + T+  L+    +  +P   + +L +MK   + P
Sbjct: 1   LETYNALLLALAKAGDPDLALAVLEEMKASGLKP 34

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

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

 Score = 33.6 bits (78), Expect = 0.004
 Identities = 18/34 (52%), Positives = 23/34 (67%)

Query: 103 AYSCLIDGLCKSGRLEIALELFHSLPRGVLVADV 136
            Y+ LIDGLCK+GR+E ALELF  +    +  DV
Sbjct: 2   TYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	244
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.89
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.87
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.82
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.81
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.73
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.73
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.72
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.68
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.66
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.65
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.65
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.65
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.63
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.61
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.61
PRK12370	553	invasion protein regulator; Provisional	99.6
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.59
KOG1126	638	consensus DNA-binding cell division cycle control	99.59
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.59
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.58
PF13041	50	PPR_2: PPR repeat family	99.58
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.57
PF13041	50	PPR_2: PPR repeat family	99.57
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.56
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.56
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.55
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.54
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.53
KOG1129	478	consensus TPR repeat-containing protein [General f	99.51
KOG1126	638	consensus DNA-binding cell division cycle control	99.51
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.51
PRK12370	553	invasion protein regulator; Provisional	99.49
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.49
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.49
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.46
KOG2003	840	consensus TPR repeat-containing protein [General f	99.45
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.45
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.42
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.42
PRK11189	296	lipoprotein NlpI; Provisional	99.37
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.37
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.36
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.36
PRK14574	822	hmsH outer membrane protein; Provisional	99.35
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.34
PRK11189	296	lipoprotein NlpI; Provisional	99.32
KOG1129	478	consensus TPR repeat-containing protein [General f	99.26
PRK14574	822	hmsH outer membrane protein; Provisional	99.25
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.23
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.23
KOG2003	840	consensus TPR repeat-containing protein [General f	99.23
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.19
KOG2076	895	consensus RNA polymerase III transcription factor	99.18
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.17
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.16
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.14
PLN02789	320	farnesyltranstransferase	99.1
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.09
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.08
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.06
PF12854	34	PPR_1: PPR repeat	99.05
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.04
PF12854	34	PPR_1: PPR repeat	99.04
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	99.04
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	99.01
KOG2076	895	consensus RNA polymerase III transcription factor	99.01
KOG1128	777	consensus Uncharacterized conserved protein, conta	99.01
PRK10370	198	formate-dependent nitrite reductase complex subuni	99.0
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.0
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.0
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.98
KOG0495	913	consensus HAT repeat protein [RNA processing and m	98.98
KOG0547	606	consensus Translocase of outer mitochondrial membr	98.97
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	98.97
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.94
KOG1125	579	consensus TPR repeat-containing protein [General f	98.92
PRK15359	144	type III secretion system chaperone protein SscB;	98.91
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.9
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.9
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.89
PRK15359	144	type III secretion system chaperone protein SscB;	98.89
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.89
KOG0495	913	consensus HAT repeat protein [RNA processing and m	98.86
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.85
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.82
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.82
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.8
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.8
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.79
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.79
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.78
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.74
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.72
KOG1915	677	consensus Cell cycle control protein (crooked neck	98.71
PLN02789	320	farnesyltranstransferase	98.71
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.68
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.67
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.61
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.61
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.61
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.61
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.6
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.6
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.59
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.57
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.57
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.55
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.55
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.55
KOG1125	579	consensus TPR repeat-containing protein [General f	98.54
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.54
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.52
KOG1915	677	consensus Cell cycle control protein (crooked neck	98.52
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.51
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.51
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	98.47
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	98.46
PRK04841	903	transcriptional regulator MalT; Provisional	98.42
PRK04841	903	transcriptional regulator MalT; Provisional	98.42
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.4
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.39
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.38
KOG2047	835	consensus mRNA splicing factor [RNA processing and	98.37
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.36
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.35
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.35
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.34
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.32
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.31
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.31
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.31
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.31
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.3
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	98.29
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.27
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	98.26
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	98.26
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.25
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.25
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	98.25
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	98.23
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.23
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.23
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	98.22
KOG2047	835	consensus mRNA splicing factor [RNA processing and	98.21
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	98.2
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	98.2
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.2
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.18
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	98.16
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	98.16
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	98.12
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.12
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	98.08
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	98.07
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.07
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	98.03
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	98.02
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.0
PF12688	120	TPR_5: Tetratrico peptide repeat	97.99
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	97.99
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	97.95
KOG3616	1636	consensus Selective LIM binding factor [Transcript	97.94
KOG2376	652	consensus Signal recognition particle, subunit Srp	97.93
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	97.93
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.92
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	97.92
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.91
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	97.91
PF12688	120	TPR_5: Tetratrico peptide repeat	97.91
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	97.88
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	97.86
KOG0553	304	consensus TPR repeat-containing protein [General f	97.86
KOG0553	304	consensus TPR repeat-containing protein [General f	97.84
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.83
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.81
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.77
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.76
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.75
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.74
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.74
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	97.74
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.72
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.7
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.64
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.62
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.62
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	97.61
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.6
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	97.58
PRK10803	263	tol-pal system protein YbgF; Provisional	97.56
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.55
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.53
PRK10803	263	tol-pal system protein YbgF; Provisional	97.52
PF13371	73	TPR_9: Tetratricopeptide repeat	97.5
PF13371	73	TPR_9: Tetratricopeptide repeat	97.45
PRK15331	165	chaperone protein SicA; Provisional	97.44
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.41
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.37
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	97.21
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.2
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	97.2
KOG2610	491	consensus Uncharacterized conserved protein [Funct	97.17
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.09
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.07
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	97.04
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	97.03
KOG2610	491	consensus Uncharacterized conserved protein [Funct	97.01
smart00299	140	CLH Clathrin heavy chain repeat homology.	96.98
PRK15331	165	chaperone protein SicA; Provisional	96.95
KOG3941	406	consensus Intermediate in Toll signal transduction	96.95
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.93
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.89
COG3898	531	Uncharacterized membrane-bound protein [Function u	96.87
COG4700	251	Uncharacterized protein conserved in bacteria cont	96.86
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.85
KOG3941	406	consensus Intermediate in Toll signal transduction	96.84
KOG1585	308	consensus Protein required for fusion of vesicles	96.83
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.81
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.72
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.69
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.68
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	96.68
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.66
KOG2041	1189	consensus WD40 repeat protein [General function pr	96.59
COG4105	254	ComL DNA uptake lipoprotein [General function pred	96.55
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	96.53
smart00299	140	CLH Clathrin heavy chain repeat homology.	96.48
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	96.44
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	96.43
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.4
PF13428	44	TPR_14: Tetratricopeptide repeat	96.33
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	96.22
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	96.2
KOG4555	175	consensus TPR repeat-containing protein [Function	96.2
COG4105	254	ComL DNA uptake lipoprotein [General function pred	96.14
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	96.13
PF13512	142	TPR_18: Tetratricopeptide repeat	96.11
COG3629	280	DnrI DNA-binding transcriptional activator of the	96.09
COG3629	280	DnrI DNA-binding transcriptional activator of the	96.08
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	96.08
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	96.06
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	96.0
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	95.94
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	95.94
PF13428	44	TPR_14: Tetratricopeptide repeat	95.91
COG3118	304	Thioredoxin domain-containing protein [Posttransla	95.75
KOG4555	175	consensus TPR repeat-containing protein [Function	95.73
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	95.7
KOG2041	1189	consensus WD40 repeat protein [General function pr	95.61
KOG4570	418	consensus Uncharacterized conserved protein [Funct	95.6
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	95.59
COG0457	291	NrfG FOG: TPR repeat [General function prediction	95.49
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	95.28
COG3118	304	Thioredoxin domain-containing protein [Posttransla	95.27
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	95.26
KOG4570	418	consensus Uncharacterized conserved protein [Funct	95.24
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	95.18
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	95.16
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	95.13
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	95.09
COG0457	291	NrfG FOG: TPR repeat [General function prediction	95.08
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	95.0
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	94.95
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	94.92
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	94.89
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	94.84
KOG1550	552	consensus Extracellular protein SEL-1 and related	94.81
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	94.73
COG3898	531	Uncharacterized membrane-bound protein [Function u	94.63
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	94.62
COG1747	711	Uncharacterized N-terminal domain of the transcrip	94.6
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	94.51
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	94.48
KOG1585	308	consensus Protein required for fusion of vesicles	94.47
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	94.39
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	94.38
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	94.37
PF13512	142	TPR_18: Tetratricopeptide repeat	94.35
PF13431	34	TPR_17: Tetratricopeptide repeat	94.28
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	93.88
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	93.63
COG1747	711	Uncharacterized N-terminal domain of the transcrip	93.6
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	93.59
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	93.58
PRK11906	458	transcriptional regulator; Provisional	93.56
PRK11906	458	transcriptional regulator; Provisional	93.55
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	93.26
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	93.12
PF13431	34	TPR_17: Tetratricopeptide repeat	93.1
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	93.05
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	92.74
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	92.69
PF13929	292	mRNA_stabil: mRNA stabilisation	92.44
KOG1586	288	consensus Protein required for fusion of vesicles	92.33
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	92.32
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	92.19
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	92.15
PF13929	292	mRNA_stabil: mRNA stabilisation	91.52
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	91.48
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	91.35
PF13762	145	MNE1: Mitochondrial splicing apparatus component	91.33
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	91.29
KOG4077	149	consensus Cytochrome c oxidase, subunit Va/COX6 [E	90.84
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	90.6
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	90.54
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	90.12
COG4455	273	ImpE Protein of avirulence locus involved in tempe	90.0
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	89.82
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	89.67
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	89.67
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	89.67
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	89.66
COG0735	145	Fur Fe2+/Zn2+ uptake regulation proteins [Inorgani	89.55
COG4455	273	ImpE Protein of avirulence locus involved in tempe	89.51
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	89.42
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	89.22
KOG1550	552	consensus Extracellular protein SEL-1 and related	88.93
KOG4077	149	consensus Cytochrome c oxidase, subunit Va/COX6 [E	88.66
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	88.43
KOG0686	466	consensus COP9 signalosome, subunit CSN1 [Posttran	87.98
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	87.97
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	87.9
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	87.56
KOG4648	536	consensus Uncharacterized conserved protein, conta	87.52
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	87.34
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	87.29
KOG4642	284	consensus Chaperone-dependent E3 ubiquitin protein	87.23
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	87.19
PF11848	48	DUF3368: Domain of unknown function (DUF3368); Int	87.04
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	86.9
KOG4234	271	consensus TPR repeat-containing protein [General f	86.77
PF14689	62	SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical do	86.58
PF07575	566	Nucleopor_Nup85: Nup85 Nucleoporin; InterPro: IPR0	86.2
COG3947	361	Response regulator containing CheY-like receiver a	86.13
PF11838	324	ERAP1_C: ERAP1-like C-terminal domain; InterPro: I	86.12
PF11848	48	DUF3368: Domain of unknown function (DUF3368); Int	85.89
KOG1941	518	consensus Acetylcholine receptor-associated protei	85.77
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	84.78
KOG4234	271	consensus TPR repeat-containing protein [General f	84.7
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	84.42
COG0735	145	Fur Fe2+/Zn2+ uptake regulation proteins [Inorgani	83.53
PRK10564	303	maltose regulon periplasmic protein; Provisional	83.24
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	83.22
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	83.08
COG5108	1117	RPO41 Mitochondrial DNA-directed RNA polymerase [T	82.81
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	82.57
PF11663	140	Toxin_YhaV: Toxin with endonuclease activity YhaV;	82.41
PF08424	321	NRDE-2: NRDE-2, necessary for RNA interference; In	82.38
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	82.22
PF11846	193	DUF3366: Domain of unknown function (DUF3366); Int	81.81
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	81.4
PHA02875	413	ankyrin repeat protein; Provisional	81.39
PF11846	193	DUF3366: Domain of unknown function (DUF3366); Int	81.38
PF13762	145	MNE1: Mitochondrial splicing apparatus component	80.9
PRK09687	280	putative lyase; Provisional	80.88
KOG4507	886	consensus Uncharacterized conserved protein, conta	80.73
KOG4567	370	consensus GTPase-activating protein [General funct	80.73
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	80.49
PF14689	62	SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical do	80.43
KOG4648	536	consensus Uncharacterized conserved protein, conta	80.07
COG5108	1117	RPO41 Mitochondrial DNA-directed RNA polymerase [T	80.06

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=2e-45  Score=309.02  Aligned_cols=231  Identities=17%  Similarity=0.303  Sum_probs=102.7

Q ss_pred             hhhhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCc
Q 046446            2 LINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGY   81 (244)
Q Consensus         2 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~   81 (244)
                      ||.+|++.|+++.|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|+
T Consensus       478 LI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~  557 (1060)
T PLN03218        478 LISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGA  557 (1060)
T ss_pred             HHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCC
Confidence            34444444444444444444444444444444444444444444444444444444444444444444444444444444


Q ss_pred             HHHHHHHHHHHHH--hCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHH
Q 046446           82 IVESVELFRTLRI--LKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLF  159 (244)
Q Consensus        82 ~~~a~~~~~~~~~--~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~  159 (244)
                      +++|.++|++|..  .|+.||..+|+++|.+|++.|++++|.++|+.|.+.|+.|+..+|+.+|.+|++.|++++|.++|
T Consensus       558 ~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf  637 (1060)
T PLN03218        558 VDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIY  637 (1060)
T ss_pred             HHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHH
Confidence            4444444444433  23344444444444444444444444444444444444444444444444444444444444444


Q ss_pred             HHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchhhhhhh
Q 046446          160 LDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFTVH  232 (244)
Q Consensus       160 ~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  232 (244)
                      ++|.+.|+.||..+|+.++.+|++.|++++|.+++++|.+.|+.||..+|+.||.+|++.|++++|.++|+.|
T Consensus       638 ~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM  710 (1060)
T PLN03218        638 DDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDI  710 (1060)
T ss_pred             HHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHH
Confidence            4444444444444444444444444444444444444444444444444444444444444444444444433

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=2e-45  Score=308.95  Aligned_cols=234  Identities=20%  Similarity=0.360  Sum_probs=154.2

Q ss_pred             hhhhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHH--cCCCCChhHHHHHHHHHHhC
Q 046446            2 LINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQR--DGVAADTRTYTIFIDGLCKN   79 (244)
Q Consensus         2 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~--~~~~~~~~~~~~ll~~~~~~   79 (244)
                      ||.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|..  .|+.||..+|+.++.+|++.
T Consensus       513 LI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~  592 (1060)
T PLN03218        513 LIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANA  592 (1060)
T ss_pred             HHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHC
Confidence            5666666666666666666666666666666666666666666666666666666654  45666666666666666666


Q ss_pred             CcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHH
Q 046446           80 GYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLF  159 (244)
Q Consensus        80 ~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~  159 (244)
                      |++++|.++|++|.+.|++|+..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.++.+|++.|++++|.+++
T Consensus       593 G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~  672 (1060)
T PLN03218        593 GQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEIL  672 (1060)
T ss_pred             CCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHH
Confidence            66666666666666666666666666666666666666666666666666666666666666666666666666666666


Q ss_pred             HHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchhhhhhhhhh
Q 046446          160 LDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFTVHERQ  235 (244)
Q Consensus       160 ~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  235 (244)
                      ++|.+.|+.||..+|+.++.+|++.|++++|.++|++|.+.|+.||..+|+.||.+|++.|+.++|+++|+.|.+.
T Consensus       673 ~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~  748 (1060)
T PLN03218        673 QDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRL  748 (1060)
T ss_pred             HHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc
Confidence            6666666666666666666666666666666666666666666666666666666666666666666666666544

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

Probab=100.00  E-value=5.7e-42  Score=284.11  Aligned_cols=225  Identities=26%  Similarity=0.364  Sum_probs=213.8

Q ss_pred             ChhhhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCC
Q 046446            1 ILINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNG   80 (244)
Q Consensus         1 ~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~   80 (244)
                      +||++|++.|++++|.++|++|.    ++|..+||.+|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|
T Consensus       264 ~Li~~y~k~g~~~~A~~vf~~m~----~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g  339 (697)
T PLN03081        264 ALIDMYSKCGDIEDARCVFDGMP----EKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLA  339 (697)
T ss_pred             HHHHHHHHCCCHHHHHHHHHhCC----CCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcc
Confidence            37899999999999999999996    46899999999999999999999999999999999999999999999999999


Q ss_pred             cHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHH
Q 046446           81 YIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFL  160 (244)
Q Consensus        81 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~  160 (244)
                      ++++|.+++..|.+.|++|+..+|++|+.+|++.|++++|.++|++|.+    ||..+||+||.+|++.|+.++|.++|+
T Consensus       340 ~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~----~d~~t~n~lI~~y~~~G~~~~A~~lf~  415 (697)
T PLN03081        340 LLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR----KNLISWNALIAGYGNHGRGTKAVEMFE  415 (697)
T ss_pred             chHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCC----CCeeeHHHHHHHHHHcCCHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999975    688999999999999999999999999


Q ss_pred             HHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHH-CCCCCChhhHHHHHHHHHhccccccchhhhhhhh
Q 046446          161 DMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKE-KNVMPDASIVSIVVDLLAKNEISLNSLPSFTVHE  233 (244)
Q Consensus       161 ~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  233 (244)
                      +|.+.|+.||..||+.++.+|.+.|..++|.++|+.|.+ .|+.|+..+|+.++++|++.|+.++|.++++.+.
T Consensus       416 ~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~~~  489 (697)
T PLN03081        416 RMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRAP  489 (697)
T ss_pred             HHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHHHCC
Confidence            999999999999999999999999999999999999986 5999999999999999999999999999988764

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

Probab=100.00  E-value=1.1e-41  Score=282.36  Aligned_cols=233  Identities=21%  Similarity=0.306  Sum_probs=207.3

Q ss_pred             ChhhhhhhcCChhHHHHHHHHHHhCCCCCChh-----------------------------------hHHHHHHHHhhhc
Q 046446            1 ILINGYCKNKEIEGALNLYSEMLSKGIKPDVV-----------------------------------IHNTLFIGLFEIH   45 (244)
Q Consensus         1 ~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-----------------------------------~~~~li~~~~~~~   45 (244)
                      +||.+|++.|++++|.++|++|.+.|+.|+..                                   +|+.+|.+|++.|
T Consensus       194 ~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g  273 (697)
T PLN03081        194 TIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCG  273 (697)
T ss_pred             HHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCC
Confidence            47889999999999999999998776666544                                   5567777888888


Q ss_pred             hHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHH
Q 046446           46 QVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFH  125 (244)
Q Consensus        46 ~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~  125 (244)
                      ++++|.++|++|.+    +|..+|+.++.+|++.|++++|.++|++|.+.|+.||..||++++.+|++.|++++|.+++.
T Consensus       274 ~~~~A~~vf~~m~~----~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~  349 (697)
T PLN03081        274 DIEDARCVFDGMPE----KTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHA  349 (697)
T ss_pred             CHHHHHHHHHhCCC----CChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHH
Confidence            88888888888853    58888999999999999999999999999888989999999999999999999999999999


Q ss_pred             hcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC
Q 046446          126 SLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPD  205 (244)
Q Consensus       126 ~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  205 (244)
                      .|.+.|+.||..+|++|+.+|++.|++++|.++|++|.+    ||..+|+.||.+|++.|+.++|.++|++|.+.|+.||
T Consensus       350 ~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~----~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd  425 (697)
T PLN03081        350 GLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR----KNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPN  425 (697)
T ss_pred             HHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCC----CCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCC
Confidence            999999899999999999999999999999999998864    7999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHhccccccchhhhhhhhhhhccccc
Q 046446          206 ASIVSIVVDLLAKNEISLNSLPSFTVHERQEEVDES  241 (244)
Q Consensus       206 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  241 (244)
                      ..||+.++.+|.+.|+.+++.++|+.|.+...+.|+
T Consensus       426 ~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~  461 (697)
T PLN03081        426 HVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPR  461 (697)
T ss_pred             HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCC
Confidence            999999999999999999999999999887666664

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=3.5e-40  Score=279.10  Aligned_cols=230  Identities=20%  Similarity=0.279  Sum_probs=215.6

Q ss_pred             ChhhhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCC
Q 046446            1 ILINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNG   80 (244)
Q Consensus         1 ~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~   80 (244)
                      +||.+|++.|+++.|.++|++|.    .||..+||.+|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|
T Consensus       227 ~Li~~y~k~g~~~~A~~lf~~m~----~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g  302 (857)
T PLN03077        227 ALITMYVKCGDVVSARLVFDRMP----RRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLG  302 (857)
T ss_pred             HHHHHHhcCCCHHHHHHHHhcCC----CCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcC
Confidence            47889999999999999999987    46889999999999999999999999999999999999999999999999999


Q ss_pred             cHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHH
Q 046446           81 YIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFL  160 (244)
Q Consensus        81 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~  160 (244)
                      +.+.+.+++..|.+.|+.||..+|++|+.+|++.|++++|.++|++|..    ||..+|+++|.+|++.|++++|.++|+
T Consensus       303 ~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~----~d~~s~n~li~~~~~~g~~~~A~~lf~  378 (857)
T PLN03077        303 DERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMET----KDAVSWTAMISGYEKNGLPDKALETYA  378 (857)
T ss_pred             ChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCC----CCeeeHHHHHHHHHhCCCHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999974    688899999999999999999999999


Q ss_pred             HHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchhhhhhhhhhhcc
Q 046446          161 DMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFTVHERQEEV  238 (244)
Q Consensus       161 ~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  238 (244)
                      +|.+.|+.||..||+.++.+|++.|+++.|.++++.|.+.|+.|+..+++.|+++|++.|+.++|.++|+.|.+.+.+
T Consensus       379 ~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~v  456 (857)
T PLN03077        379 LMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVI  456 (857)
T ss_pred             HHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCee
Confidence            999999999999999999999999999999999999999999999999999999999999999999999998765443

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=7e-39  Score=271.23  Aligned_cols=227  Identities=24%  Similarity=0.358  Sum_probs=129.0

Q ss_pred             hhhhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCc
Q 046446            2 LINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGY   81 (244)
Q Consensus         2 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~   81 (244)
                      ||.+|++.|++++|.++|++|.+.|+.||..+|+.++.+|++.|+++.|.++++.|.+.|+.|+..+|+.|+.+|++.|+
T Consensus       360 li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~  439 (857)
T PLN03077        360 MISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKC  439 (857)
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCC
Confidence            44555555555555555555555555555555555555555555555555555555555555555555555555555555


Q ss_pred             HHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCcc----------------------------
Q 046446           82 IVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLV----------------------------  133 (244)
Q Consensus        82 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~----------------------------  133 (244)
                      +++|.++|++|.+    +|..+|+++|.+|++.|+.++|..+|++|.. ++.                            
T Consensus       440 ~~~A~~vf~~m~~----~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~  514 (857)
T PLN03077        440 IDKALEVFHNIPE----KDVISWTSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAH  514 (857)
T ss_pred             HHHHHHHHHhCCC----CCeeeHHHHHHHHHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHH
Confidence            5555555554432    3344444444444444444444444444432 123                            


Q ss_pred             -------------------------------------ccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHH
Q 046446          134 -------------------------------------ADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGT  176 (244)
Q Consensus       134 -------------------------------------~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~  176 (244)
                                                           ||..+||++|.+|++.|+.++|.++|++|.+.|+.||..||+.
T Consensus       515 ~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~  594 (857)
T PLN03077        515 VLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFIS  594 (857)
T ss_pred             HHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhcCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHH
Confidence                                                 3444555666666666666666666666666666666666666


Q ss_pred             HHHHHHhcCChhHHHHHHHHHH-HCCCCCChhhHHHHHHHHHhccccccchhhhhhhh
Q 046446          177 LIHGFIRINEPSKVIELLHKMK-EKNVMPDASIVSIVVDLLAKNEISLNSLPSFTVHE  233 (244)
Q Consensus       177 l~~~~~~~g~~~~a~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  233 (244)
                      ++.+|.+.|++++|.++|++|. +.|+.|+..+|+.++++|.+.|+.++|.++++.|.
T Consensus       595 ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~~~eA~~~~~~m~  652 (857)
T PLN03077        595 LLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMP  652 (857)
T ss_pred             HHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCCHHHHHHHHHHCC
Confidence            6666666666666666666666 45666666666666666666666666666666653

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.89  E-value=3.4e-20  Score=145.09  Aligned_cols=229  Identities=12%  Similarity=0.064  Sum_probs=156.0

Q ss_pred             hhhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCCh----hHHHHHHHHHHh
Q 046446            3 INGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADT----RTYTIFIDGLCK   78 (244)
Q Consensus         3 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~----~~~~~ll~~~~~   78 (244)
                      ...|.+.|+++.|..+|+++.+.. +++..+++.++..+.+.|++++|.+.++.+.+.+..+..    ..+..+...+.+
T Consensus       114 a~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~  192 (389)
T PRK11788        114 GQDYLKAGLLDRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALA  192 (389)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHh
Confidence            455667777777777777776642 345566777777777777777777777777665433221    234456666677


Q ss_pred             CCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHH
Q 046446           79 NGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDL  158 (244)
Q Consensus        79 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~  158 (244)
                      .|++++|.+.++++.+.. +.+...+..+...+.+.|++++|.++++++...+......+++.++.+|...|++++|.+.
T Consensus       193 ~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~  271 (389)
T PRK11788        193 RGDLDAARALLKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEF  271 (389)
T ss_pred             CCCHHHHHHHHHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            777777777777777654 3445566677777777788888888877777653222245567777777788888888888


Q ss_pred             HHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHh---ccccccchhhhhhhhhh
Q 046446          159 FLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAK---NEISLNSLPSFTVHERQ  235 (244)
Q Consensus       159 ~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~g~~~~a~~~~~~~~~~  235 (244)
                      ++.+.+.  .|+...+..+...+.+.|++++|..+++++.+.  .|+..++..++..+..   .|+..+++..++.+.++
T Consensus       272 l~~~~~~--~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~  347 (389)
T PRK11788        272 LRRALEE--YPGADLLLALAQLLEEQEGPEAAQALLREQLRR--HPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGE  347 (389)
T ss_pred             HHHHHHh--CCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHHH
Confidence            8777764  355556677777777788888888888777665  4777777777766654   45777777777777765


Q ss_pred             hc
Q 046446          236 EE  237 (244)
Q Consensus       236 ~~  237 (244)
                      ..
T Consensus       348 ~~  349 (389)
T PRK11788        348 QL  349 (389)
T ss_pred             HH
Confidence            53

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.87  E-value=2.6e-19  Score=140.13  Aligned_cols=229  Identities=14%  Similarity=0.143  Sum_probs=150.5

Q ss_pred             hhhhhhcCChhHHHHHHHHHHhCCCCCC---hhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhC
Q 046446            3 INGYCKNKEIEGALNLYSEMLSKGIKPD---VVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKN   79 (244)
Q Consensus         3 i~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~   79 (244)
                      ...+.+.|++++|..+++.+...+..++   ...+..+...|...|+++.|..+|+++.+. .+++..++..++..+.+.
T Consensus        76 a~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~~~A~~~~~~~l~~-~~~~~~~~~~la~~~~~~  154 (389)
T PRK11788         76 GNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLLDRAEELFLQLVDE-GDFAEGALQQLLEIYQQE  154 (389)
T ss_pred             HHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHcC-CcchHHHHHHHHHHHHHh
Confidence            3456667777777777777666421111   234566666677777777777777777654 233556677777777777


Q ss_pred             CcHHHHHHHHHHHHHhCCCcc----HHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHH
Q 046446           80 GYIVESVELFRTLRILKCELD----IQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKA  155 (244)
Q Consensus        80 ~~~~~a~~~~~~~~~~~~~~~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a  155 (244)
                      |++++|.+.++.+.+.+..+.    ...+..+...+...|++++|...|+++.+.. +.+...+..+...+.+.|++++|
T Consensus       155 g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A  233 (389)
T PRK11788        155 KDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARALLKKALAAD-PQCVRASILLGDLALAQGDYAAA  233 (389)
T ss_pred             chHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHH
Confidence            777777777777766542221    1234456666677777777777777776543 23455666777777777888888


Q ss_pred             HHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchhhhhhhhhh
Q 046446          156 HDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFTVHERQ  235 (244)
Q Consensus       156 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  235 (244)
                      .++++++.+.+......+++.+..+|...|++++|...++++.+.  .|+...+..++..+.+.|++++|...++.+.+.
T Consensus       234 ~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~  311 (389)
T PRK11788        234 IEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEE--YPGADLLLALAQLLEEQEGPEAAQALLREQLRR  311 (389)
T ss_pred             HHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh
Confidence            887777776432222455677777777788888888888777765  355566677777788888888888777766543

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

Probab=99.82  E-value=1.5e-17  Score=142.72  Aligned_cols=220  Identities=10%  Similarity=0.024  Sum_probs=122.8

Q ss_pred             hhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHH
Q 046446            6 YCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVES   85 (244)
Q Consensus         6 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   85 (244)
                      +...|++++|.++++.+.+.+ +++...+..+...+...|++++|...|+++...+  |+..++..+..++.+.|++++|
T Consensus       679 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A  755 (899)
T TIGR02917       679 LLAAKRTESAKKIAKSLQKQH-PKAALGFELEGDLYLRQKDYPAAIQAYRKALKRA--PSSQNAIKLHRALLASGNTAEA  755 (899)
T ss_pred             HHHcCCHHHHHHHHHHHHhhC-cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHCCCHHHH
Confidence            333444444444444444332 2233344444444445555555555555544432  3334444455555555555555


Q ss_pred             HHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHc
Q 046446           86 VELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEEN  165 (244)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  165 (244)
                      .+.++++.+.. +.+..++..+...|...|++++|...|+++.+.. +.+..+++.+...+...|+ .+|...++.+.+.
T Consensus       756 ~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~  832 (899)
T TIGR02917       756 VKTLEAWLKTH-PNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKA-PDNAVVLNNLAWLYLELKD-PRALEYAEKALKL  832 (899)
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhh
Confidence            55555555443 3455555555566666666666666666655543 3445556666666666666 5566666655543


Q ss_pred             CCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchhhhhhhh
Q 046446          166 AVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFTVHE  233 (244)
Q Consensus       166 ~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  233 (244)
                      . +-+..++..+...+...|++++|...++++.+.+.. +..++..+..++.+.|+.++|.++++.+.
T Consensus       833 ~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  898 (899)
T TIGR02917       833 A-PNIPAILDTLGWLLVEKGEADRALPLLRKAVNIAPE-AAAIRYHLALALLATGRKAEARKELDKLL  898 (899)
T ss_pred             C-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-ChHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            2 123444556666667777777777777777776533 66777777777777777777777776653

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=99.81  E-value=4.2e-17  Score=139.98  Aligned_cols=226  Identities=12%  Similarity=0.093  Sum_probs=137.5

Q ss_pred             hhhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcH
Q 046446            3 INGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYI   82 (244)
Q Consensus         3 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~   82 (244)
                      ...+.+.|++++|..+++.+.+.. +.+...|..+...+...|++++|...|+++.+.. +.+...+..+..++.+.|++
T Consensus       574 ~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~  651 (899)
T TIGR02917       574 AQYYLGKGQLKKALAILNEAADAA-PDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNY  651 (899)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCH
Confidence            345555666666666666665542 3445566666666666666666666666665542 22445566666666666666


Q ss_pred             HHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHH
Q 046446           83 VESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDM  162 (244)
Q Consensus        83 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  162 (244)
                      ++|...++++.+.. +.+..++..+...+...|++++|..+++.+.+.+ +.+...+..+...+...|++++|.+.|+.+
T Consensus       652 ~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~  729 (899)
T TIGR02917       652 AKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQH-PKAALGFELEGDLYLRQKDYPAAIQAYRKA  729 (899)
T ss_pred             HHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCChHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            66666666665543 3445566666666666666666666666665553 345555666666666666666666666666


Q ss_pred             HHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchhhhhhhhhh
Q 046446          163 EENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFTVHERQ  235 (244)
Q Consensus       163 ~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  235 (244)
                      ...+  |+..++..+..++.+.|++++|.+.++++.+.. +.+...+..+...|.+.|+.++|...|+.+...
T Consensus       730 ~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~  799 (899)
T TIGR02917       730 LKRA--PSSQNAIKLHRALLASGNTAEAVKTLEAWLKTH-PNDAVLRTALAELYLAQKDYDKAIKHYRTVVKK  799 (899)
T ss_pred             HhhC--CCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHh
Confidence            6543  334555556666666666666666666666543 335556666666666677777776666665543

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

>TIGR00990 3a0801s09 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70)

Probab=99.73  E-value=1.2e-14  Score=120.05  Aligned_cols=226  Identities=14%  Similarity=0.025  Sum_probs=175.6

Q ss_pred             hhhhhcCChhHHHHHHHHHHhCCCCCC-hhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcH
Q 046446            4 NGYCKNKEIEGALNLYSEMLSKGIKPD-VVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYI   82 (244)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~   82 (244)
                      ..+...|++++|+..|+.....  .|+ ...|..+...+...|++++|...|++..+.. +.+..+|..+...+...|++
T Consensus       339 ~~~~~~g~~~eA~~~~~kal~l--~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~  415 (615)
T TIGR00990       339 TFKCLKGKHLEALADLSKSIEL--DPRVTQSYIKRASMNLELGDPDKAEEDFDKALKLN-SEDPDIYYHRAQLHFIKGEF  415 (615)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCH
Confidence            3456789999999999998876  344 5577788888888999999999999887763 33577888889999999999


Q ss_pred             HHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHH
Q 046446           83 VESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDM  162 (244)
Q Consensus        83 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  162 (244)
                      ++|...|++..+.. +.+...+..+..++.+.|++++|+..|++..+.. +.+...++.+...+...|++++|.+.|+..
T Consensus       416 ~~A~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~A  493 (615)
T TIGR00990       416 AQAGKDYQKSIDLD-PDFIFSHIQLGVTQYKEGSIASSMATFRRCKKNF-PEAPDVYNYYGELLLDQNKFDEAIEKFDTA  493 (615)
T ss_pred             HHHHHHHHHHHHcC-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            99999999988765 4567778888889999999999999999887653 445778888999999999999999999998


Q ss_pred             HHcCCCCcH------hHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchhhhhhhhhh
Q 046446          163 EENAVAPNV------ITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFTVHERQ  235 (244)
Q Consensus       163 ~~~~~~p~~------~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  235 (244)
                      .+.....+.      ..++.....+...|++++|..++++...... .+...+..+...+.+.|++++|+..|+...+.
T Consensus       494 l~l~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~p-~~~~a~~~la~~~~~~g~~~eAi~~~e~A~~l  571 (615)
T TIGR00990       494 IELEKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALIIDP-ECDIAVATMAQLLLQQGDVDEALKLFERAAEL  571 (615)
T ss_pred             HhcCCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCC-CcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            764321111      1122222334446899999999999877642 24456788999999999999999999876543

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.73  E-value=1.1e-14  Score=120.31  Aligned_cols=190  Identities=11%  Similarity=0.033  Sum_probs=105.5

Q ss_pred             HhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHH-
Q 046446           41 LFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEI-  119 (244)
Q Consensus        41 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~-  119 (244)
                      +...|++++|...++.+.+....++......+..++.+.|++++|+..+++..+.. +.+...+..+...+...|++++ 
T Consensus       187 l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~~~~Lg~~l~~~G~~~eA  265 (656)
T PRK15174        187 FLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAALRRSLGLAYYQSGRSREA  265 (656)
T ss_pred             HHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCchhh
Confidence            33444444444444444433222222333333445555566666666666555543 3445555556666666666654 


Q ss_pred             ---HHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHH
Q 046446          120 ---ALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHK  196 (244)
Q Consensus       120 ---a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~  196 (244)
                         |...|++..+.. +.+...+..+...+...|++++|...++...+... .+...+..+..++...|++++|...+++
T Consensus       266 ~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P-~~~~a~~~La~~l~~~G~~~eA~~~l~~  343 (656)
T PRK15174        266 KLQAAEHWRHALQFN-SDNVRIVTLYADALIRTGQNEKAIPLLQQSLATHP-DLPYVRAMYARALRQVGQYTAASDEFVQ  343 (656)
T ss_pred             HHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence               566666665543 33455666666666677777777777766665422 2344555566666677777777777776


Q ss_pred             HHHCCCCCCh-hhHHHHHHHHHhccccccchhhhhhhhhh
Q 046446          197 MKEKNVMPDA-SIVSIVVDLLAKNEISLNSLPSFTVHERQ  235 (244)
Q Consensus       197 ~~~~~~~~~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  235 (244)
                      +...+  |+. ..+..+..++...|+.++|+..|+...+.
T Consensus       344 al~~~--P~~~~~~~~~a~al~~~G~~deA~~~l~~al~~  381 (656)
T PRK15174        344 LAREK--GVTSKWNRYAAAALLQAGKTSEAESVFEHYIQA  381 (656)
T ss_pred             HHHhC--ccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            66543  333 22333455666777777777777665443

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.72  E-value=2.2e-14  Score=118.65  Aligned_cols=225  Identities=14%  Similarity=0.086  Sum_probs=123.8

Q ss_pred             hhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHH
Q 046446            5 GYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVE   84 (244)
Q Consensus         5 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~   84 (244)
                      .+.+.|++++|...+++..+.. +.+...+..+...+...|++++|...++.+...... +...+..+ ..+...|++++
T Consensus       119 ~l~~~g~~~~Ai~~l~~Al~l~-P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P~-~~~a~~~~-~~l~~~g~~~e  195 (656)
T PRK15174        119 VLLKSKQYATVADLAEQAWLAF-SGNSQIFALHLRTLVLMDKELQAISLARTQAQEVPP-RGDMIATC-LSFLNKSRLPE  195 (656)
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCCC-CHHHHHHH-HHHHHcCCHHH
Confidence            3444455555555555544431 222334444444455555555555555544433211 11122222 22444555555


Q ss_pred             HHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHH----HHHHHH
Q 046446           85 SVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDK----AHDLFL  160 (244)
Q Consensus        85 a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~----a~~~~~  160 (244)
                      |...++.+.+....++...+..+..++...|++++|...+++..... +.+...+..+...+...|++++    |...|+
T Consensus       196 A~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~  274 (656)
T PRK15174        196 DHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAALRRSLGLAYYQSGRSREAKLQAAEHWR  274 (656)
T ss_pred             HHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCchhhHHHHHHHHH
Confidence            55555554443222223333344455666666666666666665543 3345566666777777777764    677777


Q ss_pred             HHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchhhhhhhhhh
Q 046446          161 DMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFTVHERQ  235 (244)
Q Consensus       161 ~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  235 (244)
                      ...+.. +.+...+..+...+...|++++|...+++..... +.+...+..+..++.+.|++++|+..|+.+.+.
T Consensus       275 ~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~-P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~  347 (656)
T PRK15174        275 HALQFN-SDNVRIVTLYADALIRTGQNEKAIPLLQQSLATH-PDLPYVRAMYARALRQVGQYTAASDEFVQLARE  347 (656)
T ss_pred             HHHhhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            766542 2245566777777777778888877777777653 223455666777777788888887777766543

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

Probab=99.68  E-value=7.4e-16  Score=115.22  Aligned_cols=219  Identities=16%  Similarity=0.130  Sum_probs=93.6

Q ss_pred             hcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHH
Q 046446            8 KNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVE   87 (244)
Q Consensus         8 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~   87 (244)
                      ..++++.|.+.++++...+ +-++..+..++.. ...+++++|.+++....+.  .+++..+...+..+.+.++++++.+
T Consensus        56 ~~~~~~~A~~ay~~l~~~~-~~~~~~~~~l~~l-~~~~~~~~A~~~~~~~~~~--~~~~~~l~~~l~~~~~~~~~~~~~~  131 (280)
T PF13429_consen   56 SLGDYDEAIEAYEKLLASD-KANPQDYERLIQL-LQDGDPEEALKLAEKAYER--DGDPRYLLSALQLYYRLGDYDEAEE  131 (280)
T ss_dssp             ------------------------------------------------------------------H-HHHTT-HHHHHH
T ss_pred             ccccccccccccccccccc-ccccccccccccc-ccccccccccccccccccc--ccccchhhHHHHHHHHHhHHHHHHH
Confidence            3455555555555555543 1234444444444 4556666666666555443  2455556666677777777777777


Q ss_pred             HHHHHHHhC-CCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcC
Q 046446           88 LFRTLRILK-CELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENA  166 (244)
Q Consensus        88 ~~~~~~~~~-~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~  166 (244)
                      +++.+.... .+.+...|..+...+.+.|+.++|.+.+++..+.. +.|....+.++..+...|+.+++.+++....+..
T Consensus       132 ~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~  210 (280)
T PF13429_consen  132 LLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKALELD-PDDPDARNALAWLLIDMGDYDEAREALKRLLKAA  210 (280)
T ss_dssp             HHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH--TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-
T ss_pred             HHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC
Confidence            777765432 34566677777777778888888888887777653 2246667777777777777777777777766543


Q ss_pred             CCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchhhhhhhh
Q 046446          167 VAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFTVHE  233 (244)
Q Consensus       167 ~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  233 (244)
                       +.|+..+..+..++...|+.++|..++++..... +.|..+...+.+++...|+.++|.++....-
T Consensus       211 -~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~-p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~~  275 (280)
T PF13429_consen  211 -PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLN-PDDPLWLLAYADALEQAGRKDEALRLRRQAL  275 (280)
T ss_dssp             -HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHT----------------
T ss_pred             -cCHHHHHHHHHHHhcccccccccccccccccccc-ccccccccccccccccccccccccccccccc
Confidence             3455566777777777888888888888777643 2366777777788888888888877766543

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

Probab=99.66  E-value=3.5e-16  Score=116.94  Aligned_cols=230  Identities=14%  Similarity=0.077  Sum_probs=102.6

Q ss_pred             hhhhhhcCChhHHHHHHHHHHhCC-CCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCc
Q 046446            3 INGYCKNKEIEGALNLYSEMLSKG-IKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGY   81 (244)
Q Consensus         3 i~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~   81 (244)
                      ...+.+.|++++|+++++...... .+.+...|..+...+...++++.|...++++...+.. ++..+..++.. ...++
T Consensus        15 A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l-~~~~~   92 (280)
T PF13429_consen   15 ARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKA-NPQDYERLIQL-LQDGD   92 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccc-ccccc
Confidence            456788999999999997655543 2334555666666777789999999999999887544 66677777777 78899


Q ss_pred             HHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCC-ccccHHHHHHHHHHHHccCChHHHHHHHH
Q 046446           82 IVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGV-LVADVVTYSIMIHGLYNDGQMDKAHDLFL  160 (244)
Q Consensus        82 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~li~~~~~~~~~~~a~~~~~  160 (244)
                      +++|.++++...+.  .++...+..++..+...++++++..+++.+.... .+.+...|..+...+.+.|+.++|.+.++
T Consensus        93 ~~~A~~~~~~~~~~--~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~  170 (280)
T PF13429_consen   93 PEEALKLAEKAYER--DGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYR  170 (280)
T ss_dssp             ---------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHH
T ss_pred             cccccccccccccc--ccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            99999999877654  3567778889999999999999999999976432 34678889999999999999999999999


Q ss_pred             HHHHcCCCC-cHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchhhhhhhhhhhccc
Q 046446          161 DMEENAVAP-NVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFTVHERQEEVD  239 (244)
Q Consensus       161 ~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  239 (244)
                      ...+..  | |......++..+...|+.+++.+++....+.. +.|...+..+..+|...|+.++|+..|+...+...-+
T Consensus       171 ~al~~~--P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p~d  247 (280)
T PF13429_consen  171 KALELD--PDDPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLNPDD  247 (280)
T ss_dssp             HHHHH---TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHSTT-
T ss_pred             HHHHcC--CCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhccccccccccccccccccccccc
Confidence            998863  4 57788889999999999999999999888764 4566778899999999999999999999887654433

>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=99.65  E-value=3e-13  Score=111.81  Aligned_cols=223  Identities=11%  Similarity=-0.012  Sum_probs=178.5

Q ss_pred             cCChhHHHHHHHHHHhCC-CCC-ChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHH
Q 046446            9 NKEIEGALNLYSEMLSKG-IKP-DVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESV   86 (244)
Q Consensus         9 ~~~~~~a~~~~~~~~~~~-~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~   86 (244)
                      .+++++|.+.|+.....+ ..| ....|+.+...+...|++++|+..+++..+.. +-+...|..+...+...|++++|.
T Consensus       307 ~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~  385 (615)
T TIGR00990       307 DESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELD-PRVTQSYIKRASMNLELGDPDKAE  385 (615)
T ss_pred             hhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHCCCHHHHH
Confidence            368999999999998764 223 45568888888889999999999999998862 224668888999999999999999


Q ss_pred             HHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcC
Q 046446           87 ELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENA  166 (244)
Q Consensus        87 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~  166 (244)
                      ..|++..+.. +.+..+|..+...+...|++++|...|++..+.. +.+...+..+..++.+.|++++|...|+...+..
T Consensus       386 ~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~  463 (615)
T TIGR00990       386 EDFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFSHIQLGVTQYKEGSIASSMATFRRCKKNF  463 (615)
T ss_pred             HHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            9999998875 5678899999999999999999999999998874 4457788889999999999999999999988752


Q ss_pred             CCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChh------hHHHHHHHHHhccccccchhhhhhhhhh
Q 046446          167 VAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDAS------IVSIVVDLLAKNEISLNSLPSFTVHERQ  235 (244)
Q Consensus       167 ~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~------~~~~l~~~~~~~g~~~~a~~~~~~~~~~  235 (244)
                       +.+...++.+...+...|++++|...|++........+..      .+......+...|++++|.+.++.....
T Consensus       464 -P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l  537 (615)
T TIGR00990       464 -PEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALII  537 (615)
T ss_pred             -CCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhc
Confidence             3357788889999999999999999999988753221111      1222223344568999999998876543

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.65  E-value=4e-13  Score=97.51  Aligned_cols=204  Identities=13%  Similarity=0.072  Sum_probs=168.1

Q ss_pred             CCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHH
Q 046446           28 KPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCL  107 (244)
Q Consensus        28 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  107 (244)
                      ......+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|.+.+++..+.. +.+...+..+
T Consensus        28 ~~~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~  105 (234)
T TIGR02521        28 NKAAKIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNY  105 (234)
T ss_pred             CcHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHH
Confidence            3446678888899999999999999999988763 3356788889999999999999999999998875 4567788889


Q ss_pred             HHHHHcCCCHHHHHHHHHhcccCCc-cccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCC
Q 046446          108 IDGLCKSGRLEIALELFHSLPRGVL-VADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINE  186 (244)
Q Consensus       108 l~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~  186 (244)
                      ...+...|++++|...+++...... +.....+..+...+...|++++|...++...+.. +.+...+..+...+...|+
T Consensus       106 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~  184 (234)
T TIGR02521       106 GTFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQID-PQRPESLLELAELYYLRGQ  184 (234)
T ss_pred             HHHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCChHHHHHHHHHHHHcCC
Confidence            9999999999999999999876421 2245567778889999999999999999988753 2346678888899999999


Q ss_pred             hhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchhhhhhhhhh
Q 046446          187 PSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFTVHERQ  235 (244)
Q Consensus       187 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  235 (244)
                      +++|...+++.... .+.+...+..+...+...|+.+++..+.+.+.+.
T Consensus       185 ~~~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  232 (234)
T TIGR02521       185 YKDARAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQLQKL  232 (234)
T ss_pred             HHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhh
Confidence            99999999998876 3446677778888999999999999988876553

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

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.65  E-value=5.5e-13  Score=96.78  Aligned_cols=194  Identities=11%  Similarity=0.047  Sum_probs=160.8

Q ss_pred             hhhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcH
Q 046446            3 INGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYI   82 (244)
Q Consensus         3 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~   82 (244)
                      ...+...|++++|.+.+++..+.. +.+...+..+...+...|++++|.+.+++..+.. +.+...+..+...+...|++
T Consensus        38 a~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~~~~g~~  115 (234)
T TIGR02521        38 ALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGTFLCQQGKY  115 (234)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcccH
Confidence            467788999999999999998763 4456778888899999999999999999998864 33667788889999999999


Q ss_pred             HHHHHHHHHHHHhCC-CccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHH
Q 046446           83 VESVELFRTLRILKC-ELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLD  161 (244)
Q Consensus        83 ~~a~~~~~~~~~~~~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  161 (244)
                      ++|.+.+++..+... +.....+..+..++...|++++|...+.+..... +.+...+..+...+...|++++|...+++
T Consensus       116 ~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~  194 (234)
T TIGR02521       116 EQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQID-PQRPESLLELAELYYLRGQYKDARAYLER  194 (234)
T ss_pred             HHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCChHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            999999999987532 2345567778889999999999999999988764 33567888999999999999999999999


Q ss_pred             HHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 046446          162 MEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEK  200 (244)
Q Consensus       162 ~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  200 (244)
                      ..+. .+.+...+..+...+...|+.++|..+.+.+...
T Consensus       195 ~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  232 (234)
T TIGR02521       195 YQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQLQKL  232 (234)
T ss_pred             HHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhh
Confidence            8876 3446667777788888999999999988877543

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.

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.63  E-value=7.6e-13  Score=112.74  Aligned_cols=218  Identities=10%  Similarity=0.009  Sum_probs=172.3

Q ss_pred             cCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHH
Q 046446            9 NKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVEL   88 (244)
Q Consensus         9 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~   88 (244)
                      .+++++|+..+.+....  .|+......+...+...|++++|...|+++...  +|+...+..+..++.+.|+.++|.+.
T Consensus       489 ~~~~~eAi~a~~~Al~~--~Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~all~~Gd~~eA~~~  564 (987)
T PRK09782        489 DTLPGVALYAWLQAEQR--QPDAWQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAANTAQAAGNGAARDRW  564 (987)
T ss_pred             hCCcHHHHHHHHHHHHh--CCchHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHCCCHHHHHHH
Confidence            47888899988888776  466544444455556889999999999987654  45555667778888899999999999


Q ss_pred             HHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCC
Q 046446           89 FRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVA  168 (244)
Q Consensus        89 ~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~  168 (244)
                      +++..+.. +.+...+..+.......|++++|...+++..+.  .|+...+..+..++.+.|++++|...++...+.. +
T Consensus       565 l~qAL~l~-P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l--~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~-P  640 (987)
T PRK09782        565 LQQAEQRG-LGDNALYWWLHAQRYIPGQPELALNDLTRSLNI--APSANAYVARATIYRQRHNVPAAVSDLRAALELE-P  640 (987)
T ss_pred             HHHHHhcC-CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-C
Confidence            99998765 344444444555556679999999999999876  4678889999999999999999999999988764 2


Q ss_pred             CcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchhhhhhhhhh
Q 046446          169 PNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFTVHERQ  235 (244)
Q Consensus       169 p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  235 (244)
                      .+...++.+..++...|++++|...+++..+.. +-+...+..+..++...|++++|+..|+.....
T Consensus       641 d~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~-P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l  706 (987)
T PRK09782        641 NNSNYQAALGYALWDSGDIAQSREMLERAHKGL-PDDPALIRQLAYVNQRLDDMAATQHYARLVIDD  706 (987)
T ss_pred             CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            356677778888999999999999999988764 235677888999999999999999998877543

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.61  E-value=1e-12  Score=115.54  Aligned_cols=229  Identities=11%  Similarity=0.056  Sum_probs=165.6

Q ss_pred             hhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHH
Q 046446            4 NGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIV   83 (244)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   83 (244)
                      ..+...|++++|++.|++..+.. +-+...+..+...+.+.|++++|...++++.+.. +.+...+..+...+...++.+
T Consensus       469 ~~~~~~g~~~eA~~~~~~Al~~~-P~~~~~~~~LA~~~~~~G~~~~A~~~l~~al~~~-P~~~~~~~a~al~l~~~~~~~  546 (1157)
T PRK11447        469 EALENQGKWAQAAELQRQRLALD-PGSVWLTYRLAQDLRQAGQRSQADALMRRLAQQK-PNDPEQVYAYGLYLSGSDRDR  546 (1157)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHhCCCHH
Confidence            34567899999999999998873 3356677888889999999999999999988752 223444433333444455555


Q ss_pred             HHHHHHHHHHHh---------------------------------------CCCccHHhHHHHHHHHHcCCCHHHHHHHH
Q 046446           84 ESVELFRTLRIL---------------------------------------KCELDIQAYSCLIDGLCKSGRLEIALELF  124 (244)
Q Consensus        84 ~a~~~~~~~~~~---------------------------------------~~~~~~~~~~~ll~~~~~~~~~~~a~~~~  124 (244)
                      +|...++.+...                                       ..+.+...+..+...+...|++++|...|
T Consensus       547 ~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~~~p~~~~~~~~La~~~~~~g~~~~A~~~y  626 (1157)
T PRK11447        547 AALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQQPPSTRIDLTLADWAQQRGDYAAARAAY  626 (1157)
T ss_pred             HHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHHhCCCCchHHHHHHHHHHHcCCHHHHHHHH
Confidence            555544432110                                       12455566777888888999999999999


Q ss_pred             HhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCC--
Q 046446          125 HSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNV--  202 (244)
Q Consensus       125 ~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~--  202 (244)
                      ++..+.. +.+...+..++..+...|++++|.+.++...+.. +.+...+..+..++...|++++|.++++++.....  
T Consensus       627 ~~al~~~-P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~-p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~  704 (1157)
T PRK11447        627 QRVLTRE-PGNADARLGLIEVDIAQGDLAAARAQLAKLPATA-NDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQ  704 (1157)
T ss_pred             HHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccC-CCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccC
Confidence            9888764 4467888889999999999999999998776542 22455566677788889999999999998876532  


Q ss_pred             CC---ChhhHHHHHHHHHhccccccchhhhhhhhhhh
Q 046446          203 MP---DASIVSIVVDLLAKNEISLNSLPSFTVHERQE  236 (244)
Q Consensus       203 ~~---~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  236 (244)
                      .|   +...+..+...+.+.|+.++|+..|+......
T Consensus       705 ~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al~~~  741 (1157)
T PRK11447        705 PPSMESALVLRDAARFEAQTGQPQQALETYKDAMVAS  741 (1157)
T ss_pred             CcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc
Confidence            22   22455666788889999999999988876543

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.61  E-value=1.5e-12  Score=101.87  Aligned_cols=218  Identities=7%  Similarity=-0.001  Sum_probs=162.1

Q ss_pred             hhhcCChhHHHHHHHHHHhCCCCCChhhHH--HHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHH
Q 046446            6 YCKNKEIEGALNLYSEMLSKGIKPDVVIHN--TLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIV   83 (244)
Q Consensus         6 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   83 (244)
                      ..+.|+++.|.+.+.++.+.  .|+.....  .....+...|+++.|...++++.+.. +-++.....+...|.+.|+++
T Consensus       128 A~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~Al~~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~  204 (398)
T PRK10747        128 AQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAARHGVDKLLEVA-PRHPEVLRLAEQAYIRTGAWS  204 (398)
T ss_pred             HHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHHhHH
Confidence            36778888888888888765  45554333  33456677788888888888887764 225667777788888888888


Q ss_pred             HHHHHHHHHHHhCC-----------------------------------------CccHHhHHHHHHHHHcCCCHHHHHH
Q 046446           84 ESVELFRTLRILKC-----------------------------------------ELDIQAYSCLIDGLCKSGRLEIALE  122 (244)
Q Consensus        84 ~a~~~~~~~~~~~~-----------------------------------------~~~~~~~~~ll~~~~~~~~~~~a~~  122 (244)
                      +|.+++..+.+.+.                                         +.++.....+...+...|+.++|.+
T Consensus       205 ~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~~lp~~~~~~~~~~~~~A~~l~~~g~~~~A~~  284 (398)
T PRK10747        205 SLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWWKNQSRKTRHQVALQVAMAEHLIECDDHDTAQQ  284 (398)
T ss_pred             HHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHhCCHHHhCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            88877777664432                                         1234455566777888899999999


Q ss_pred             HHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCC
Q 046446          123 LFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNV  202 (244)
Q Consensus       123 ~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  202 (244)
                      ++++..+.  +|+....  ++.+....++.+++.+..+...+.. +-|...+..+...|.+.+++++|.+.|+...+.  
T Consensus       285 ~L~~~l~~--~~~~~l~--~l~~~l~~~~~~~al~~~e~~lk~~-P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~--  357 (398)
T PRK10747        285 IILDGLKR--QYDERLV--LLIPRLKTNNPEQLEKVLRQQIKQH-GDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQ--  357 (398)
T ss_pred             HHHHHHhc--CCCHHHH--HHHhhccCCChHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--
Confidence            98888774  4554222  3344445688899999998887653 235666788889999999999999999999875  


Q ss_pred             CCChhhHHHHHHHHHhccccccchhhhhhhh
Q 046446          203 MPDASIVSIVVDLLAKNEISLNSLPSFTVHE  233 (244)
Q Consensus       203 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  233 (244)
                      .|+..++..+...+.+.|+.++|.++++...
T Consensus       358 ~P~~~~~~~La~~~~~~g~~~~A~~~~~~~l  388 (398)
T PRK10747        358 RPDAYDYAWLADALDRLHKPEEAAAMRRDGL  388 (398)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            5999999999999999999999999998654

>PRK12370 invasion protein regulator; Provisional

Probab=99.60  E-value=2e-12  Score=105.36  Aligned_cols=217  Identities=12%  Similarity=0.067  Sum_probs=160.9

Q ss_pred             CChhHHHHHHHHHHhCCCCCC-hhhHHHHHHHHhh---------hchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhC
Q 046446           10 KEIEGALNLYSEMLSKGIKPD-VVIHNTLFIGLFE---------IHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKN   79 (244)
Q Consensus        10 ~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~---------~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~   79 (244)
                      +++++|..+|++..+.  .|+ ...|..+..++..         .+++++|...+++..+... -+..++..+...+...
T Consensus       275 ~~~~~A~~~~~~Al~l--dP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ldP-~~~~a~~~lg~~~~~~  351 (553)
T PRK12370        275 YSLQQALKLLTQCVNM--SPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELDH-NNPQALGLLGLINTIH  351 (553)
T ss_pred             HHHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHc
Confidence            3467899999999887  454 4455555544432         3458999999999988743 3677888888889999


Q ss_pred             CcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCcccc-HHHHHHHHHHHHccCChHHHHHH
Q 046446           80 GYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVAD-VVTYSIMIHGLYNDGQMDKAHDL  158 (244)
Q Consensus        80 ~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~~~~~~a~~~  158 (244)
                      |++++|...|++..+.+ |.+...+..+...+...|++++|...+++..+.+  |+ ...+..++..+...|++++|...
T Consensus       352 g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~--P~~~~~~~~~~~~~~~~g~~eeA~~~  428 (553)
T PRK12370        352 SEYIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTINECLKLD--PTRAAAGITKLWITYYHTGIDDAIRL  428 (553)
T ss_pred             cCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CCChhhHHHHHHHHHhccCHHHHHHH
Confidence            99999999999999886 5667788889999999999999999999998874  33 33344445556678999999999


Q ss_pred             HHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC-hhhHHHHHHHHHhccccccchhhhhhhhhhh
Q 046446          159 FLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPD-ASIVSIVVDLLAKNEISLNSLPSFTVHERQE  236 (244)
Q Consensus       159 ~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  236 (244)
                      +++..+...+-+...+..+..++...|+.++|...+.++...  .|+ ......+...|...|+  ++...++.+.+..
T Consensus       429 ~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~--~a~~~l~~ll~~~  503 (553)
T PRK12370        429 GDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQ--EITGLIAVNLLYAEYCQNSE--RALPTIREFLESE  503 (553)
T ss_pred             HHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhc--cchhHHHHHHHHHHHhccHH--HHHHHHHHHHHHh
Confidence            998876532224455677778888999999999999887654  333 3344556667777774  6766666655543

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.59  E-value=8.9e-13  Score=99.03  Aligned_cols=231  Identities=13%  Similarity=0.144  Sum_probs=161.7

Q ss_pred             ChhhhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCC
Q 046446            1 ILINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNG   80 (244)
Q Consensus         1 ~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~   80 (244)
                      +||.++++--+.++|.+++++......+.+..+||.+|.+-+-...    .++..+|......||..|+|+++++.++.|
T Consensus       212 ~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~----K~Lv~EMisqkm~Pnl~TfNalL~c~akfg  287 (625)
T KOG4422|consen  212 IMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVG----KKLVAEMISQKMTPNLFTFNALLSCAAKFG  287 (625)
T ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhcc----HHHHHHHHHhhcCCchHhHHHHHHHHHHhc
Confidence            4677788888888888888888777667788888888876543322    667778888888888888888888888888


Q ss_pred             cHHH----HHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHH-HHHHHHhcc----cCCc----cccHHHHHHHHHHHH
Q 046446           81 YIVE----SVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEI-ALELFHSLP----RGVL----VADVVTYSIMIHGLY  147 (244)
Q Consensus        81 ~~~~----a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~-a~~~~~~~~----~~~~----~~~~~~~~~li~~~~  147 (244)
                      +++.    |.+++.+|++-|+.|...+|..+|..+.+.++..+ |..+..++.    ....    +.|..-|...+..|.
T Consensus       288 ~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~FF~~AM~Ic~  367 (625)
T KOG4422|consen  288 KFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDNKFFQSAMSICS  367 (625)
T ss_pred             chHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchhHHHHHHHHHHH
Confidence            6654    56677778888888888888888888888777644 333333322    1111    224455666777777


Q ss_pred             ccCChHHHHHHHHHHHHcC----CCCc---HhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcc
Q 046446          148 NDGQMDKAHDLFLDMEENA----VAPN---VITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNE  220 (244)
Q Consensus       148 ~~~~~~~a~~~~~~~~~~~----~~p~---~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  220 (244)
                      +..+.+-|.++..-.....    +.|+   ..-|..+....++....+....+|+.|.-.-+-|+..+...++++....|
T Consensus       368 ~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~~~m~~~lrA~~v~~  447 (625)
T KOG4422|consen  368 SLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHSQTMIHLLRALDVAN  447 (625)
T ss_pred             HhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCchhHHHHHHHHhhcC
Confidence            8788877777665443211    2222   22345566666777778888888888887777788888888888888888


Q ss_pred             ccccchhhhhhhhhh
Q 046446          221 ISLNSLPSFTVHERQ  235 (244)
Q Consensus       221 ~~~~a~~~~~~~~~~  235 (244)
                      .++-.-++|..+..-
T Consensus       448 ~~e~ipRiw~D~~~~  462 (625)
T KOG4422|consen  448 RLEVIPRIWKDSKEY  462 (625)
T ss_pred             cchhHHHHHHHHHHh
Confidence            887777777665543

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

Probab=99.59  E-value=2.1e-13  Score=106.99  Aligned_cols=226  Identities=14%  Similarity=0.042  Sum_probs=177.9

Q ss_pred             hhhhhhcCChhHHHHHHHHHHhCC------C---------------------------CCChhhHHHHHHHHhhhchHHH
Q 046446            3 INGYCKNKEIEGALNLYSEMLSKG------I---------------------------KPDVVIHNTLFIGLFEIHQVER   49 (244)
Q Consensus         3 i~~~~~~~~~~~a~~~~~~~~~~~------~---------------------------~~~~~~~~~li~~~~~~~~~~~   49 (244)
                      -.+|...+++++|.++|+.+.+..      .                           +-++.+|.++.++|+-.++.+.
T Consensus       360 GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~Ls~Laq~Li~~~~~sPesWca~GNcfSLQkdh~~  439 (638)
T KOG1126|consen  360 GRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVALSYLAQDLIDTDPNSPESWCALGNCFSLQKDHDT  439 (638)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHHHHHHHHHHhhCCCCcHHHHHhcchhhhhhHHHH
Confidence            367889999999999999887652      0                           1246778888888888888888


Q ss_pred             HHHHHHHHHHcCCCC-ChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcc
Q 046446           50 AFKLFDEMQRDGVAA-DTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLP  128 (244)
Q Consensus        50 a~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  128 (244)
                      |++.|++..+.  .| ...+|+.+..-+....++|.|...|+...... +.+-.+|-.+.-.|.+.++++.|+-.|+...
T Consensus       440 Aik~f~RAiQl--dp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~-~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~  516 (638)
T KOG1126|consen  440 AIKCFKRAIQL--DPRFAYAYTLLGHESIATEEFDKAMKSFRKALGVD-PRHYNAWYGLGTVYLKQEKLEFAEFHFQKAV  516 (638)
T ss_pred             HHHHHHHhhcc--CCccchhhhhcCChhhhhHHHHhHHHHHHhhhcCC-chhhHHHHhhhhheeccchhhHHHHHHHhhh
Confidence            88888888875  34 67788888888888888888888888877544 3455566667788999999999999999998


Q ss_pred             cCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCC-Chh
Q 046446          129 RGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMP-DAS  207 (244)
Q Consensus       129 ~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~-~~~  207 (244)
                      +.+ +-+.+....+...+-+.|+.++|++++++....... |+..--.....+...+++++|+..++++++.  .| +..
T Consensus       517 ~IN-P~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~k-n~l~~~~~~~il~~~~~~~eal~~LEeLk~~--vP~es~  592 (638)
T KOG1126|consen  517 EIN-PSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPK-NPLCKYHRASILFSLGRYVEALQELEELKEL--VPQESS  592 (638)
T ss_pred             cCC-ccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCC-CchhHHHHHHHHHhhcchHHHHHHHHHHHHh--CcchHH
Confidence            876 456777778888888999999999999998875544 4444445566777789999999999999875  44 556


Q ss_pred             hHHHHHHHHHhccccccchhhhhhhhhh
Q 046446          208 IVSIVVDLLAKNEISLNSLPSFTVHERQ  235 (244)
Q Consensus       208 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~  235 (244)
                      .+..+.+.|.+.|+.+.|+.-|..+.+-
T Consensus       593 v~~llgki~k~~~~~~~Al~~f~~A~~l  620 (638)
T KOG1126|consen  593 VFALLGKIYKRLGNTDLALLHFSWALDL  620 (638)
T ss_pred             HHHHHHHHHHHHccchHHHHhhHHHhcC
Confidence            7788889999999999998888766543

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

Probab=99.59  E-value=1.9e-13  Score=106.93  Aligned_cols=219  Identities=14%  Similarity=0.169  Sum_probs=125.8

Q ss_pred             hhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCC-hhHHHHHHHHHHhCCcHHHH
Q 046446            7 CKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAAD-TRTYTIFIDGLCKNGYIVES   85 (244)
Q Consensus         7 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~~~a   85 (244)
                      ...+.+++|+..|.+..... +.....+..+...|...|.++.|++.|++..+.  .|+ ...|+.|..++-..|++.+|
T Consensus       263 ke~~~~d~Avs~Y~rAl~lr-pn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~--~P~F~~Ay~NlanALkd~G~V~ea  339 (966)
T KOG4626|consen  263 KEARIFDRAVSCYLRALNLR-PNHAVAHGNLACIYYEQGLLDLAIDTYKRALEL--QPNFPDAYNNLANALKDKGSVTEA  339 (966)
T ss_pred             HHHhcchHHHHHHHHHHhcC-CcchhhccceEEEEeccccHHHHHHHHHHHHhc--CCCchHHHhHHHHHHHhccchHHH
Confidence            33444444444444444431 122333444444455555566666666555553  222 44566666666666666666


Q ss_pred             HHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHc
Q 046446           86 VELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEEN  165 (244)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  165 (244)
                      .+.|.+..... +....+.+.|...|...|.+++|..+|....+.. +.-...++.|...|-..|++++|...+++... 
T Consensus       340 ~~cYnkaL~l~-p~hadam~NLgni~~E~~~~e~A~~ly~~al~v~-p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykealr-  416 (966)
T KOG4626|consen  340 VDCYNKALRLC-PNHADAMNNLGNIYREQGKIEEATRLYLKALEVF-PEFAAAHNNLASIYKQQGNLDDAIMCYKEALR-  416 (966)
T ss_pred             HHHHHHHHHhC-CccHHHHHHHHHHHHHhccchHHHHHHHHHHhhC-hhhhhhhhhHHHHHHhcccHHHHHHHHHHHHh-
Confidence            66666665543 3345556666666666666666666666655542 11244566666666666777777666666654 


Q ss_pred             CCCCc-HhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC-hhhHHHHHHHHHhccccccchhhhhhhhh
Q 046446          166 AVAPN-VITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPD-ASIVSIVVDLLAKNEISLNSLPSFTVHER  234 (244)
Q Consensus       166 ~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  234 (244)
                       +.|+ ...|+.+...|-..|+...|.+.+.+...-+  |+ ...++.|...|..+|+..+|++.|+...+
T Consensus       417 -I~P~fAda~~NmGnt~ke~g~v~~A~q~y~rAI~~n--Pt~AeAhsNLasi~kDsGni~~AI~sY~~aLk  484 (966)
T KOG4626|consen  417 -IKPTFADALSNMGNTYKEMGDVSAAIQCYTRAIQIN--PTFAEAHSNLASIYKDSGNIPEAIQSYRTALK  484 (966)
T ss_pred             -cCchHHHHHHhcchHHHHhhhHHHHHHHHHHHHhcC--cHHHHHHhhHHHHhhccCCcHHHHHHHHHHHc
Confidence             4444 3456666666666677777777666665533  33 34566677777777777777777765543

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.58  E-value=4.6e-12  Score=108.06  Aligned_cols=217  Identities=6%  Similarity=-0.038  Sum_probs=173.3

Q ss_pred             hhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHH
Q 046446            5 GYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVE   84 (244)
Q Consensus         5 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~   84 (244)
                      .+...|++++|...|+++...  +|+...+..+...+.+.|++++|...+++..+.. +.+...+..+.......|++++
T Consensus       518 al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~-P~~~~l~~~La~~l~~~Gr~~e  594 (987)
T PRK09782        518 QAYQVEDYATALAAWQKISLH--DMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRG-LGDNALYWWLHAQRYIPGQPEL  594 (987)
T ss_pred             HHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHhCCCHHH
Confidence            446899999999999998765  5555566777788889999999999999998864 2233444444455556799999


Q ss_pred             HHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHH
Q 046446           85 SVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEE  164 (244)
Q Consensus        85 a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  164 (244)
                      |...+++..+..  |+...+..+..++.+.|++++|...+++..... +.+...++.+..++...|++++|...++...+
T Consensus       595 Al~~~~~AL~l~--P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~-Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~  671 (987)
T PRK09782        595 ALNDLTRSLNIA--PSANAYVARATIYRQRHNVPAAVSDLRAALELE-PNNSNYQAALGYALWDSGDIAQSREMLERAHK  671 (987)
T ss_pred             HHHHHHHHHHhC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            999999998764  578899999999999999999999999998875 44677888999999999999999999999887


Q ss_pred             cCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCh-hhHHHHHHHHHhccccccchhhhh
Q 046446          165 NAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDA-SIVSIVVDLLAKNEISLNSLPSFT  230 (244)
Q Consensus       165 ~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~a~~~~~  230 (244)
                      ... -+...+..+..++...|++++|...+++..+..  |+. .+.........+..+++.+.+.++
T Consensus       672 l~P-~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l~--P~~a~i~~~~g~~~~~~~~~~~a~~~~~  735 (987)
T PRK09782        672 GLP-DDPALIRQLAYVNQRLDDMAATQHYARLVIDDI--DNQALITPLTPEQNQQRFNFRRLHEEVG  735 (987)
T ss_pred             hCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CCCchhhhhhhHHHHHHHHHHHHHHHHH
Confidence            532 367788899999999999999999999998754  543 344445555556666666665554

>PF13041 PPR_2: PPR repeat family

Probab=99.58  E-value=9.2e-15  Score=79.14  Aligned_cols=49  Identities=35%  Similarity=0.709  Sum_probs=23.5

Q ss_pred             ccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHH
Q 046446          134 ADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFI  182 (244)
Q Consensus       134 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~  182 (244)
                      ||..+||++|.+|++.|++++|.++|++|.+.|+.||..||+.++++|+
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            3444444444444444444444444444444444444444444444443

>TIGR00540 hemY_coli hemY protein

Probab=99.57  E-value=2.4e-12  Score=101.22  Aligned_cols=131  Identities=11%  Similarity=0.019  Sum_probs=96.0

Q ss_pred             cHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHH---HHHHHHHHHccCChHHHHHHHHHHHHcCCCCc-H--hH
Q 046446          100 DIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVT---YSIMIHGLYNDGQMDKAHDLFLDMEENAVAPN-V--IT  173 (244)
Q Consensus       100 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~-~--~~  173 (244)
                      +...+..+...+...|+.++|.+++++..+..  |+...   ...........++.+.+.+.++...+.  .|+ .  ..
T Consensus       262 ~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~--pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~--~p~~~~~~l  337 (409)
T TIGR00540       262 NIALKIALAEHLIDCDDHDSAQEIIFDGLKKL--GDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKN--VDDKPKCCI  337 (409)
T ss_pred             CHHHHHHHHHHHHHCCChHHHHHHHHHHHhhC--CCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHh--CCCChhHHH
Confidence            56666777777888888888888888887753  33321   122222223456777888888776654  233 3  45


Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchhhhhhhhh
Q 046446          174 FGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFTVHER  234 (244)
Q Consensus       174 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  234 (244)
                      ..++...+.+.|++++|.+.|+........|+...+..+...+.+.|+.++|.++|+....
T Consensus       338 l~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~~l~  398 (409)
T TIGR00540       338 NRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMRQDSLG  398 (409)
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            6688889999999999999999655545578999999999999999999999999987543

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

>PF13041 PPR_2: PPR repeat family

Probab=99.57  E-value=1e-14  Score=78.99  Aligned_cols=49  Identities=49%  Similarity=0.858  Sum_probs=27.4

Q ss_pred             CChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHH
Q 046446           29 PDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLC   77 (244)
Q Consensus        29 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~   77 (244)
                      ||..+||.+|.+|++.|++++|.++|++|.+.|+.||..||+.++++|+
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

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

Probab=99.56  E-value=4.4e-12  Score=91.96  Aligned_cols=226  Identities=15%  Similarity=0.097  Sum_probs=175.7

Q ss_pred             hhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCC---hhHHHHHHHHHHhCCcH
Q 046446            6 YCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAAD---TRTYTIFIDGLCKNGYI   82 (244)
Q Consensus         6 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~---~~~~~~ll~~~~~~~~~   82 (244)
                      |.-.++.++|.++|-+|.+.. +-+..+.-+|.+.|.+.|..|.|+.+.+.+.++.--+.   ......|.+-|...|-+
T Consensus        45 fLLs~Q~dKAvdlF~e~l~~d-~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~  123 (389)
T COG2956          45 FLLSNQPDKAVDLFLEMLQED-PETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLL  123 (389)
T ss_pred             HHhhcCcchHHHHHHHHHhcC-chhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhh
Confidence            344678999999999999863 33444566788889999999999999999887621111   23445667778889999


Q ss_pred             HHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCcccc----HHHHHHHHHHHHccCChHHHHHH
Q 046446           83 VESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVAD----VVTYSIMIHGLYNDGQMDKAHDL  158 (244)
Q Consensus        83 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~li~~~~~~~~~~~a~~~  158 (244)
                      +.|+.+|..+.+.+ ..-..+...|+..|-...+|++|.++-+++.+.+-.+.    ...|.-+...+....+++.|..+
T Consensus       124 DRAE~~f~~L~de~-efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~  202 (389)
T COG2956         124 DRAEDIFNQLVDEG-EFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRAREL  202 (389)
T ss_pred             hHHHHHHHHHhcch-hhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHH
Confidence            99999999998865 35667788899999999999999999998877653332    23466777777778899999999


Q ss_pred             HHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchhhhhhhhh
Q 046446          159 FLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFTVHER  234 (244)
Q Consensus       159 ~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  234 (244)
                      +....+.... .+..--.+.+.....|+++.|.+.++...+.+...-..+...|..+|.+.|+.++.+..+..+.+
T Consensus       203 l~kAlqa~~~-cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~  277 (389)
T COG2956         203 LKKALQADKK-CVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAME  277 (389)
T ss_pred             HHHHHhhCcc-ceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            9988875322 33334455678888999999999999999988777778889999999999999888888776554

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.56  E-value=8.7e-12  Score=109.76  Aligned_cols=224  Identities=13%  Similarity=0.054  Sum_probs=153.1

Q ss_pred             hhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCC-ChhHHH------------H
Q 046446            5 GYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAA-DTRTYT------------I   71 (244)
Q Consensus         5 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~------------~   71 (244)
                      .+...|++++|+..|++..+.. +.+...+..+...+.+.|++++|+..|++..+..... ....+.            .
T Consensus       278 ~~~~~g~~~~A~~~l~~aL~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~~  356 (1157)
T PRK11447        278 AAVDSGQGGKAIPELQQAVRAN-PKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLIQ  356 (1157)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHHH
Confidence            4667899999999999998863 3467788889999999999999999999988753321 111121            2


Q ss_pred             HHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHH-------
Q 046446           72 FIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIH-------  144 (244)
Q Consensus        72 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~-------  144 (244)
                      ....+.+.|++++|.+.|+++.+.. +.+...+..+...+...|++++|++.|++..+.. +.+...+..+..       
T Consensus       357 ~g~~~~~~g~~~eA~~~~~~Al~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~-p~~~~a~~~L~~l~~~~~~  434 (1157)
T PRK11447        357 QGDAALKANNLAQAERLYQQARQVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMD-PGNTNAVRGLANLYRQQSP  434 (1157)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCH
Confidence            2445678899999999999998875 4567778888899999999999999999887653 223334433333       


Q ss_pred             -----------------------------------HHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhH
Q 046446          145 -----------------------------------GLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSK  189 (244)
Q Consensus       145 -----------------------------------~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~  189 (244)
                                                         .+...|++++|.+.+++..+... -+...+..+...+.+.|++++
T Consensus       435 ~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P-~~~~~~~~LA~~~~~~G~~~~  513 (1157)
T PRK11447        435 EKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALDP-GSVWLTYRLAQDLRQAGQRSQ  513 (1157)
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHH
Confidence                                               34456677777777777665422 134455666667777777777


Q ss_pred             HHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchhhhhhhh
Q 046446          190 VIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFTVHE  233 (244)
Q Consensus       190 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  233 (244)
                      |...++++.+.. +.+...+..+...+.+.|+.++|+..++.+.
T Consensus       514 A~~~l~~al~~~-P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~  556 (1157)
T PRK11447        514 ADALMRRLAQQK-PNDPEQVYAYGLYLSGSDRDRAALAHLNTLP  556 (1157)
T ss_pred             HHHHHHHHHHcC-CCCHHHHHHHHHHHHhCCCHHHHHHHHHhCC
Confidence            777777766542 1133334444445556667777766666543

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.55  E-value=2.3e-12  Score=96.84  Aligned_cols=226  Identities=18%  Similarity=0.282  Sum_probs=166.1

Q ss_pred             hhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHh--hhchHH-HHHHHHHHHHHc-------------------CCC
Q 046446            6 YCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLF--EIHQVE-RAFKLFDEMQRD-------------------GVA   63 (244)
Q Consensus         6 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~--~~~~~~-~a~~~~~~m~~~-------------------~~~   63 (244)
                      ....|.+..+.-+|+.|.+.|.+.+...-..|+..-+  ...+.. .-.+.|-.|...                   -.+
T Consensus       125 mIS~~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~S~~sWK~G~vAdL~~E~~P  204 (625)
T KOG4422|consen  125 MISSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGEDSTSSWKSGAVADLLFETLP  204 (625)
T ss_pred             HHhhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhccccccccccccccccHHHHHHhhcC
Confidence            4567889999999999999998888776655554322  221111 111122222221                   134


Q ss_pred             CChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHH
Q 046446           64 ADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMI  143 (244)
Q Consensus        64 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li  143 (244)
                      -+..++.++|.++++-...+.|.+++++-.....+.+..+||.+|.+-.-..    ..+++.+|.+..+.||..|+|+++
T Consensus       205 KT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~----~K~Lv~EMisqkm~Pnl~TfNalL  280 (625)
T KOG4422|consen  205 KTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSV----GKKLVAEMISQKMTPNLFTFNALL  280 (625)
T ss_pred             CCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhc----cHHHHHHHHHhhcCCchHhHHHHH
Confidence            4678999999999999999999999999988877899999999998765433    267889999999999999999999


Q ss_pred             HHHHccCChHH----HHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhH-HHHHHHHHHH----CCCCC----ChhhHH
Q 046446          144 HGLYNDGQMDK----AHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSK-VIELLHKMKE----KNVMP----DASIVS  210 (244)
Q Consensus       144 ~~~~~~~~~~~----a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~-a~~~~~~~~~----~~~~~----~~~~~~  210 (244)
                      +...+.|+++.    |.+++.+|++-|+.|...+|..+|..+.+.++..+ +..++.++..    +.++|    +...|.
T Consensus       281 ~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~FF~  360 (625)
T KOG4422|consen  281 SCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDNKFFQ  360 (625)
T ss_pred             HHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchhHHHH
Confidence            99999998765    56778889999999999999999999988887744 4555555443    23333    445666


Q ss_pred             HHHHHHHhccccccchhhhhhhhhh
Q 046446          211 IVVDLLAKNEISLNSLPSFTVHERQ  235 (244)
Q Consensus       211 ~l~~~~~~~g~~~~a~~~~~~~~~~  235 (244)
                      .-+..|.+..+.+-|.++-...+..
T Consensus       361 ~AM~Ic~~l~d~~LA~~v~~ll~tg  385 (625)
T KOG4422|consen  361 SAMSICSSLRDLELAYQVHGLLKTG  385 (625)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHcC
Confidence            7777888777777777766665543

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

Probab=99.54  E-value=4.8e-12  Score=95.85  Aligned_cols=228  Identities=12%  Similarity=0.067  Sum_probs=185.1

Q ss_pred             hhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCC--CChhHHHH----------
Q 046446            4 NGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVA--ADTRTYTI----------   71 (244)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~--~~~~~~~~----------   71 (244)
                      .++....+.+++..-.+.+...|++-+...-+....+.....+++.|+.+|+++.+...-  -|..+|..          
T Consensus       235 ~a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~sk  314 (559)
T KOG1155|consen  235 KAYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSK  314 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHH
Confidence            455556677778887778888777666655555556666778888888888888776210  13334433          


Q ss_pred             ---------------------HHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccC
Q 046446           72 ---------------------FIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRG  130 (244)
Q Consensus        72 ---------------------ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  130 (244)
                                           +.+-|+-.++.+.|...|++..+.+ +....+|+.+.+-|....+...|...++...+.
T Consensus       315 Ls~LA~~v~~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLN-p~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi  393 (559)
T KOG1155|consen  315 LSYLAQNVSNIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKLN-PKYLSAWTLMGHEYVEMKNTHAAIESYRRAVDI  393 (559)
T ss_pred             HHHHHHHHHHhccCCccceeeehhHHHHHHhHHHHHHHHHHHHhcC-cchhHHHHHhhHHHHHhcccHHHHHHHHHHHhc
Confidence                                 3345666778999999999999887 567888999999999999999999999999988


Q ss_pred             CccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHH
Q 046446          131 VLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVS  210 (244)
Q Consensus       131 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  210 (244)
                      + +.|-..|..|.++|.-.+.+.-|+-.|++..+.. +-|...|.+|..+|.+.++.++|+..|.+....|- .+...+.
T Consensus       394 ~-p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~k-PnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~d-te~~~l~  470 (559)
T KOG1155|consen  394 N-PRDYRAWYGLGQAYEIMKMHFYALYYFQKALELK-PNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGD-TEGSALV  470 (559)
T ss_pred             C-chhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccc-cchHHHH
Confidence            6 6689999999999999999999999999988753 34789999999999999999999999999988763 3668889


Q ss_pred             HHHHHHHhccccccchhhhhhhhhh
Q 046446          211 IVVDLLAKNEISLNSLPSFTVHERQ  235 (244)
Q Consensus       211 ~l~~~~~~~g~~~~a~~~~~~~~~~  235 (244)
                      .|.+.|.+.++.++|.+.|+.-...
T Consensus       471 ~LakLye~l~d~~eAa~~yek~v~~  495 (559)
T KOG1155|consen  471 RLAKLYEELKDLNEAAQYYEKYVEV  495 (559)
T ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHH
Confidence            9999999999999999988876553

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

Probab=99.53  E-value=1.6e-12  Score=101.96  Aligned_cols=220  Identities=14%  Similarity=0.109  Sum_probs=175.8

Q ss_pred             hhhhhcCChhHHHHHHHHHHhCCCCCC-hhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCC-hhHHHHHHHHHHhCCc
Q 046446            4 NGYCKNKEIEGALNLYSEMLSKGIKPD-VVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAAD-TRTYTIFIDGLCKNGY   81 (244)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~   81 (244)
                      ..+-.+|+.-.|+..|++..+.  .|+ ...|-.|...|...+.+++|+..|.+....  .|+ ...+..+...|...|.
T Consensus       226 ~~f~~~Gei~~aiq~y~eAvkl--dP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~l--rpn~A~a~gNla~iYyeqG~  301 (966)
T KOG4626|consen  226 CVFNAQGEIWLAIQHYEEAVKL--DPNFLDAYINLGNVYKEARIFDRAVSCYLRALNL--RPNHAVAHGNLACIYYEQGL  301 (966)
T ss_pred             hHHhhcchHHHHHHHHHHhhcC--CCcchHHHhhHHHHHHHHhcchHHHHHHHHHHhc--CCcchhhccceEEEEecccc
Confidence            3456678888888888888876  454 446788888888888888888888877664  444 5667788888888999


Q ss_pred             HHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHH
Q 046446           82 IVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLD  161 (244)
Q Consensus        82 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  161 (244)
                      .+.|+..|++..+.. +.-..+|+.|..++-..|+..+|.+.+.+..... +......+.|..+|...|.+++|.++|..
T Consensus       302 ldlAI~~Ykral~~~-P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~-p~hadam~NLgni~~E~~~~e~A~~ly~~  379 (966)
T KOG4626|consen  302 LDLAIDTYKRALELQ-PNFPDAYNNLANALKDKGSVTEAVDCYNKALRLC-PNHADAMNNLGNIYREQGKIEEATRLYLK  379 (966)
T ss_pred             HHHHHHHHHHHHhcC-CCchHHHhHHHHHHHhccchHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhccchHHHHHHHH
Confidence            999999999988765 4557889999999999999999999999888764 33477888999999999999999999988


Q ss_pred             HHHcCCCCc-HhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC-hhhHHHHHHHHHhccccccchhhhhhhh
Q 046446          162 MEENAVAPN-VITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPD-ASIVSIVVDLLAKNEISLNSLPSFTVHE  233 (244)
Q Consensus       162 ~~~~~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~  233 (244)
                      ..+-  .|. ...++.|...|-++|++++|...|++...  +.|+ ...|+.+...|...|+.+.|++.+....
T Consensus       380 al~v--~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykealr--I~P~fAda~~NmGnt~ke~g~v~~A~q~y~rAI  449 (966)
T KOG4626|consen  380 ALEV--FPEFAAAHNNLASIYKQQGNLDDAIMCYKEALR--IKPTFADALSNMGNTYKEMGDVSAAIQCYTRAI  449 (966)
T ss_pred             HHhh--ChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHh--cCchHHHHHHhcchHHHHhhhHHHHHHHHHHHH
Confidence            7763  343 45688888999999999999999998776  5676 3577888888888899888888887554

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

Probab=99.51  E-value=2.1e-12  Score=93.93  Aligned_cols=227  Identities=13%  Similarity=0.058  Sum_probs=192.7

Q ss_pred             hhhhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCc
Q 046446            2 LINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGY   81 (244)
Q Consensus         2 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~   81 (244)
                      |-.+|.+.|-+.+|..-|+.....  .|.+.||-.|-+.|.+..+.+.|+.++.+-.+. ++-|+....-+.+.+-..+.
T Consensus       229 ~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~-fP~~VT~l~g~ARi~eam~~  305 (478)
T KOG1129|consen  229 MGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS-FPFDVTYLLGQARIHEAMEQ  305 (478)
T ss_pred             HHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc-CCchhhhhhhhHHHHHHHHh
Confidence            346889999999999999998887  788899999999999999999999999988876 44455555567788888999


Q ss_pred             HHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHH
Q 046446           82 IVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLD  161 (244)
Q Consensus        82 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  161 (244)
                      .++|.++|+...+.. +.++....++...|.-.++++-|+.+++++.+.|+. +...|+.+.-.|.-.+++|-++.-|+.
T Consensus       306 ~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L~sf~R  383 (478)
T KOG1129|consen  306 QEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVLPSFQR  383 (478)
T ss_pred             HHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhHHHHHH
Confidence            999999999998875 578888888889999999999999999999999965 888999999999999999999999998


Q ss_pred             HHHcCCCCc--HhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchhhhhhhhh
Q 046446          162 MEENAVAPN--VITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFTVHER  234 (244)
Q Consensus       162 ~~~~~~~p~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  234 (244)
                      ....--.|+  ...|..+-...+..|++..|.+.|+-....+- -+...++.|.-.-.+.|++++|..+++....
T Consensus       384 Alstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~-~h~ealnNLavL~~r~G~i~~Arsll~~A~s  457 (478)
T KOG1129|consen  384 ALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDA-QHGEALNNLAVLAARSGDILGARSLLNAAKS  457 (478)
T ss_pred             HHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCc-chHHHHHhHHHHHhhcCchHHHHHHHHHhhh
Confidence            876544444  45677787888889999999999998887653 2567888888888899999999999886654

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

Probab=99.51  E-value=2e-12  Score=101.65  Aligned_cols=219  Identities=12%  Similarity=0.066  Sum_probs=171.3

Q ss_pred             ChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcC-----------------------------
Q 046446           11 EIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDG-----------------------------   61 (244)
Q Consensus        11 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-----------------------------   61 (244)
                      +..+|..+|..+..+ +.-+..+...+..+|...+++++|.++|+.+++..                             
T Consensus       334 ~~~~A~~~~~klp~h-~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~Ls~Laq~  412 (638)
T KOG1126|consen  334 NCREALNLFEKLPSH-HYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVALSYLAQD  412 (638)
T ss_pred             HHHHHHHHHHhhHHh-cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHHHHHHHH
Confidence            567899999986665 23344566778899999999999999999987641                             


Q ss_pred             ----CCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHH
Q 046446           62 ----VAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVV  137 (244)
Q Consensus        62 ----~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  137 (244)
                          -+-.+.+|.++.++|+-.++.+.|++.|++..+.+ +....+|+.+..-+....++|.|...|+...... +-+-.
T Consensus       413 Li~~~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQld-p~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~-~rhYn  490 (638)
T KOG1126|consen  413 LIDTDPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLD-PRFAYAYTLLGHESIATEEFDKAMKSFRKALGVD-PRHYN  490 (638)
T ss_pred             HHhhCCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccC-CccchhhhhcCChhhhhHHHHhHHHHHHhhhcCC-chhhH
Confidence                12256788888899999999999999999998875 3478889988888899999999999999888653 23455


Q ss_pred             HHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHH
Q 046446          138 TYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLA  217 (244)
Q Consensus       138 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  217 (244)
                      .|.-+.-.|.+.++++.|+-.|+...+-+.. +.+....+...+.+.|+.++|++++++......+ |+..--.-+..+.
T Consensus       491 AwYGlG~vy~Kqek~e~Ae~~fqkA~~INP~-nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~k-n~l~~~~~~~il~  568 (638)
T KOG1126|consen  491 AWYGLGTVYLKQEKLEFAEFHFQKAVEINPS-NSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPK-NPLCKYHRASILF  568 (638)
T ss_pred             HHHhhhhheeccchhhHHHHHHHhhhcCCcc-chhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCC-CchhHHHHHHHHH
Confidence            6667778899999999999999988874322 4555566667778889999999999998876533 4445555677788


Q ss_pred             hccccccchhhhhhhhh
Q 046446          218 KNEISLNSLPSFTVHER  234 (244)
Q Consensus       218 ~~g~~~~a~~~~~~~~~  234 (244)
                      ..+++++|+..+++++.
T Consensus       569 ~~~~~~eal~~LEeLk~  585 (638)
T KOG1126|consen  569 SLGRYVEALQELEELKE  585 (638)
T ss_pred             hhcchHHHHHHHHHHHH
Confidence            88999999999987764

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

Probab=99.51  E-value=7.5e-11  Score=87.84  Aligned_cols=221  Identities=14%  Similarity=0.033  Sum_probs=153.5

Q ss_pred             cCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHH
Q 046446            9 NKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVEL   88 (244)
Q Consensus         9 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~   88 (244)
                      .|+|..|+++..+-.+++ +.....|..-..+.-+.|+.+.+-.++.+..+.-..++....-+..+.....|+.+.|..-
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 EGDFQQAEKLLRRNAEHG-EQPVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAAREN  175 (400)
T ss_pred             cCcHHHHHHHHHHhhhcC-cchHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHH
Confidence            477777777777766664 2233345555566666677777777777766653334444455555566666666666666


Q ss_pred             HHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCc------------------------------------
Q 046446           89 FRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVL------------------------------------  132 (244)
Q Consensus        89 ~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~------------------------------------  132 (244)
                      +.++.+.+ +.++........+|.+.|++.....++..+.+.+.                                    
T Consensus       176 v~~ll~~~-pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~  254 (400)
T COG3071         176 VDQLLEMT-PRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKN  254 (400)
T ss_pred             HHHHHHhC-cCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHh
Confidence            66666655 45566666666666666666666666666654432                                    


Q ss_pred             -----cccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCC------------------------------cHhHHHHH
Q 046446          133 -----VADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAP------------------------------NVITFGTL  177 (244)
Q Consensus       133 -----~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p------------------------------~~~~~~~l  177 (244)
                           ..++..-.+++.-+.+.|+.++|.++..+..+++..|                              ++..+.++
T Consensus       255 ~pr~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L~~~~~~l~~~d~~~l~k~~e~~l~~h~~~p~L~~tL  334 (400)
T COG3071         255 QPRKLRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRLCRLIPRLRPGDPEPLIKAAEKWLKQHPEDPLLLSTL  334 (400)
T ss_pred             ccHHhhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhHHHHHhhcCCCCchHHHHHHHHHHHhCCCChhHHHHH
Confidence                 1223333556666777888888888887776654332                              45668889


Q ss_pred             HHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchhhhhhhh
Q 046446          178 IHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFTVHE  233 (244)
Q Consensus       178 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  233 (244)
                      ...|.+.+.|.+|.+.|+...+.  .|+..+|..+.+++.+.|+..+|.+.+++..
T Consensus       335 G~L~~k~~~w~kA~~~leaAl~~--~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L  388 (400)
T COG3071         335 GRLALKNKLWGKASEALEAALKL--RPSASDYAELADALDQLGEPEEAEQVRREAL  388 (400)
T ss_pred             HHHHHHhhHHHHHHHHHHHHHhc--CCChhhHHHHHHHHHHcCChHHHHHHHHHHH
Confidence            99999999999999999976664  6999999999999999999999999888765

>PRK12370 invasion protein regulator; Provisional

Probab=99.49  E-value=2.3e-11  Score=99.21  Aligned_cols=219  Identities=11%  Similarity=0.014  Sum_probs=155.9

Q ss_pred             hcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHH
Q 046446            8 KNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVE   87 (244)
Q Consensus         8 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~   87 (244)
                      ..+++++|...+++..+.. +-+...+..+...+...|++++|...|++..+.+ +.+...+..+...+...|++++|..
T Consensus       316 ~~~~~~~A~~~~~~Al~ld-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~  393 (553)
T PRK12370        316 KQNAMIKAKEHAIKATELD-HNNPQALGLLGLINTIHSEYIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQ  393 (553)
T ss_pred             cchHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            3456899999999999874 4466778888888889999999999999999874 3356778889999999999999999


Q ss_pred             HHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCC
Q 046446           88 LFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAV  167 (244)
Q Consensus        88 ~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~  167 (244)
                      .+++..+.+ +.+...+..++..+...|++++|...+++......+-+...+..+..++...|+.++|...+..+...  
T Consensus       394 ~~~~Al~l~-P~~~~~~~~~~~~~~~~g~~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~--  470 (553)
T PRK12370        394 TINECLKLD-PTRAAAGITKLWITYYHTGIDDAIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQ--  470 (553)
T ss_pred             HHHHHHhcC-CCChhhHHHHHHHHHhccCHHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhc--
Confidence            999998875 23333444455557778999999999999876532224556777888889999999999999887654  


Q ss_pred             CCc-HhHHHHHHHHHHhcCChhHHHHHHHHHHHC-CCCCChhhHHHHHHHHHhccccccchhhhhhhhhhh
Q 046446          168 APN-VITFGTLIHGFIRINEPSKVIELLHKMKEK-NVMPDASIVSIVVDLLAKNEISLNSLPSFTVHERQE  236 (244)
Q Consensus       168 ~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  236 (244)
                      .|+ ....+.+...+...|  +.+...++.+.+. ...|....+  +-..|.-.|+.+.+... +.+.+.+
T Consensus       471 ~~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~~~~~~~~~~~--~~~~~~~~g~~~~~~~~-~~~~~~~  536 (553)
T PRK12370        471 EITGLIAVNLLYAEYCQNS--ERALPTIREFLESEQRIDNNPGL--LPLVLVAHGEAIAEKMW-NKFKNED  536 (553)
T ss_pred             cchhHHHHHHHHHHHhccH--HHHHHHHHHHHHHhhHhhcCchH--HHHHHHHHhhhHHHHHH-HHhhccc
Confidence            233 334455556667777  4778877776653 223332223  33344444555544444 5554443

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.49  E-value=6.8e-11  Score=92.69  Aligned_cols=219  Identities=12%  Similarity=0.071  Sum_probs=164.7

Q ss_pred             hcCChhHHHHHHHHHHhCCCCCChhhHHHH-HHHHhhhchHHHHHHHHHHHHHcCCCCChhHHH--HHHHHHHhCCcHHH
Q 046446            8 KNKEIEGALNLYSEMLSKGIKPDVVIHNTL-FIGLFEIHQVERAFKLFDEMQRDGVAADTRTYT--IFIDGLCKNGYIVE   84 (244)
Q Consensus         8 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~--~ll~~~~~~~~~~~   84 (244)
                      -.|+++.|.+.+....+.  .+++..+..+ ..+..+.|+++.|...+.++.+.  .|+.....  .....+...|+++.
T Consensus        96 ~eGd~~~A~k~l~~~~~~--~~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~  171 (398)
T PRK10747         96 AEGDYQQVEKLMTRNADH--AEQPVVNYLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHA  171 (398)
T ss_pred             hCCCHHHHHHHHHHHHhc--ccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHH
Confidence            369999999888876665  2233444333 44457889999999999999875  55654333  34678889999999


Q ss_pred             HHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccc------------------------------
Q 046446           85 SVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVA------------------------------  134 (244)
Q Consensus        85 a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~------------------------------  134 (244)
                      |.+.+++..+.. |-+......+...|.+.|++++|.+++..+.+.+..+                              
T Consensus       172 Al~~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~  250 (398)
T PRK10747        172 ARHGVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKR  250 (398)
T ss_pred             HHHHHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHH
Confidence            999999999876 6678899999999999999999998888877554221                              


Q ss_pred             -----------cHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCC
Q 046446          135 -----------DVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVM  203 (244)
Q Consensus       135 -----------~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  203 (244)
                                 ++.....+...+...|+.++|.+.+++..+.  .|+....  ++.+....++.+++.+..+...+.. +
T Consensus       251 ~w~~lp~~~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l~--~l~~~l~~~~~~~al~~~e~~lk~~-P  325 (398)
T PRK10747        251 WWKNQSRKTRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERLV--LLIPRLKTNNPEQLEKVLRQQIKQH-G  325 (398)
T ss_pred             HHHhCCHHHhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHH--HHHhhccCCChHHHHHHHHHHHhhC-C
Confidence                       2233445567778889999999999888774  3444222  2334445689999999999888764 2


Q ss_pred             CChhhHHHHHHHHHhccccccchhhhhhhhhhh
Q 046446          204 PDASIVSIVVDLLAKNEISLNSLPSFTVHERQE  236 (244)
Q Consensus       204 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  236 (244)
                      -|...+..+.+.+.+.|++++|.+.|+......
T Consensus       326 ~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~~  358 (398)
T PRK10747        326 DTPLLWSTLGQLLMKHGEWQEASLAFRAALKQR  358 (398)
T ss_pred             CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            355667889999999999999999998887653

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.49  E-value=1e-10  Score=98.97  Aligned_cols=228  Identities=11%  Similarity=0.063  Sum_probs=142.0

Q ss_pred             hhhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcH
Q 046446            3 INGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYI   82 (244)
Q Consensus         3 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~   82 (244)
                      ...+...|++++|..+|++..+.. +.+...+..+...+...|++++|+..++++.+. .+.+.. +..+..++...|+.
T Consensus        56 A~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~l~~~g~~~eA~~~l~~~l~~-~P~~~~-~~~la~~l~~~g~~  132 (765)
T PRK10049         56 AVAYRNLKQWQNSLTLWQKALSLE-PQNDDYQRGLILTLADAGQYDEALVKAKQLVSG-APDKAN-LLALAYVYKRAGRH  132 (765)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHH-HHHHHHHHHHCCCH
Confidence            445677788888888888877652 334556667777777788888888888887776 233445 77777777888888


Q ss_pred             HHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhccc---------------------------------
Q 046446           83 VESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPR---------------------------------  129 (244)
Q Consensus        83 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~---------------------------------  129 (244)
                      ++|+..++++.+.. |.+...+..+..++...+..++|+..++....                                 
T Consensus       133 ~~Al~~l~~al~~~-P~~~~~~~~la~~l~~~~~~e~Al~~l~~~~~~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~  211 (765)
T PRK10049        133 WDELRAMTQALPRA-PQTQQYPTEYVQALRNNRLSAPALGAIDDANLTPAEKRDLEADAAAELVRLSFMPTRSEKERYAI  211 (765)
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCChHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhhcccccChhHHHHH
Confidence            88888888887764 34555555566666666665555544443222                                 


Q ss_pred             -------------C-CccccHH-HHH----HHHHHHHccCChHHHHHHHHHHHHcCCC-CcHhHHHHHHHHHHhcCChhH
Q 046446          130 -------------G-VLVADVV-TYS----IMIHGLYNDGQMDKAHDLFLDMEENAVA-PNVITFGTLIHGFIRINEPSK  189 (244)
Q Consensus       130 -------------~-~~~~~~~-~~~----~li~~~~~~~~~~~a~~~~~~~~~~~~~-p~~~~~~~l~~~~~~~g~~~~  189 (244)
                                   . ...|+.. .+.    ..+.++...|++++|...|+.+.+.+.. |+. .-..+..++...|++++
T Consensus       212 ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~  290 (765)
T PRK10049        212 ADRALAQYDALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEK  290 (765)
T ss_pred             HHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHH
Confidence                         1 0011110 010    1122345567788888888887765422 222 12224567777888888


Q ss_pred             HHHHHHHHHHCCCCC---ChhhHHHHHHHHHhccccccchhhhhhhhhh
Q 046446          190 VIELLHKMKEKNVMP---DASIVSIVVDLLAKNEISLNSLPSFTVHERQ  235 (244)
Q Consensus       190 a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  235 (244)
                      |...|+++.......   .......+..++.+.|++++|++.++.+...
T Consensus       291 A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~  339 (765)
T PRK10049        291 AQSILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINN  339 (765)
T ss_pred             HHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhc
Confidence            888888876543111   1234555666778888888888888777654

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.46  E-value=4.1e-11  Score=94.50  Aligned_cols=235  Identities=14%  Similarity=0.057  Sum_probs=173.5

Q ss_pred             hhhhhhhcCChhHHHHHHHHHHhC-----CC-CCChh-hHHHHHHHHhhhchHHHHHHHHHHHHHc-----CC--CCChh
Q 046446            2 LINGYCKNKEIEGALNLYSEMLSK-----GI-KPDVV-IHNTLFIGLFEIHQVERAFKLFDEMQRD-----GV--AADTR   67 (244)
Q Consensus         2 li~~~~~~~~~~~a~~~~~~~~~~-----~~-~~~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~-----~~--~~~~~   67 (244)
                      |...|...|+++.|+.+++...+.     |. .|... ..+.+...|...+++++|..+|+++...     |-  +--..
T Consensus       205 La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h~~va~  284 (508)
T KOG1840|consen  205 LAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDHPAVAA  284 (508)
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCCHHHHH
Confidence            456799999999999999997764     21 23333 3445777888899999999999998653     21  11245


Q ss_pred             HHHHHHHHHHhCCcHHHHHHHHHHHHHh-----CC-Ccc-HHhHHHHHHHHHcCCCHHHHHHHHHhcccC---Ccc----
Q 046446           68 TYTIFIDGLCKNGYIVESVELFRTLRIL-----KC-ELD-IQAYSCLIDGLCKSGRLEIALELFHSLPRG---VLV----  133 (244)
Q Consensus        68 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~-----~~-~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~---~~~----  133 (244)
                      +++.|..+|.+.|++++|...+++..+-     +. .|. ...++.+...|...+++++|..+++...+.   -..    
T Consensus       285 ~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~  364 (508)
T KOG1840|consen  285 TLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNV  364 (508)
T ss_pred             HHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccch
Confidence            6788888999999999999888876431     21 122 223677788899999999999988865321   011    


Q ss_pred             ccHHHHHHHHHHHHccCChHHHHHHHHHHHHc----CC--CC-cHhHHHHHHHHHHhcCChhHHHHHHHHHHH----CC-
Q 046446          134 ADVVTYSIMIHGLYNDGQMDKAHDLFLDMEEN----AV--AP-NVITFGTLIHGFIRINEPSKVIELLHKMKE----KN-  201 (244)
Q Consensus       134 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~--~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~----~~-  201 (244)
                      --..+++.|...|...|++++|.++++.....    +-  .+ ....++.+...|.+.+.+..|.++|.+...    .| 
T Consensus       365 ~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~  444 (508)
T KOG1840|consen  365 NLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGP  444 (508)
T ss_pred             HHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCC
Confidence            12568899999999999999999999987642    11  22 245678888999999999999999887542    22 


Q ss_pred             -CCCChhhHHHHHHHHHhccccccchhhhhhhhhhh
Q 046446          202 -VMPDASIVSIVVDLLAKNEISLNSLPSFTVHERQE  236 (244)
Q Consensus       202 -~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  236 (244)
                       .+-...+|..|...|.+.|+++.|.++.+...+-.
T Consensus       445 ~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~~~~  480 (508)
T KOG1840|consen  445 DHPDVTYTYLNLAALYRAQGNYEAAEELEEKVLNAR  480 (508)
T ss_pred             CCCchHHHHHHHHHHHHHcccHHHHHHHHHHHHHHH
Confidence             22235789999999999999999999998877543

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

Probab=99.45  E-value=4.8e-11  Score=90.70  Aligned_cols=209  Identities=15%  Similarity=0.141  Sum_probs=169.5

Q ss_pred             hhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHH
Q 046446            7 CKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESV   86 (244)
Q Consensus         7 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~   86 (244)
                      ...|++++|...|++.+...-.-....||.-+ .+-..|++++|++.|-++... +.-+..+...+.+.|-...+..+|+
T Consensus       501 f~ngd~dka~~~ykeal~ndasc~ealfnigl-t~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqai  578 (840)
T KOG2003|consen  501 FANGDLDKAAEFYKEALNNDASCTEALFNIGL-TAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAI  578 (840)
T ss_pred             eecCcHHHHHHHHHHHHcCchHHHHHHHHhcc-cHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHH
Confidence            34799999999999998763222233344333 355779999999999887664 3447788889999999999999999


Q ss_pred             HHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcC
Q 046446           87 ELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENA  166 (244)
Q Consensus        87 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~  166 (244)
                      +++.+.... ++.++.+.+.|...|-+.|+-..|+..+-.--+. ++-+..+...|...|....-++++..+|+...-  
T Consensus       579 e~~~q~~sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyry-fp~nie~iewl~ayyidtqf~ekai~y~ekaal--  654 (840)
T KOG2003|consen  579 ELLMQANSL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRY-FPCNIETIEWLAAYYIDTQFSEKAINYFEKAAL--  654 (840)
T ss_pred             HHHHHhccc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhcccc-cCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHh--
Confidence            999888764 5778999999999999999999999887665443 356788999999999999999999999998654  


Q ss_pred             CCCcHhHHHHHHHHH-HhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcccc
Q 046446          167 VAPNVITFGTLIHGF-IRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEIS  222 (244)
Q Consensus       167 ~~p~~~~~~~l~~~~-~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  222 (244)
                      +.|+..-|..++..| .+.|++.+|+++|++...+ ++-|......|++.+...|..
T Consensus       655 iqp~~~kwqlmiasc~rrsgnyqka~d~yk~~hrk-fpedldclkflvri~~dlgl~  710 (840)
T KOG2003|consen  655 IQPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHRK-FPEDLDCLKFLVRIAGDLGLK  710 (840)
T ss_pred             cCccHHHHHHHHHHHHHhcccHHHHHHHHHHHHHh-CccchHHHHHHHHHhccccch
Confidence            679999999988655 4689999999999998765 677889999999988877754

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.45  E-value=2.8e-10  Score=96.34  Aligned_cols=228  Identities=11%  Similarity=0.009  Sum_probs=169.0

Q ss_pred             hhhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcH
Q 046446            3 INGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYI   82 (244)
Q Consensus         3 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~   82 (244)
                      +......|+.++|+++|....... +.+...+..+...+...|++++|..+|++..+. -+.+...+..+...+...|++
T Consensus        22 ~~ia~~~g~~~~A~~~~~~~~~~~-~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~-~P~~~~a~~~la~~l~~~g~~   99 (765)
T PRK10049         22 LQIALWAGQDAEVITVYNRYRVHM-QLPARGYAAVAVAYRNLKQWQNSLTLWQKALSL-EPQNDDYQRGLILTLADAGQY   99 (765)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHCCCH
Confidence            345677899999999999998732 456667899999999999999999999998886 234567778888999999999


Q ss_pred             HHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHH--
Q 046446           83 VESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFL--  160 (244)
Q Consensus        83 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~--  160 (244)
                      ++|...+++..+.. +.+.. +..+..++...|+.++|+..++++.+.. +.+...+..+..++...+..++|.+.++  
T Consensus       100 ~eA~~~l~~~l~~~-P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~-P~~~~~~~~la~~l~~~~~~e~Al~~l~~~  176 (765)
T PRK10049        100 DEALVKAKQLVSGA-PDKAN-LLALAYVYKRAGRHWDELRAMTQALPRA-PQTQQYPTEYVQALRNNRLSAPALGAIDDA  176 (765)
T ss_pred             HHHHHHHHHHHHhC-CCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCChHHHHHHHHhC
Confidence            99999999998874 45666 8889999999999999999999998874 3345566666666666666665554443  


Q ss_pred             --------------------------------------------HHHHc-CCCCcHh-HHH----HHHHHHHhcCChhHH
Q 046446          161 --------------------------------------------DMEEN-AVAPNVI-TFG----TLIHGFIRINEPSKV  190 (244)
Q Consensus       161 --------------------------------------------~~~~~-~~~p~~~-~~~----~l~~~~~~~g~~~~a  190 (244)
                                                                  .+.+. ...|+.. .+.    ..+..+...|++++|
T Consensus       177 ~~~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA  256 (765)
T PRK10049        177 NLTPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGALLARDRYKDV  256 (765)
T ss_pred             CCCHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHH
Confidence                                                        33321 1122211 111    112344577899999


Q ss_pred             HHHHHHHHHCCCC-CChhhHHHHHHHHHhccccccchhhhhhhhhhh
Q 046446          191 IELLHKMKEKNVM-PDASIVSIVVDLLAKNEISLNSLPSFTVHERQE  236 (244)
Q Consensus       191 ~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  236 (244)
                      ...|+.+.+.+.. |+. ....+..+|...|++++|+..|+.+....
T Consensus       257 ~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A~~~l~~~l~~~  302 (765)
T PRK10049        257 ISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEKAQSILTELFYHP  302 (765)
T ss_pred             HHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHHHHHHHHHHhhcC
Confidence            9999999887532 332 22335779999999999999999876543

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

Probab=99.42  E-value=2.1e-10  Score=87.20  Aligned_cols=193  Identities=12%  Similarity=0.037  Sum_probs=134.2

Q ss_pred             hhhhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCc
Q 046446            2 LINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGY   81 (244)
Q Consensus         2 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~   81 (244)
                      +.+-|.-.+++++|...|++..+.+ +-....|+.+..-|...++...|.+-|++..+-. +.|-..|..|.++|.-.+.
T Consensus       336 IaNYYSlr~eHEKAv~YFkRALkLN-p~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~-p~DyRAWYGLGQaYeim~M  413 (559)
T KOG1155|consen  336 IANYYSLRSEHEKAVMYFKRALKLN-PKYLSAWTLMGHEYVEMKNTHAAIESYRRAVDIN-PRDYRAWYGLGQAYEIMKM  413 (559)
T ss_pred             ehhHHHHHHhHHHHHHHHHHHHhcC-cchhHHHHHhhHHHHHhcccHHHHHHHHHHHhcC-chhHHHHhhhhHHHHHhcc
Confidence            3445666677788888888887764 3345567777777888888888888888777763 3477778888888888888


Q ss_pred             HHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHH
Q 046446           82 IVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLD  161 (244)
Q Consensus        82 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  161 (244)
                      +.-|+-.|++..+.. |.|...|.+|..+|.+.++.++|.+.|.+....| ..+...+..|...|-+.++.++|...|..
T Consensus       414 h~YaLyYfqkA~~~k-PnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~-dte~~~l~~LakLye~l~d~~eAa~~yek  491 (559)
T KOG1155|consen  414 HFYALYYFQKALELK-PNDSRLWVALGECYEKLNRLEEAIKCYKRAILLG-DTEGSALVRLAKLYEELKDLNEAAQYYEK  491 (559)
T ss_pred             hHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHHHHhHHHHHHHHHH
Confidence            888888888777665 5677788888888888888888888888777665 33557777888888888888888777766


Q ss_pred             HHH----cCCC-C-cHhHHHHHHHHHHhcCChhHHHHHHHHHH
Q 046446          162 MEE----NAVA-P-NVITFGTLIHGFIRINEPSKVIELLHKMK  198 (244)
Q Consensus       162 ~~~----~~~~-p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  198 (244)
                      ..+    .|.. | .......|...+.+.+++++|........
T Consensus       492 ~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~~~  534 (559)
T KOG1155|consen  492 YVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEASYYATLVL  534 (559)
T ss_pred             HHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHHHHHHHHh
Confidence            543    2222 2 12222334556667777777766554443

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

Probab=99.42  E-value=6.9e-10  Score=80.83  Aligned_cols=196  Identities=15%  Similarity=0.144  Sum_probs=104.8

Q ss_pred             hhhhhhhcCChhHHHHHHHHHHhCC-CCCC--hhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHh
Q 046446            2 LINGYCKNKEIEGALNLYSEMLSKG-IKPD--VVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCK   78 (244)
Q Consensus         2 li~~~~~~~~~~~a~~~~~~~~~~~-~~~~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~   78 (244)
                      |=+.|.+.|.+++|+++...+..+. .+-+  ......|..-|...|-+|.|+.+|..+.+.|.. -......|+..|-.
T Consensus        75 LGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DRAE~~f~~L~de~ef-a~~AlqqLl~IYQ~  153 (389)
T COG2956          75 LGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRAEDIFNQLVDEGEF-AEGALQQLLNIYQA  153 (389)
T ss_pred             HHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHhcchhh-hHHHHHHHHHHHHH
Confidence            3355666777777777777766641 1111  122334555566667777777777666654322 34456666666666


Q ss_pred             CCcHHHHHHHHHHHHHhCCCccH----HhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHH
Q 046446           79 NGYIVESVELFRTLRILKCELDI----QAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDK  154 (244)
Q Consensus        79 ~~~~~~a~~~~~~~~~~~~~~~~----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~  154 (244)
                      ..+|++|+++-+++.+.+-.+..    ..|--|...+....+.+.|...+++..+.+ +..+..--.+.+.....|++..
T Consensus       154 treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kAlqa~-~~cvRAsi~lG~v~~~~g~y~~  232 (389)
T COG2956         154 TREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKKALQAD-KKCVRASIILGRVELAKGDYQK  232 (389)
T ss_pred             hhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHhhC-ccceehhhhhhHHHHhccchHH
Confidence            66777776666666554432221    124444455555555555555555555442 1122233334455555555555


Q ss_pred             HHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHH
Q 046446          155 AHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKE  199 (244)
Q Consensus       155 a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  199 (244)
                      |.+.++.+.+.+..--+.+...|..+|.+.|+.++....+..+.+
T Consensus       233 AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~  277 (389)
T COG2956         233 AVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAME  277 (389)
T ss_pred             HHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            555555555544333344445555555555555555555554443

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.37  E-value=6.9e-10  Score=83.55  Aligned_cols=218  Identities=12%  Similarity=0.010  Sum_probs=152.0

Q ss_pred             cCChhHHHHHHHHHHhCC-CCCC--hhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHH
Q 046446            9 NKEIEGALNLYSEMLSKG-IKPD--VVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVES   85 (244)
Q Consensus         9 ~~~~~~a~~~~~~~~~~~-~~~~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   85 (244)
                      .+..+.++.-+.++.... ..|+  ...|..+...+...|++++|...|++..+.. +.+...|+.+...+...|++++|
T Consensus        39 ~~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g~~~~A  117 (296)
T PRK11189         39 TLQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAGNFDAA  117 (296)
T ss_pred             chHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCCHHHH
Confidence            355567777787777642 2222  3457777788889999999999999988863 33678899999999999999999


Q ss_pred             HHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHc
Q 046446           86 VELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEEN  165 (244)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  165 (244)
                      .+.|++..+.. +-+..+|..+..++...|++++|.+.|+...+..  |+..........+...++.++|...|......
T Consensus       118 ~~~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~--P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~  194 (296)
T PRK11189        118 YEAFDSVLELD-PTYNYAYLNRGIALYYGGRYELAQDDLLAFYQDD--PNDPYRALWLYLAESKLDPKQAKENLKQRYEK  194 (296)
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHccCCHHHHHHHHHHHHhh
Confidence            99999998765 4467788888888999999999999999988763  44322222233345677899999999765533


Q ss_pred             CCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHC---CC--CC-ChhhHHHHHHHHHhccccccchhhhhhhhhh
Q 046446          166 AVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEK---NV--MP-DASIVSIVVDLLAKNEISLNSLPSFTVHERQ  235 (244)
Q Consensus       166 ~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~--~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  235 (244)
                      . .|+.  |.. .......|+...+ +.+..+.+.   .+  .| ....|..+...+.+.|+.++|+..|+.....
T Consensus       195 ~-~~~~--~~~-~~~~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~  265 (296)
T PRK11189        195 L-DKEQ--WGW-NIVEFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALAN  265 (296)
T ss_pred             C-Cccc--cHH-HHHHHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            2 2332  221 1222335555544 344444432   11  11 2357888999999999999999999876643

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

Probab=99.37  E-value=1.5e-11  Score=99.83  Aligned_cols=197  Identities=22%  Similarity=0.207  Sum_probs=137.8

Q ss_pred             HHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcC------------------------CCCChhHHHHH
Q 046446           17 NLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDG------------------------VAADTRTYTIF   72 (244)
Q Consensus        17 ~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~------------------------~~~~~~~~~~l   72 (244)
                      ..+-.+...|+.|+..||..+|.-|+..|+.+.|- +|.-|+-+.                        -.|.+.||..|
T Consensus        11 nfla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpkep~aDtyt~L   89 (1088)
T KOG4318|consen   11 NFLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPKEPLADTYTNL   89 (1088)
T ss_pred             hHHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCCCCchhHHHHH
Confidence            35566778899999999999999999999999887 766665331                        24677899999


Q ss_pred             HHHHHhCCcHHHHHHHHHH-HH-------HhCC-----------------CccHHhHHHHHHHHHcCCCHHHHHHHHHhc
Q 046446           73 IDGLCKNGYIVESVELFRT-LR-------ILKC-----------------ELDIQAYSCLIDGLCKSGRLEIALELFHSL  127 (244)
Q Consensus        73 l~~~~~~~~~~~a~~~~~~-~~-------~~~~-----------------~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~  127 (244)
                      ..+|...||... ++..++ +.       ..|+                 -|+..   ..+....-.|.++.+++++..+
T Consensus        90 l~ayr~hGDli~-fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~---n~illlv~eglwaqllkll~~~  165 (1088)
T KOG4318|consen   90 LKAYRIHGDLIL-FEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAE---NAILLLVLEGLWAQLLKLLAKV  165 (1088)
T ss_pred             HHHHHhccchHH-HHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHH---HHHHHHHHHHHHHHHHHHHhhC
Confidence            999999998765 222222 21       1121                 11111   1111122223333333333211


Q ss_pred             ------------------------------ccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHH
Q 046446          128 ------------------------------PRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTL  177 (244)
Q Consensus       128 ------------------------------~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l  177 (244)
                                                    ....-.|+..+|..++..-..+|+.+.|..++.+|.+.|++.+.+-|-.+
T Consensus       166 Pvsa~~~p~~vfLrqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~HyFwpL  245 (1088)
T KOG4318|consen  166 PVSAWNAPFQVFLRQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHYFWPL  245 (1088)
T ss_pred             CcccccchHHHHHHHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcccccchhh
Confidence                                          11111478889999999999999999999999999999999998877777


Q ss_pred             HHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccc
Q 046446          178 IHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEI  221 (244)
Q Consensus       178 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  221 (244)
                      +-+   .++..-++.++.-|.+.|+.|+..|+..-+-.+.+.|.
T Consensus       246 l~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~  286 (1088)
T KOG4318|consen  246 LLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQ  286 (1088)
T ss_pred             hhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchh
Confidence            665   77888888899999999999999999877776666554

>TIGR00540 hemY_coli hemY protein

Probab=99.36  E-value=9e-10  Score=86.80  Aligned_cols=217  Identities=11%  Similarity=0.072  Sum_probs=115.8

Q ss_pred             hhhcCChhHHHHHHHHHHhCCCCCChh--hHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHH
Q 046446            6 YCKNKEIEGALNLYSEMLSKGIKPDVV--IHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIV   83 (244)
Q Consensus         6 ~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   83 (244)
                      ..+.|+++.|.+.+.+..+.  .|+..  ..-.....+...|+++.|...++.+.+.. +-++.++..+...+.+.|+++
T Consensus       128 a~~~g~~~~A~~~l~~a~~~--~p~~~l~~~~~~a~l~l~~~~~~~Al~~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~  204 (409)
T TIGR00540       128 AQQRGDEARANQHLEEAAEL--AGNDNILVEIARTRILLAQNELHAARHGVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQ  204 (409)
T ss_pred             HHHCCCHHHHHHHHHHHHHh--CCcCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHH
Confidence            33445555555555555443  23322  22223444445555555555555555543 113444555555555555555


Q ss_pred             HHHHHHHHHHHhCCCccHHhHH-HHHHHH---HcCCC----HHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHH
Q 046446           84 ESVELFRTLRILKCELDIQAYS-CLIDGL---CKSGR----LEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKA  155 (244)
Q Consensus        84 ~a~~~~~~~~~~~~~~~~~~~~-~ll~~~---~~~~~----~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a  155 (244)
                      +|.+.+..+.+.+.. +...+. .-..++   ...+.    .+.....++..... .+.+...+..+...+...|+.++|
T Consensus       205 ~a~~~l~~l~k~~~~-~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~~~~~p~~-~~~~~~l~~~~a~~l~~~g~~~~A  282 (409)
T TIGR00540       205 ALDDIIDNMAKAGLF-DDEEFADLEQKAEIGLLDEAMADEGIDGLLNWWKNQPRH-RRHNIALKIALAEHLIDCDDHDSA  282 (409)
T ss_pred             HHHHHHHHHHHcCCC-CHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHCCHH-HhCCHHHHHHHHHHHHHCCChHHH
Confidence            555555555555432 222111 001111   11111    11222222222111 112566777778888889999999


Q ss_pred             HHHHHHHHHcCCCCcHhH--H-HHHHHHHHhcCChhHHHHHHHHHHHCCCCCCh---hhHHHHHHHHHhccccccchhhh
Q 046446          156 HDLFLDMEENAVAPNVIT--F-GTLIHGFIRINEPSKVIELLHKMKEKNVMPDA---SIVSIVVDLLAKNEISLNSLPSF  229 (244)
Q Consensus       156 ~~~~~~~~~~~~~p~~~~--~-~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~a~~~~  229 (244)
                      .+++++..+..  ||...  + ..........++.+.+.+.++...+.  .|+.   .....+...+.+.|++++|.+.|
T Consensus       283 ~~~l~~~l~~~--pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~--~p~~~~~~ll~sLg~l~~~~~~~~~A~~~l  358 (409)
T TIGR00540       283 QEIIFDGLKKL--GDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKN--VDDKPKCCINRALGQLLMKHGEFIEAADAF  358 (409)
T ss_pred             HHHHHHHHhhC--CCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHh--CCCChhHHHHHHHHHHHHHcccHHHHHHHH
Confidence            99999988753  33331  1 11112223457778888888877765  3443   45668889999999999999999


Q ss_pred             hh
Q 046446          230 TV  231 (244)
Q Consensus       230 ~~  231 (244)
                      +.
T Consensus       359 e~  360 (409)
T TIGR00540       359 KN  360 (409)
T ss_pred             HH
Confidence            83

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

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

Probab=99.36  E-value=2.7e-09  Score=74.29  Aligned_cols=197  Identities=13%  Similarity=0.026  Sum_probs=121.1

Q ss_pred             HHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHc
Q 046446           34 HNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCK  113 (244)
Q Consensus        34 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~  113 (244)
                      ...+...|.+.|+...|..-+++..+.. +-+..+|..+...|.+.|+.+.|.+.|++..+.. +.+..+.|.....+|.
T Consensus        38 rlqLal~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~-p~~GdVLNNYG~FLC~  115 (250)
T COG3063          38 RLQLALGYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALSLA-PNNGDVLNNYGAFLCA  115 (250)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC-CCccchhhhhhHHHHh
Confidence            4445556666677777777777666652 2244566666666667777777777777666654 4556666666666677


Q ss_pred             CCCHHHHHHHHHhcccCC-ccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHH
Q 046446          114 SGRLEIALELFHSLPRGV-LVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIE  192 (244)
Q Consensus       114 ~~~~~~a~~~~~~~~~~~-~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~  192 (244)
                      .|++++|...|++....- +.....+|..+.-...+.|+.+.|...|+...+.... ...+...+.......|++-.|..
T Consensus       116 qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~-~~~~~l~~a~~~~~~~~y~~Ar~  194 (250)
T COG3063         116 QGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQ-FPPALLELARLHYKAGDYAPARL  194 (250)
T ss_pred             CCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcC-CChHHHHHHHHHHhcccchHHHH
Confidence            777777777776665442 1222446666666666677777777777666654322 34455566666666677777766


Q ss_pred             HHHHHHHCCCCCChhhHHHHHHHHHhccccccchhhhhhhhh
Q 046446          193 LLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFTVHER  234 (244)
Q Consensus       193 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  234 (244)
                      .++.....+. ++.......|+.-...|+.+.+-++=..+.+
T Consensus       195 ~~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r  235 (250)
T COG3063         195 YLERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQR  235 (250)
T ss_pred             HHHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            6666665544 6666666666666666666555554444433

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.35  E-value=1.7e-09  Score=90.96  Aligned_cols=228  Identities=13%  Similarity=0.043  Sum_probs=154.8

Q ss_pred             hhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHH
Q 046446            4 NGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIV   83 (244)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   83 (244)
                      ..+...|++++|+++|+++.+.. +-++..+..++..+...++.++|++.++++...  .|+...+..++..+...++..
T Consensus       110 ~ly~~~gdyd~Aiely~kaL~~d-P~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~~  186 (822)
T PRK14574        110 RAYRNEKRWDQALALWQSSLKKD-PTNPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRNY  186 (822)
T ss_pred             HHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchHH
Confidence            45667788888888888887763 334556666677777788888888888877765  445555544444444455665


Q ss_pred             HHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcc-----------------------------------
Q 046446           84 ESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLP-----------------------------------  128 (244)
Q Consensus        84 ~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~-----------------------------------  128 (244)
                      +|++.++++.+.. |.+...+..+..+..+.|-...|+++.++-.                                   
T Consensus       187 ~AL~~~ekll~~~-P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~  265 (822)
T PRK14574        187 DALQASSEAVRLA-PTSEEVLKNHLEILQRNRIVEPALRLAKENPNLVSAEHYRQLERDAAAEQVRMAVLPTRSETERFD  265 (822)
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccccCHHHHHHHHHHHHHHHHhhcccccccchhhHH
Confidence            6888888887765 4456666666666666665544444443221                                   


Q ss_pred             -------------c-CCccccH-HHH----HHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhH
Q 046446          129 -------------R-GVLVADV-VTY----SIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSK  189 (244)
Q Consensus       129 -------------~-~~~~~~~-~~~----~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~  189 (244)
                                   . .+..|.. ..|    --.+-++...|++.++.+.++.+...+.+....+-..+..+|...+++++
T Consensus       266 ~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~k  345 (822)
T PRK14574        266 IADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEK  345 (822)
T ss_pred             HHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHH
Confidence                         1 0001211 111    22345667788999999999999988766556677888999999999999


Q ss_pred             HHHHHHHHHHCC-----CCCChhhHHHHHHHHHhccccccchhhhhhhhhh
Q 046446          190 VIELLHKMKEKN-----VMPDASIVSIVVDLLAKNEISLNSLPSFTVHERQ  235 (244)
Q Consensus       190 a~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  235 (244)
                      |+.+++.+....     ..++......|.-+|...+++++|..+++.+.+.
T Consensus       346 A~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~  396 (822)
T PRK14574        346 AAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQ  396 (822)
T ss_pred             HHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhc
Confidence            999999987643     1234444578889999999999999999998874

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

Probab=99.34  E-value=2.5e-09  Score=74.44  Aligned_cols=201  Identities=11%  Similarity=0.015  Sum_probs=166.8

Q ss_pred             hhhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcH
Q 046446            3 INGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYI   82 (244)
Q Consensus         3 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~   82 (244)
                      --.|.+.|++..|..-+++.+++. +-+..+|..+...|.+.|+.+.|.+-|++..... +-+..+.|.....+|..|++
T Consensus        42 al~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~-p~~GdVLNNYG~FLC~qg~~  119 (250)
T COG3063          42 ALGYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALSLA-PNNGDVLNNYGAFLCAQGRP  119 (250)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC-CCccchhhhhhHHHHhCCCh
Confidence            346889999999999999999984 3456688899999999999999999999998863 23677899999999999999


Q ss_pred             HHHHHHHHHHHHhC-CCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHH
Q 046446           83 VESVELFRTLRILK-CELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLD  161 (244)
Q Consensus        83 ~~a~~~~~~~~~~~-~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  161 (244)
                      ++|.+.|++..... +.-...+|..+.-+..+.|+.+.|...|++..+.. +-...+...+.......|++-.|..+++.
T Consensus       120 ~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~d-p~~~~~~l~~a~~~~~~~~y~~Ar~~~~~  198 (250)
T COG3063         120 EEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELD-PQFPPALLELARLHYKAGDYAPARLYLER  198 (250)
T ss_pred             HHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhC-cCCChHHHHHHHHHHhcccchHHHHHHHH
Confidence            99999999988754 33346788899999999999999999999988875 33466788889999999999999999998


Q ss_pred             HHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhH
Q 046446          162 MEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIV  209 (244)
Q Consensus       162 ~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  209 (244)
                      ....+. ++..+.-..|+.-.+.|+-+.+.++=.++...  -|...-|
T Consensus       199 ~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~--fP~s~e~  243 (250)
T COG3063         199 YQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQRL--FPYSEEY  243 (250)
T ss_pred             HHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCcHHH
Confidence            887765 78888888888888899998888877776654  2444433

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.32  E-value=3.5e-09  Score=79.78  Aligned_cols=196  Identities=13%  Similarity=-0.019  Sum_probs=139.5

Q ss_pred             hhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHH
Q 046446            5 GYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVE   84 (244)
Q Consensus         5 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~   84 (244)
                      .+.+.|+++.|...|++..+.. +.+...|+.+...+...|++++|...|++..+.... +..++..+..++...|++++
T Consensus        73 ~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~-~~~a~~~lg~~l~~~g~~~e  150 (296)
T PRK11189         73 LYDSLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAGNFDAAYEAFDSVLELDPT-YNYAYLNRGIALYYGGRYEL  150 (296)
T ss_pred             HHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHH
Confidence            5678899999999999999874 446788999999999999999999999999986322 46778888999999999999


Q ss_pred             HHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHH
Q 046446           85 SVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEE  164 (244)
Q Consensus        85 a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  164 (244)
                      |.+.+++..+..  |+..........+...++.++|...|.+..... .|+...+ .+.  ....|+...+ +.+..+.+
T Consensus       151 A~~~~~~al~~~--P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~~-~~~~~~~-~~~--~~~lg~~~~~-~~~~~~~~  223 (296)
T PRK11189        151 AQDDLLAFYQDD--PNDPYRALWLYLAESKLDPKQAKENLKQRYEKL-DKEQWGW-NIV--EFYLGKISEE-TLMERLKA  223 (296)
T ss_pred             HHHHHHHHHHhC--CCCHHHHHHHHHHHccCCHHHHHHHHHHHHhhC-CccccHH-HHH--HHHccCCCHH-HHHHHHHh
Confidence            999999998865  333222222333456788999999997655332 2332222 222  2335555544 34444442


Q ss_pred             cC-CC-----CcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHH
Q 046446          165 NA-VA-----PNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVS  210 (244)
Q Consensus       165 ~~-~~-----p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  210 (244)
                      .. ..     .....|..+...+...|++++|...|++..+.++ |+..-+.
T Consensus       224 ~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~-~~~~e~~  274 (296)
T PRK11189        224 GATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNV-YNFVEHR  274 (296)
T ss_pred             cCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-chHHHHH
Confidence            11 11     1245788899999999999999999999998653 3544443

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

Probab=99.26  E-value=4.1e-10  Score=82.27  Aligned_cols=194  Identities=13%  Similarity=0.029  Sum_probs=162.4

Q ss_pred             hhhhhhhcCChhHHHHHHHHHHhCCCCCChhh-HHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCC
Q 046446            2 LINGYCKNKEIEGALNLYSEMLSKGIKPDVVI-HNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNG   80 (244)
Q Consensus         2 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~   80 (244)
                      |-..|.+-.++..|+.++.+-.+.  .|-..| ..-+.+.+-..++.++|.++|+...+. .+.+......+...|.-.+
T Consensus       262 LskvY~ridQP~~AL~~~~~gld~--fP~~VT~l~g~ARi~eam~~~~~a~~lYk~vlk~-~~~nvEaiAcia~~yfY~~  338 (478)
T KOG1129|consen  262 LSKVYQRIDQPERALLVIGEGLDS--FPFDVTYLLGQARIHEAMEQQEDALQLYKLVLKL-HPINVEAIACIAVGYFYDN  338 (478)
T ss_pred             HHHHHHHhccHHHHHHHHhhhhhc--CCchhhhhhhhHHHHHHHHhHHHHHHHHHHHHhc-CCccceeeeeeeeccccCC
Confidence            446788999999999999988876  454444 456778888889999999999998876 3446777777888888899


Q ss_pred             cHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCcccc--HHHHHHHHHHHHccCChHHHHHH
Q 046446           81 YIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVAD--VVTYSIMIHGLYNDGQMDKAHDL  158 (244)
Q Consensus        81 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~li~~~~~~~~~~~a~~~  158 (244)
                      +++-|+.+|+++.+.|+ .++..|+.+.-+|.-.++++-++..|++....--.|+  ..+|..+.......||+..|.+.
T Consensus       339 ~PE~AlryYRRiLqmG~-~speLf~NigLCC~yaqQ~D~~L~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rc  417 (478)
T KOG1129|consen  339 NPEMALRYYRRILQMGA-QSPELFCNIGLCCLYAQQIDLVLPSFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRC  417 (478)
T ss_pred             ChHHHHHHHHHHHHhcC-CChHHHhhHHHHHHhhcchhhhHHHHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHH
Confidence            99999999999999996 6899999999999999999999999988765433333  56789998999999999999999


Q ss_pred             HHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 046446          159 FLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEK  200 (244)
Q Consensus       159 ~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  200 (244)
                      |+-...++.. +...++.+.-.-.+.|++++|..++......
T Consensus       418 frlaL~~d~~-h~ealnNLavL~~r~G~i~~Arsll~~A~s~  458 (478)
T KOG1129|consen  418 FRLALTSDAQ-HGEALNNLAVLAARSGDILGARSLLNAAKSV  458 (478)
T ss_pred             HHHHhccCcc-hHHHHHhHHHHHhhcCchHHHHHHHHHhhhh
Confidence            9988876433 6778898888888999999999999987664

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.25  E-value=1e-08  Score=86.37  Aligned_cols=205  Identities=12%  Similarity=0.051  Sum_probs=152.8

Q ss_pred             hhhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcC-----CCCChhHHHHHHHHHH
Q 046446            3 INGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDG-----VAADTRTYTIFIDGLC   77 (244)
Q Consensus         3 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-----~~~~~~~~~~ll~~~~   77 (244)
                      +-++...|++.+|++.|+.+...|.+....+-..+..+|...+++++|..+|+++....     .+++......|.-++.
T Consensus       299 l~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~l  378 (822)
T PRK14574        299 LGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLN  378 (822)
T ss_pred             HHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHH
Confidence            34677788899999999999988766666788888899999999999999999886642     1223333567888888


Q ss_pred             hCCcHHHHHHHHHHHHHhCC-----------Ccc---HHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHH
Q 046446           78 KNGYIVESVELFRTLRILKC-----------ELD---IQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMI  143 (244)
Q Consensus        78 ~~~~~~~a~~~~~~~~~~~~-----------~~~---~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li  143 (244)
                      ..+++++|..+++.+.+...           .||   ...+..++..+...|++.+|++.++++.... |-|......+.
T Consensus       379 d~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~~a-P~n~~l~~~~A  457 (822)
T PRK14574        379 ESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKLEDLSSTA-PANQNLRIALA  457 (822)
T ss_pred             hcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            99999999999998886311           111   1224456777888899999999999987664 66788888889


Q ss_pred             HHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHH
Q 046446          144 HGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSI  211 (244)
Q Consensus       144 ~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  211 (244)
                      ..+...|.+.+|++.++...... +-+..+......++...|++.+|..+.+.+.+.  .|+......
T Consensus       458 ~v~~~Rg~p~~A~~~~k~a~~l~-P~~~~~~~~~~~~al~l~e~~~A~~~~~~l~~~--~Pe~~~~~~  522 (822)
T PRK14574        458 SIYLARDLPRKAEQELKAVESLA-PRSLILERAQAETAMALQEWHQMELLTDDVISR--SPEDIPSQE  522 (822)
T ss_pred             HHHHhcCCHHHHHHHHHHHhhhC-CccHHHHHHHHHHHHhhhhHHHHHHHHHHHHhh--CCCchhHHH
Confidence            99999999999999997766542 224556667777778889999998888887765  344443333

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

Probab=99.23  E-value=3.3e-09  Score=81.40  Aligned_cols=222  Identities=13%  Similarity=0.048  Sum_probs=173.3

Q ss_pred             hhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHH
Q 046446            6 YCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVES   85 (244)
Q Consensus         6 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   85 (244)
                      +.-.|+.-.|..-|+..+.....+ ...|-.+...|.+..+.++....|....+.+.. |+.+|..=...+.-.+++++|
T Consensus       336 ~fL~g~~~~a~~d~~~~I~l~~~~-~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~-n~dvYyHRgQm~flL~q~e~A  413 (606)
T KOG0547|consen  336 HFLKGDSLGAQEDFDAAIKLDPAF-NSLYIKRAAAYADENQSEKMWKDFNKAEDLDPE-NPDVYYHRGQMRFLLQQYEEA  413 (606)
T ss_pred             hhhcCCchhhhhhHHHHHhcCccc-chHHHHHHHHHhhhhccHHHHHHHHHHHhcCCC-CCchhHhHHHHHHHHHHHHHH
Confidence            445788889999999998874322 233777778899999999999999998887543 778888888888888899999


Q ss_pred             HHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHc
Q 046446           86 VELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEEN  165 (244)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  165 (244)
                      ..=|++.++.. +-+...|--+.-+.-+.+.+++++..|++.+.. ++-.+..|+....++...++++.|.+.|+...+.
T Consensus       414 ~aDF~Kai~L~-pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~L  491 (606)
T KOG0547|consen  414 IADFQKAISLD-PENAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIEL  491 (606)
T ss_pred             HHHHHHHhhcC-hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhh
Confidence            99999998876 456677777777778899999999999999876 3556889999999999999999999999987763


Q ss_pred             CCC-----CcHh--HHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchhhhhhhh
Q 046446          166 AVA-----PNVI--TFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFTVHE  233 (244)
Q Consensus       166 ~~~-----p~~~--~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  233 (244)
                      ...     .+..  +-..++..- -.+++..|..++.+..+.+.+ ....|..|...-.+.|+.++|+++|+...
T Consensus       492 E~~~~~~~v~~~plV~Ka~l~~q-wk~d~~~a~~Ll~KA~e~Dpk-ce~A~~tlaq~~lQ~~~i~eAielFEksa  564 (606)
T KOG0547|consen  492 EPREHLIIVNAAPLVHKALLVLQ-WKEDINQAENLLRKAIELDPK-CEQAYETLAQFELQRGKIDEAIELFEKSA  564 (606)
T ss_pred             ccccccccccchhhhhhhHhhhc-hhhhHHHHHHHHHHHHccCch-HHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            211     1221  122222221 348999999999998886533 45788899999999999999999998643

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

Probab=99.23  E-value=2.6e-08  Score=79.65  Aligned_cols=224  Identities=15%  Similarity=0.107  Sum_probs=157.5

Q ss_pred             hhhhhcCChhHHHHHHHHHHhCCCCCCh-hhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHH-HHHHHHHhC--
Q 046446            4 NGYCKNKEIEGALNLYSEMLSKGIKPDV-VIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYT-IFIDGLCKN--   79 (244)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~-~ll~~~~~~--   79 (244)
                      ..+...|++++|++.++.-...  -+|. .........+.+.|+.++|..+|..+.+++  |+...|. .+..+..-.  
T Consensus        12 ~il~e~g~~~~AL~~L~~~~~~--I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN--Pdn~~Yy~~L~~~~g~~~~   87 (517)
T PF12569_consen   12 SILEEAGDYEEALEHLEKNEKQ--ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN--PDNYDYYRGLEEALGLQLQ   87 (517)
T ss_pred             HHHHHCCCHHHHHHHHHhhhhh--CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHhhhcc
Confidence            4567889999999999776655  3454 455677788889999999999999999874  4544444 444444211  


Q ss_pred             ---CcHHHHHHHHHHHHH----------------------------------hCCCccHHhHHHHHHHHHcCCCHHHHHH
Q 046446           80 ---GYIVESVELFRTLRI----------------------------------LKCELDIQAYSCLIDGLCKSGRLEIALE  122 (244)
Q Consensus        80 ---~~~~~a~~~~~~~~~----------------------------------~~~~~~~~~~~~ll~~~~~~~~~~~a~~  122 (244)
                         .+.+...++|+++.+                                  .|+   +.+|+.|-..|......+-...
T Consensus        88 ~~~~~~~~~~~~y~~l~~~yp~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~Kgv---PslF~~lk~Ly~d~~K~~~i~~  164 (517)
T PF12569_consen   88 LSDEDVEKLLELYDELAEKYPRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGV---PSLFSNLKPLYKDPEKAAIIES  164 (517)
T ss_pred             cccccHHHHHHHHHHHHHhCccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCC---chHHHHHHHHHcChhHHHHHHH
Confidence               245666666666643                                  222   2234444444444333444444


Q ss_pred             HHHhcc----cCC----------ccccHHHH--HHHHHHHHccCChHHHHHHHHHHHHcCCCCc-HhHHHHHHHHHHhcC
Q 046446          123 LFHSLP----RGV----------LVADVVTY--SIMIHGLYNDGQMDKAHDLFLDMEENAVAPN-VITFGTLIHGFIRIN  185 (244)
Q Consensus       123 ~~~~~~----~~~----------~~~~~~~~--~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g  185 (244)
                      ++....    ..+          -+|+...|  ..+...|...|++++|+++++...++  .|+ +..|..-.+.+-+.|
T Consensus       165 l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~h--tPt~~ely~~KarilKh~G  242 (517)
T PF12569_consen  165 LVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEH--TPTLVELYMTKARILKHAG  242 (517)
T ss_pred             HHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHCC
Confidence            444432    111          23444344  56677888999999999999999886  355 667777788999999


Q ss_pred             ChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchhhhhhhhhhhc
Q 046446          186 EPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFTVHERQEE  237 (244)
Q Consensus       186 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  237 (244)
                      ++.+|.+.++..+..... |...-+..+..+.++|+.++|...+....+.+.
T Consensus       243 ~~~~Aa~~~~~Ar~LD~~-DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~  293 (517)
T PF12569_consen  243 DLKEAAEAMDEARELDLA-DRYINSKCAKYLLRAGRIEEAEKTASLFTREDV  293 (517)
T ss_pred             CHHHHHHHHHHHHhCChh-hHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCC
Confidence            999999999999988754 778888899999999999999999998877664

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 [], [].

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

Probab=99.23  E-value=8.5e-09  Score=78.80  Aligned_cols=227  Identities=16%  Similarity=0.142  Sum_probs=162.5

Q ss_pred             hhhhcCChhHHHHHHHHHHhCCCCCChhhHHHH--HHHH----------------------------------hhhchHH
Q 046446            5 GYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTL--FIGL----------------------------------FEIHQVE   48 (244)
Q Consensus         5 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l--i~~~----------------------------------~~~~~~~   48 (244)
                      .+.+.|+++.|+++++-+.+..-+.-...-+.|  +..+                                  ...|+++
T Consensus       428 ~~lk~~d~~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~dryn~~a~~nkgn~~f~ngd~d  507 (840)
T KOG2003|consen  428 ELLKNGDIEGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNIDRYNAAALTNKGNIAFANGDLD  507 (840)
T ss_pred             HHHhccCHHHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhcccccCHHHhhcCCceeeecCcHH
Confidence            467899999999999887765322211111111  1100                                  1246778


Q ss_pred             HHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcc
Q 046446           49 RAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLP  128 (244)
Q Consensus        49 ~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  128 (244)
                      .|.+.|++.....-......|| +.-.+-..|+.++|+..|-.+..-- ..+..+.-.+...|-...+...|.+++-+..
T Consensus       508 ka~~~ykeal~ndasc~ealfn-iglt~e~~~~ldeald~f~klh~il-~nn~evl~qianiye~led~aqaie~~~q~~  585 (840)
T KOG2003|consen  508 KAAEFYKEALNNDASCTEALFN-IGLTAEALGNLDEALDCFLKLHAIL-LNNAEVLVQIANIYELLEDPAQAIELLMQAN  585 (840)
T ss_pred             HHHHHHHHHHcCchHHHHHHHH-hcccHHHhcCHHHHHHHHHHHHHHH-HhhHHHHHHHHHHHHHhhCHHHHHHHHHHhc
Confidence            8888888887763332233333 3334556788888888887765432 3456667777888888888888888887766


Q ss_pred             cCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhh
Q 046446          129 RGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASI  208 (244)
Q Consensus       129 ~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  208 (244)
                      .. ++.|+.....|...|-+.|+...|.+..-+--.. ++-+..+...|...|....-+++++..|++..-  ++|+..-
T Consensus       586 sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyry-fp~nie~iewl~ayyidtqf~ekai~y~ekaal--iqp~~~k  661 (840)
T KOG2003|consen  586 SL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRY-FPCNIETIEWLAAYYIDTQFSEKAINYFEKAAL--IQPNQSK  661 (840)
T ss_pred             cc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhcccc-cCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHh--cCccHHH
Confidence            54 4567888899999999999999998876554332 556888999999999999999999999988654  6899999


Q ss_pred             HHHHHHHH-Hhccccccchhhhhhhhhhhc
Q 046446          209 VSIVVDLL-AKNEISLNSLPSFTVHERQEE  237 (244)
Q Consensus       209 ~~~l~~~~-~~~g~~~~a~~~~~~~~~~~~  237 (244)
                      |..++-.| .+.|++++|.+.|+.+.++..
T Consensus       662 wqlmiasc~rrsgnyqka~d~yk~~hrkfp  691 (840)
T KOG2003|consen  662 WQLMIASCFRRSGNYQKAFDLYKDIHRKFP  691 (840)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHHhCc
Confidence            99877655 578999999999999887643

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

Probab=99.19  E-value=1.9e-08  Score=75.37  Aligned_cols=196  Identities=12%  Similarity=0.144  Sum_probs=153.4

Q ss_pred             hhhhhhhcCChhHHHHHHHHHHhCCCCCC-------hhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHH
Q 046446            2 LINGYCKNKEIEGALNLYSEMLSKGIKPD-------VVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFID   74 (244)
Q Consensus         2 li~~~~~~~~~~~a~~~~~~~~~~~~~~~-------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~   74 (244)
                      ..++|.+.|++..+..++..+.+.|.-.+       ..+|+.++.-....+..+.-...|++..+. ..-++..-..++.
T Consensus       193 a~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~~pr~-lr~~p~l~~~~a~  271 (400)
T COG3071         193 ALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKNQPRK-LRNDPELVVAYAE  271 (400)
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHhccHH-hhcChhHHHHHHH
Confidence            35789999999999999999999876554       346777777777667777777788877665 4556777788889


Q ss_pred             HHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHH
Q 046446           75 GLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDK  154 (244)
Q Consensus        75 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~  154 (244)
                      -+.+.|+.++|.++.++..+.+..|+.    ...-.+.+-++.+.-.+..+.-.... +-++..+.+|...|.+++.|.+
T Consensus       272 ~li~l~~~~~A~~~i~~~Lk~~~D~~L----~~~~~~l~~~d~~~l~k~~e~~l~~h-~~~p~L~~tLG~L~~k~~~w~k  346 (400)
T COG3071         272 RLIRLGDHDEAQEIIEDALKRQWDPRL----CRLIPRLRPGDPEPLIKAAEKWLKQH-PEDPLLLSTLGRLALKNKLWGK  346 (400)
T ss_pred             HHHHcCChHHHHHHHHHHHHhccChhH----HHHHhhcCCCCchHHHHHHHHHHHhC-CCChhHHHHHHHHHHHhhHHHH
Confidence            999999999999999999988776662    22334566677776666666544332 2345789999999999999999


Q ss_pred             HHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC
Q 046446          155 AHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPD  205 (244)
Q Consensus       155 a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  205 (244)
                      |...|+...+  ..|+..+|+.+..++.+.|+..+|.++.++....-.+|+
T Consensus       347 A~~~leaAl~--~~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~~~~~~~  395 (400)
T COG3071         347 ASEALEAALK--LRPSASDYAELADALDQLGEPEEAEQVRREALLLTRQPN  395 (400)
T ss_pred             HHHHHHHHHh--cCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHHhcCCC
Confidence            9999997766  469999999999999999999999999988775444443

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

Probab=99.18  E-value=6.1e-08  Score=79.54  Aligned_cols=226  Identities=14%  Similarity=0.066  Sum_probs=147.5

Q ss_pred             hhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHH
Q 046446            6 YCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVES   85 (244)
Q Consensus         6 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   85 (244)
                      ....|++++|.+++.+.++.. +.+...|..|...|-+.|+.+++...+-..... .+-|...|..+.....+.|.++.|
T Consensus       149 lfarg~~eeA~~i~~EvIkqd-p~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL-~p~d~e~W~~ladls~~~~~i~qA  226 (895)
T KOG2076|consen  149 LFARGDLEEAEEILMEVIKQD-PRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHL-NPKDYELWKRLADLSEQLGNINQA  226 (895)
T ss_pred             HHHhCCHHHHHHHHHHHHHhC-ccchhhHHHHHHHHHHcccHHHHHHHHHHHHhc-CCCChHHHHHHHHHHHhcccHHHH
Confidence            344599999999999998874 557778999999999999999998887555444 333667788888888888888888


Q ss_pred             HHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCc---------------------------------
Q 046446           86 VELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVL---------------------------------  132 (244)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~---------------------------------  132 (244)
                      .-.|.+..+.. |++...+---...|-+.|+...|...|.++.+..-                                 
T Consensus       227 ~~cy~rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~  305 (895)
T KOG2076|consen  227 RYCYSRAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEG  305 (895)
T ss_pred             HHHHHHHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            88888877765 45555555556666677777777666666554321                                 


Q ss_pred             -------cccHHHHHHHHHHHHccCChHHHHHHHHHHHHcC---------------------------CCC---------
Q 046446          133 -------VADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENA---------------------------VAP---------  169 (244)
Q Consensus       133 -------~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~---------------------------~~p---------  169 (244)
                             ..+...++.++..+.+...++.+......+....                           ..+         
T Consensus       306 ~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~rl~i  385 (895)
T KOG2076|consen  306 ALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVIRLMI  385 (895)
T ss_pred             HHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhHhHhh
Confidence                   1122233445555555555555555544443300                           000         


Q ss_pred             ---------------------------cHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcccc
Q 046446          170 ---------------------------NVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEIS  222 (244)
Q Consensus       170 ---------------------------~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  222 (244)
                                                 +...|.-+..++...|++.+|..++..+...-..-+...|..+..+|...|..
T Consensus       386 cL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~  465 (895)
T KOG2076|consen  386 CLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEY  465 (895)
T ss_pred             hhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhH
Confidence                                       12335556666677777777777777776653333456677777777777777


Q ss_pred             ccchhhhhhhhh
Q 046446          223 LNSLPSFTVHER  234 (244)
Q Consensus       223 ~~a~~~~~~~~~  234 (244)
                      ++|++.|+....
T Consensus       466 e~A~e~y~kvl~  477 (895)
T KOG2076|consen  466 EEAIEFYEKVLI  477 (895)
T ss_pred             HHHHHHHHHHHh
Confidence            777777765543

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

Probab=99.17  E-value=6.7e-08  Score=77.38  Aligned_cols=229  Identities=14%  Similarity=0.064  Sum_probs=160.9

Q ss_pred             hhhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHh-h-----hchHHHHHHHHHHHHHcCCC---C--------C
Q 046446            3 INGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLF-E-----IHQVERAFKLFDEMQRDGVA---A--------D   65 (244)
Q Consensus         3 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~-~-----~~~~~~a~~~~~~m~~~~~~---~--------~   65 (244)
                      ...+.+.|+.++|..+|..+++.  .|+...|...+..+. -     ..+.+....+|+++...-..   |        +
T Consensus        45 A~ll~kLg~~~eA~~~y~~Li~r--NPdn~~Yy~~L~~~~g~~~~~~~~~~~~~~~~y~~l~~~yp~s~~~~rl~L~~~~  122 (517)
T PF12569_consen   45 AELLLKLGRKEEAEKIYRELIDR--NPDNYDYYRGLEEALGLQLQLSDEDVEKLLELYDELAEKYPRSDAPRRLPLDFLE  122 (517)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHhhhcccccccHHHHHHHHHHHHHhCccccchhHhhcccCC
Confidence            35688899999999999999998  566666655444443 1     12456666677666443100   0        1


Q ss_pred             --------------------hhHHHHHHHHHHhCCcHHHHHHHHHHHHHh----C----------CCccHH--hHHHHHH
Q 046446           66 --------------------TRTYTIFIDGLCKNGYIVESVELFRTLRIL----K----------CELDIQ--AYSCLID  109 (244)
Q Consensus        66 --------------------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~----------~~~~~~--~~~~ll~  109 (244)
                                          +.+|+.|-..|.......-..+++..+...    +          -+|+..  ++..+..
T Consensus       123 g~~F~~~~~~yl~~~l~KgvPslF~~lk~Ly~d~~K~~~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAq  202 (517)
T PF12569_consen  123 GDEFKERLDEYLRPQLRKGVPSLFSNLKPLYKDPEKAAIIESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQ  202 (517)
T ss_pred             HHHHHHHHHHHHHHHHhcCCchHHHHHHHHHcChhHHHHHHHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHH
Confidence                                123444444444333444445555554322    1          134443  4466677


Q ss_pred             HHHcCCCHHHHHHHHHhcccCCcccc-HHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChh
Q 046446          110 GLCKSGRLEIALELFHSLPRGVLVAD-VVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPS  188 (244)
Q Consensus       110 ~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~  188 (244)
                      .|...|++++|+++.++..+..  |+ +..|..-...+-+.|++.+|.+.++........ |-..-+..+..+.+.|+.+
T Consensus       203 hyd~~g~~~~Al~~Id~aI~ht--Pt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~~-DRyiNsK~aKy~LRa~~~e  279 (517)
T PF12569_consen  203 HYDYLGDYEKALEYIDKAIEHT--PTLVELYMTKARILKHAGDLKEAAEAMDEARELDLA-DRYINSKCAKYLLRAGRIE  279 (517)
T ss_pred             HHHHhCCHHHHHHHHHHHHhcC--CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCChh-hHHHHHHHHHHHHHCCCHH
Confidence            8889999999999999999884  55 778889999999999999999999999986544 6666777788899999999


Q ss_pred             HHHHHHHHHHHCCCCCChhh--------HHHHHHHHHhccccccchhhhhhhhhhh
Q 046446          189 KVIELLHKMKEKNVMPDASI--------VSIVVDLLAKNEISLNSLPSFTVHERQE  236 (244)
Q Consensus       189 ~a~~~~~~~~~~~~~~~~~~--------~~~l~~~~~~~g~~~~a~~~~~~~~~~~  236 (244)
                      +|.+++......+..|-...        ......+|.+.|++..|+..|..+.+..
T Consensus       280 ~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v~k~f  335 (517)
T PF12569_consen  280 EAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLALKRFHAVLKHF  335 (517)
T ss_pred             HHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHH
Confidence            99999999987765443322        2455678999999999988888776643

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

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

Probab=99.16  E-value=2.5e-09  Score=79.73  Aligned_cols=197  Identities=13%  Similarity=0.114  Sum_probs=126.5

Q ss_pred             CCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHH-HHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHH
Q 046446           28 KPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTY-TIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSC  106 (244)
Q Consensus        28 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~-~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  106 (244)
                      .|.......+...+...++-+.++.-+++....+..++..++ ......+...|++++|++++..-      .+......
T Consensus        63 ~~~l~av~~la~y~~~~~~~e~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~------~~lE~~al  136 (290)
T PF04733_consen   63 SPELQAVRLLAEYLSSPSDKESALEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG------GSLELLAL  136 (290)
T ss_dssp             SCCCHHHHHHHHHHCTSTTHHCHHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT------TCHHHHHH
T ss_pred             ChhHHHHHHHHHHHhCccchHHHHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc------CcccHHHH
Confidence            455555544444444334445555444443333333222233 33345566788999998888642      45667777


Q ss_pred             HHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHH----ccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHH
Q 046446          107 LIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLY----NDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFI  182 (244)
Q Consensus       107 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~----~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~  182 (244)
                      .+..|.+.++++.|.+.++.|.+.+  .| .+...+..++.    ..+.+.+|..+|+++.+. ..+++.+.+.+..+..
T Consensus       137 ~Vqi~L~~~R~dlA~k~l~~~~~~~--eD-~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l  212 (290)
T PF04733_consen  137 AVQILLKMNRPDLAEKELKNMQQID--ED-SILTQLAEAWVNLATGGEKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHL  212 (290)
T ss_dssp             HHHHHHHTT-HHHHHHHHHHHHCCS--CC-HHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcC--Cc-HHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHH
Confidence            8899999999999999999998764  33 33344444433    345789999999998764 5678888899999999


Q ss_pred             hcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcccc-ccchhhhhhhhhh
Q 046446          183 RINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEIS-LNSLPSFTVHERQ  235 (244)
Q Consensus       183 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~a~~~~~~~~~~  235 (244)
                      ..|++++|.+++.+....+. -+..+...++-+....|+. +.+.+++..+...
T Consensus       213 ~~~~~~eAe~~L~~al~~~~-~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~  265 (290)
T PF04733_consen  213 QLGHYEEAEELLEEALEKDP-NDPDTLANLIVCSLHLGKPTEAAERYLSQLKQS  265 (290)
T ss_dssp             HCT-HHHHHHHHHHHCCC-C-CHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHHH
T ss_pred             HhCCHHHHHHHHHHHHHhcc-CCHHHHHHHHHHHHHhCCChhHHHHHHHHHHHh
Confidence            99999999999999876542 2566777777777777877 4456666666543

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.

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

Probab=99.14  E-value=9.2e-10  Score=89.80  Aligned_cols=182  Identities=15%  Similarity=0.153  Sum_probs=115.1

Q ss_pred             HHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhC------------------------CCccHHhHHHH
Q 046446           52 KLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILK------------------------CELDIQAYSCL  107 (244)
Q Consensus        52 ~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~------------------------~~~~~~~~~~l  107 (244)
                      .++..+...|+.|+..||..+|.-|+..|+.+.|- +|.-|+-..                        -.|...+|..|
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            45677888999999999999999999999999998 777764221                        24677888888


Q ss_pred             HHHHHcCCCHHH---HHHHHHh----cccCCc-----------------cccHHH----------HHHHHHHHHc-----
Q 046446          108 IDGLCKSGRLEI---ALELFHS----LPRGVL-----------------VADVVT----------YSIMIHGLYN-----  148 (244)
Q Consensus       108 l~~~~~~~~~~~---a~~~~~~----~~~~~~-----------------~~~~~~----------~~~li~~~~~-----  148 (244)
                      ..+|...|++..   +.+-+..    +...|+                 -||..+          |..++.....     
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            888888888543   3332221    112221                 122211          1112221110     


Q ss_pred             -cC-----------ChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHH
Q 046446          149 -DG-----------QMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLL  216 (244)
Q Consensus       149 -~~-----------~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  216 (244)
                       .+           ......++........-.|++.+|..++.+-...|+.+.|..++.+|.+.|++.+..-|..|+-+ 
T Consensus       170 ~~~p~~vfLrqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~HyFwpLl~g-  248 (1088)
T KOG4318|consen  170 WNAPFQVFLRQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHYFWPLLLG-  248 (1088)
T ss_pred             ccchHHHHHHHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcccccchhhhhc-
Confidence             00           11112222222222112478888888888888889999999999999999988888877776655 


Q ss_pred             Hhccccccchhhhhhhhhhhc
Q 046446          217 AKNEISLNSLPSFTVHERQEE  237 (244)
Q Consensus       217 ~~~g~~~~a~~~~~~~~~~~~  237 (244)
                        .+...-+..++..|...+.
T Consensus       249 --~~~~q~~e~vlrgmqe~gv  267 (1088)
T KOG4318|consen  249 --INAAQVFEFVLRGMQEKGV  267 (1088)
T ss_pred             --CccchHHHHHHHHHHHhcC
Confidence              5555555666665555543

>PLN02789 farnesyltranstransferase

Probab=99.10  E-value=3.1e-07  Score=69.57  Aligned_cols=222  Identities=17%  Similarity=0.113  Sum_probs=162.5

Q ss_pred             hhhhcCChhHHHHHHHHHHhCCCCCC-hhhHHHHHHHHhhhc-hHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcH
Q 046446            5 GYCKNKEIEGALNLYSEMLSKGIKPD-VVIHNTLFIGLFEIH-QVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYI   82 (244)
Q Consensus         5 ~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~~-~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~   82 (244)
                      .+...++.++|+.+.+.+++.  .|+ ..+|+.--.++...| ++++++..++++.+.... +..+|+.-...+.+.|+.
T Consensus        46 ~l~~~e~serAL~lt~~aI~l--nP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npk-nyqaW~~R~~~l~~l~~~  122 (320)
T PLN02789         46 VYASDERSPRALDLTADVIRL--NPGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPK-NYQIWHHRRWLAEKLGPD  122 (320)
T ss_pred             HHHcCCCCHHHHHHHHHHHHH--CchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCc-chHHhHHHHHHHHHcCch
Confidence            455678889999999999886  344 445666656666666 689999999999887443 666777665556666653


Q ss_pred             --HHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHcc---CCh----H
Q 046446           83 --VESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYND---GQM----D  153 (244)
Q Consensus        83 --~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~---~~~----~  153 (244)
                        ++++.+++++.+.. +-|..+|+....++...|+++++++.++++.+.+ +-+...|+....++.+.   |..    +
T Consensus       123 ~~~~el~~~~kal~~d-pkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d-~~N~sAW~~R~~vl~~~~~l~~~~~~~e  200 (320)
T PLN02789        123 AANKELEFTRKILSLD-AKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEED-VRNNSAWNQRYFVITRSPLLGGLEAMRD  200 (320)
T ss_pred             hhHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHC-CCchhHHHHHHHHHHhccccccccccHH
Confidence              67888998998877 5789999999999999999999999999999876 44777888776666554   222    4


Q ss_pred             HHHHHHHHHHHcCCCCcHhHHHHHHHHHHhc----CChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcc---------
Q 046446          154 KAHDLFLDMEENAVAPNVITFGTLIHGFIRI----NEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNE---------  220 (244)
Q Consensus       154 ~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~----g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---------  220 (244)
                      +...+...+.... +-|...|+.+...+...    +...+|.+.+.+....+ ..+......|++.|+...         
T Consensus       201 ~el~y~~~aI~~~-P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~-~~s~~al~~l~d~~~~~~~~~~~~~~~  278 (320)
T PLN02789        201 SELKYTIDAILAN-PRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKD-SNHVFALSDLLDLLCEGLQPTAEFRDT  278 (320)
T ss_pred             HHHHHHHHHHHhC-CCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhccc-CCcHHHHHHHHHHHHhhhccchhhhhh
Confidence            5666666666543 34778888888777763    34466888888877654 336778889999998643         


Q ss_pred             ---------ccccchhhhhhhh
Q 046446          221 ---------ISLNSLPSFTVHE  233 (244)
Q Consensus       221 ---------~~~~a~~~~~~~~  233 (244)
                               ..++|.++++.+.
T Consensus       279 ~~~~~~~~~~~~~a~~~~~~l~  300 (320)
T PLN02789        279 VDTLAEELSDSTLAQAVCSELE  300 (320)
T ss_pred             hhccccccccHHHHHHHHHHHH
Confidence                     2255777777773

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

Probab=99.09  E-value=6e-08  Score=75.83  Aligned_cols=224  Identities=14%  Similarity=0.059  Sum_probs=149.5

Q ss_pred             hhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHH
Q 046446            5 GYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVE   84 (244)
Q Consensus         5 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~   84 (244)
                      -|...+++.+..++++...+.. +++...+..-|.++...|+..+-..+=.++.+. .+-.+.+|-++.--|.-.|..++
T Consensus       253 ~~y~~c~f~~c~kit~~lle~d-pfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~-yP~~a~sW~aVg~YYl~i~k~se  330 (611)
T KOG1173|consen  253 RLYYGCRFKECLKITEELLEKD-PFHLPCLPLHIACLYELGKSNKLFLLSHKLVDL-YPSKALSWFAVGCYYLMIGKYSE  330 (611)
T ss_pred             HHHHcChHHHHHHHhHHHHhhC-CCCcchHHHHHHHHHHhcccchHHHHHHHHHHh-CCCCCcchhhHHHHHHHhcCcHH
Confidence            4556778888888888877764 566666766677777777777776666666665 34456777777777777777777


Q ss_pred             HHHHHHHHHHhCCCccHHhHHHHHHHHHcC----------------------------------CCHHHHHHHHHhcccC
Q 046446           85 SVELFRTLRILKCELDIQAYSCLIDGLCKS----------------------------------GRLEIALELFHSLPRG  130 (244)
Q Consensus        85 a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~----------------------------------~~~~~a~~~~~~~~~~  130 (244)
                      |.+.|.+....+ +.-...|-.+...|+-.                                  ++++.|.++|.+....
T Consensus       331 ARry~SKat~lD-~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G~hlP~LYlgmey~~t~n~kLAe~Ff~~A~ai  409 (611)
T KOG1173|consen  331 ARRYFSKATTLD-PTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPGCHLPSLYLGMEYMRTNNLKLAEKFFKQALAI  409 (611)
T ss_pred             HHHHHHHHhhcC-ccccHHHHHHhHHhhhcchHHHHHHHHHHHHHhccCCcchHHHHHHHHHHhccHHHHHHHHHHHHhc
Confidence            777777665433 12233444444444444                                  4444444444444433


Q ss_pred             CccccHHHHHHHHHHHHccCChHHHHHHHHHHHHc----C--CCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCC
Q 046446          131 VLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEEN----A--VAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMP  204 (244)
Q Consensus       131 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~--~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  204 (244)
                      . |-|+...+-+.-..-..+.+.+|..+|+.....    +  ...-..+++.+..+|.+.+.+++|+..+++..... +-
T Consensus       410 ~-P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l~-~k  487 (611)
T KOG1173|consen  410 A-PSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLLS-PK  487 (611)
T ss_pred             C-CCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHcC-CC
Confidence            2 335556666665556667788888888776521    0  11134567888888888899999998888887763 34


Q ss_pred             ChhhHHHHHHHHHhccccccchhhhhhhh
Q 046446          205 DASIVSIVVDLLAKNEISLNSLPSFTVHE  233 (244)
Q Consensus       205 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  233 (244)
                      +..++..+.-.|...|+++.|++.|....
T Consensus       488 ~~~~~asig~iy~llgnld~Aid~fhKaL  516 (611)
T KOG1173|consen  488 DASTHASIGYIYHLLGNLDKAIDHFHKAL  516 (611)
T ss_pred             chhHHHHHHHHHHHhcChHHHHHHHHHHH
Confidence            78888888888888899988888887554

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

Probab=99.08  E-value=2.3e-07  Score=72.05  Aligned_cols=225  Identities=12%  Similarity=0.013  Sum_probs=130.7

Q ss_pred             hhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhh----hchHHHHHHHHHHHHHcCCCCC-hhHHHHHHHHHHhC
Q 046446            5 GYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFE----IHQVERAFKLFDEMQRDGVAAD-TRTYTIFIDGLCKN   79 (244)
Q Consensus         5 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~   79 (244)
                      .+...|++++|.+++++..+.. +.+...+.. ...+..    .+..+.+.+.+..  ..+..|+ ......+...+...
T Consensus        52 ~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~-~~~~~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~~~~~~a~~~~~~  127 (355)
T cd05804          52 SAWIAGDLPKALALLEQLLDDY-PRDLLALKL-HLGAFGLGDFSGMRDHVARVLPL--WAPENPDYWYLLGMLAFGLEEA  127 (355)
T ss_pred             HHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHH-hHHHHHhcccccCchhHHHHHhc--cCcCCCCcHHHHHHHHHHHHHc
Confidence            4566788888888888877752 233333332 212222    3444444444443  1112232 33444566677888


Q ss_pred             CcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCc-cccH--HHHHHHHHHHHccCChHHHH
Q 046446           80 GYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVL-VADV--VTYSIMIHGLYNDGQMDKAH  156 (244)
Q Consensus        80 ~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~~~~--~~~~~li~~~~~~~~~~~a~  156 (244)
                      |++++|.+.+++..+.. +.+...+..+...+...|++++|...+++...... .|+.  ..|..+...+...|++++|.
T Consensus       128 G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~  206 (355)
T cd05804         128 GQYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAAL  206 (355)
T ss_pred             CCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHH
Confidence            89999999998888875 45667778888888888999999988888766431 1222  34556778888889999999


Q ss_pred             HHHHHHHHcCC-CCcHhHH-H--HHHHHHHhcCChhHHHHH--HHHHHHCCC--CCChhhHHHHHHHHHhccccccchhh
Q 046446          157 DLFLDMEENAV-APNVITF-G--TLIHGFIRINEPSKVIEL--LHKMKEKNV--MPDASIVSIVVDLLAKNEISLNSLPS  228 (244)
Q Consensus       157 ~~~~~~~~~~~-~p~~~~~-~--~l~~~~~~~g~~~~a~~~--~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~a~~~  228 (244)
                      .+++....... .+..... +  .++.-+...|....+.++  +........  ............++...|+.+.|...
T Consensus       207 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~  286 (355)
T cd05804         207 AIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKL  286 (355)
T ss_pred             HHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHH
Confidence            99988754322 1122111 1  223333344443333333  211111111  11112222566677778888888888


Q ss_pred             hhhhhh
Q 046446          229 FTVHER  234 (244)
Q Consensus       229 ~~~~~~  234 (244)
                      ++.+..
T Consensus       287 L~~l~~  292 (355)
T cd05804         287 LAALKG  292 (355)
T ss_pred             HHHHHH
Confidence            877655

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.

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.06  E-value=1.3e-07  Score=75.10  Aligned_cols=204  Identities=13%  Similarity=0.014  Sum_probs=150.1

Q ss_pred             hhhHHHHHHHHhhhchHHHHHHHHHHHHHc-----CC-CCChh-HHHHHHHHHHhCCcHHHHHHHHHHHHHh-----C--
Q 046446           31 VVIHNTLFIGLFEIHQVERAFKLFDEMQRD-----GV-AADTR-TYTIFIDGLCKNGYIVESVELFRTLRIL-----K--   96 (244)
Q Consensus        31 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----~~-~~~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~-----~--   96 (244)
                      ..+...+...|...|+++.|+.+++...+.     |. .|... ..+.+...|...+++++|..+|+++..-     |  
T Consensus       199 ~~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~  278 (508)
T KOG1840|consen  199 LRTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGED  278 (508)
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCC
Confidence            345666889999999999999999988765     21 23333 3445777888999999999999998652     2  


Q ss_pred             CCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccC-----C-cccc-HHHHHHHHHHHHccCChHHHHHHHHHHHHc---C
Q 046446           97 CELDIQAYSCLIDGLCKSGRLEIALELFHSLPRG-----V-LVAD-VVTYSIMIHGLYNDGQMDKAHDLFLDMEEN---A  166 (244)
Q Consensus        97 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-----~-~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~---~  166 (244)
                      .+.-..+++.|..+|.+.|++++|...+++..+-     + ..|. ...++.+...+...+++++|..+++...+.   -
T Consensus       279 h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~  358 (508)
T KOG1840|consen  279 HPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDA  358 (508)
T ss_pred             CHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhh
Confidence            2233556788888999999999888877764321     1 1222 234677788899999999999999875431   1


Q ss_pred             CCC----cHhHHHHHHHHHHhcCChhHHHHHHHHHHHC----CC--CC-ChhhHHHHHHHHHhccccccchhhhhhhhh
Q 046446          167 VAP----NVITFGTLIHGFIRINEPSKVIELLHKMKEK----NV--MP-DASIVSIVVDLLAKNEISLNSLPSFTVHER  234 (244)
Q Consensus       167 ~~p----~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~~--~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  234 (244)
                      +.+    -..+++.|...|...|++++|.++++.....    +.  .+ ....++.+...|.+.+...+|.+.|.....
T Consensus       359 ~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~  437 (508)
T KOG1840|consen  359 PGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKD  437 (508)
T ss_pred             ccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHH
Confidence            122    2467899999999999999999999987743    11  22 245778899999999999999888876543

>PF12854 PPR_1: PPR repeat

Probab=99.05  E-value=4e-10  Score=55.07  Aligned_cols=27  Identities=52%  Similarity=0.992  Sum_probs=10.0

Q ss_pred             ccHHhHHHHHHHHHcCCCHHHHHHHHH
Q 046446           99 LDIQAYSCLIDGLCKSGRLEIALELFH  125 (244)
Q Consensus        99 ~~~~~~~~ll~~~~~~~~~~~a~~~~~  125 (244)
                      ||..+|++||.+|++.|++++|.++|+
T Consensus         5 Pd~~ty~~lI~~~Ck~G~~~~A~~l~~   31 (34)
T PF12854_consen    5 PDVVTYNTLIDGYCKAGRVDEAFELFD   31 (34)
T ss_pred             CcHhHHHHHHHHHHHCCCHHHHHHHHH
Confidence            333333333333333333333333333

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

Probab=99.04  E-value=2.3e-08  Score=82.58  Aligned_cols=225  Identities=12%  Similarity=0.081  Sum_probs=164.5

Q ss_pred             hhhhcCChhHHHHHHHHHHhCCCCCChh-hHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHH
Q 046446            5 GYCKNKEIEGALNLYSEMLSKGIKPDVV-IHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIV   83 (244)
Q Consensus         5 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   83 (244)
                      ++-..++++.|.+.|....+.  -|+-. .|-.+.......++..+|..++++.... ...++..+..+...+.+...+.
T Consensus       505 l~E~l~~~~~A~e~Yk~Ilke--hp~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~-d~~np~arsl~G~~~l~k~~~~  581 (1018)
T KOG2002|consen  505 LLEELHDTEVAEEMYKSILKE--HPGYIDAYLRLGCMARDKNNLYEASLLLKDALNI-DSSNPNARSLLGNLHLKKSEWK  581 (1018)
T ss_pred             HHHhhhhhhHHHHHHHHHHHH--CchhHHHHHHhhHHHHhccCcHHHHHHHHHHHhc-ccCCcHHHHHHHHHHHhhhhhc
Confidence            344457888888999888876  35543 3444444444557788888888888765 3346677777777888888888


Q ss_pred             HHHHHHHHHHHhC-CCccHHhHHHHHHHHHc------------CCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccC
Q 046446           84 ESVELFRTLRILK-CELDIQAYSCLIDGLCK------------SGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDG  150 (244)
Q Consensus        84 ~a~~~~~~~~~~~-~~~~~~~~~~ll~~~~~------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~  150 (244)
                      .|.+-|+...+.- ..+|..+.-+|.+.|..            .+..++|+.+|.+..+.. +-|...-|-+.-.++..|
T Consensus       582 ~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~d-pkN~yAANGIgiVLA~kg  660 (1018)
T KOG2002|consen  582 PAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRND-PKNMYAANGIGIVLAEKG  660 (1018)
T ss_pred             ccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcC-cchhhhccchhhhhhhcc
Confidence            8888777665432 23566666666665542            234678888888887765 557777888888888999


Q ss_pred             ChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHC-CCCCChhhHHHHHHHHHhccccccchhhh
Q 046446          151 QMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEK-NVMPDASIVSIVVDLLAKNEISLNSLPSF  229 (244)
Q Consensus       151 ~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  229 (244)
                      ++.+|..+|....+... -...+|-.+..+|..+|++..|.++|+...+. ...-+..+...|.+++.+.|.+.+|.+.+
T Consensus       661 ~~~~A~dIFsqVrEa~~-~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~l  739 (1018)
T KOG2002|consen  661 RFSEARDIFSQVREATS-DFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEAL  739 (1018)
T ss_pred             CchHHHHHHHHHHHHHh-hCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHH
Confidence            99999999999887644 25567888899999999999999999876654 44557788888999999999988887777


Q ss_pred             hhhhh
Q 046446          230 TVHER  234 (244)
Q Consensus       230 ~~~~~  234 (244)
                      ....+
T Consensus       740 l~a~~  744 (1018)
T KOG2002|consen  740 LKARH  744 (1018)
T ss_pred             HHHHH
Confidence            65544

>PF12854 PPR_1: PPR repeat

Probab=99.04  E-value=4e-10  Score=55.06  Aligned_cols=32  Identities=44%  Similarity=0.815  Sum_probs=19.5

Q ss_pred             CCCCChhHHHHHHHHHHhCCcHHHHHHHHHHH
Q 046446           61 GVAADTRTYTIFIDGLCKNGYIVESVELFRTL   92 (244)
Q Consensus        61 ~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~   92 (244)
                      |+.||..||++||.+|++.|++++|.++|++|
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            55566666666666666666666666666555

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=99.04  E-value=1.2e-07  Score=69.16  Aligned_cols=185  Identities=11%  Similarity=-0.021  Sum_probs=111.6

Q ss_pred             ChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCC-C-ChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHH---hH
Q 046446           30 DVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVA-A-DTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQ---AY  104 (244)
Q Consensus        30 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~  104 (244)
                      ....+..+...+...|+++.|...|+++...... | ...++..+..++...|++++|...++++.+... .+..   ++
T Consensus        32 ~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p-~~~~~~~a~  110 (235)
T TIGR03302        32 PAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHP-NHPDADYAY  110 (235)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCc-CCCchHHHH
Confidence            4556666777778888888888888888765211 1 124567777888888888888888888876542 1222   34


Q ss_pred             HHHHHHHHcC--------CCHHHHHHHHHhcccCCccccH-HHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHH
Q 046446          105 SCLIDGLCKS--------GRLEIALELFHSLPRGVLVADV-VTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFG  175 (244)
Q Consensus       105 ~~ll~~~~~~--------~~~~~a~~~~~~~~~~~~~~~~-~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~  175 (244)
                      ..+..++...        |++++|.+.|+.+....  |+. ..+..+.....    .      .....        ....
T Consensus       111 ~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~a~~~~~~----~------~~~~~--------~~~~  170 (235)
T TIGR03302       111 YLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRY--PNSEYAPDAKKRMDY----L------RNRLA--------GKEL  170 (235)
T ss_pred             HHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHC--CCChhHHHHHHHHHH----H------HHHHH--------HHHH
Confidence            4445555543        66777888887776552  332 22221111100    0      00000        0012


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHCCC--CCChhhHHHHHHHHHhccccccchhhhhhhhhh
Q 046446          176 TLIHGFIRINEPSKVIELLHKMKEKNV--MPDASIVSIVVDLLAKNEISLNSLPSFTVHERQ  235 (244)
Q Consensus       176 ~l~~~~~~~g~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  235 (244)
                      .+...+.+.|++.+|...++...+...  +.....+..+..++.+.|+.++|..+++.+...
T Consensus       171 ~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       171 YVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            344567777888888888877776521  123456677777888888888888777766553

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

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=99.01  E-value=1.4e-07  Score=68.79  Aligned_cols=177  Identities=12%  Similarity=0.022  Sum_probs=121.1

Q ss_pred             hhhhhhcCChhHHHHHHHHHHhCCCCCC-h---hhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCCh--hHHHHHHHHH
Q 046446            3 INGYCKNKEIEGALNLYSEMLSKGIKPD-V---VIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADT--RTYTIFIDGL   76 (244)
Q Consensus         3 i~~~~~~~~~~~a~~~~~~~~~~~~~~~-~---~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~--~~~~~ll~~~   76 (244)
                      ...+...|+++.|...|+++...  .|+ .   ..+..+..++...|++++|...++++.+.......  .++..+..++
T Consensus        40 g~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~~g~~~  117 (235)
T TIGR03302        40 AKEALDSGDYTEAIKYFEALESR--YPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAYYLRGLSN  117 (235)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHh--CCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHHHHHHHHH
Confidence            45678899999999999999886  333 2   46677888899999999999999999876322111  2455566666


Q ss_pred             HhC--------CcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHc
Q 046446           77 CKN--------GYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYN  148 (244)
Q Consensus        77 ~~~--------~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  148 (244)
                      .+.        |+.+.|.+.++.+.+.. +-+...+..+.....    .....              ......+...+.+
T Consensus       118 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~a~~~~~~----~~~~~--------------~~~~~~~a~~~~~  178 (235)
T TIGR03302       118 YNQIDRVDRDQTAAREAFEAFQELIRRY-PNSEYAPDAKKRMDY----LRNRL--------------AGKELYVARFYLK  178 (235)
T ss_pred             HHhcccccCCHHHHHHHHHHHHHHHHHC-CCChhHHHHHHHHHH----HHHHH--------------HHHHHHHHHHHHH
Confidence            654        78899999999998764 233333322221111    00000              0112245567888


Q ss_pred             cCChHHHHHHHHHHHHcCC--CCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 046446          149 DGQMDKAHDLFLDMEENAV--APNVITFGTLIHGFIRINEPSKVIELLHKMKEK  200 (244)
Q Consensus       149 ~~~~~~a~~~~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  200 (244)
                      .|++++|...++...+...  +.....+..+..++...|++++|...++.+...
T Consensus       179 ~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       179 RGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             cCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            8999999998888876421  123567788888888899999999888887654

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).

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

Probab=99.01  E-value=2.9e-07  Score=75.72  Aligned_cols=98  Identities=16%  Similarity=0.147  Sum_probs=82.6

Q ss_pred             cHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHH
Q 046446          135 DVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVD  214 (244)
Q Consensus       135 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  214 (244)
                      +...|.-+..++...|++++|+.+|..+......-+...|-.+.++|...|..++|.+.|+...... +-+...-..|-.
T Consensus       413 ~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~~-p~~~D~Ri~Las  491 (895)
T KOG2076|consen  413 DVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEYEEAIEFYEKVLILA-PDNLDARITLAS  491 (895)
T ss_pred             hHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCchhhhhhHHH
Confidence            4556778889999999999999999999987666678889999999999999999999999998763 224455567888


Q ss_pred             HHHhccccccchhhhhhhh
Q 046446          215 LLAKNEISLNSLPSFTVHE  233 (244)
Q Consensus       215 ~~~~~g~~~~a~~~~~~~~  233 (244)
                      .+.+.|+.++|.+.++.+.
T Consensus       492 l~~~~g~~EkalEtL~~~~  510 (895)
T KOG2076|consen  492 LYQQLGNHEKALETLEQII  510 (895)
T ss_pred             HHHhcCCHHHHHHHHhccc
Confidence            8999999999999988754

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

Probab=99.01  E-value=3.5e-08  Score=79.27  Aligned_cols=205  Identities=13%  Similarity=0.078  Sum_probs=152.1

Q ss_pred             hhhhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCc
Q 046446            2 LINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGY   81 (244)
Q Consensus         2 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~   81 (244)
                      +|.+|...|+..+|..+..+..+.  +|++..|..+.+......-++.|.++.+..-.+       .-..+.....+.++
T Consensus       430 vi~CY~~lg~~~kaeei~~q~lek--~~d~~lyc~LGDv~~d~s~yEkawElsn~~sar-------A~r~~~~~~~~~~~  500 (777)
T KOG1128|consen  430 VILCYLLLGQHGKAEEINRQELEK--DPDPRLYCLLGDVLHDPSLYEKAWELSNYISAR-------AQRSLALLILSNKD  500 (777)
T ss_pred             HHHHHHHhcccchHHHHHHHHhcC--CCcchhHHHhhhhccChHHHHHHHHHhhhhhHH-------HHHhhccccccchh
Confidence            356777778778887777777764  678888888888777777778887777665332       11112222233678


Q ss_pred             HHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHH
Q 046446           82 IVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLD  161 (244)
Q Consensus        82 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  161 (244)
                      ++++.+.|+.-.+.+ +....+|-.+.-+..+.++++.|.+.|....... +-+...||.+-.+|.+.++..+|...+.+
T Consensus       501 fs~~~~hle~sl~~n-plq~~~wf~~G~~ALqlek~q~av~aF~rcvtL~-Pd~~eaWnNls~ayi~~~~k~ra~~~l~E  578 (777)
T KOG1128|consen  501 FSEADKHLERSLEIN-PLQLGTWFGLGCAALQLEKEQAAVKAFHRCVTLE-PDNAEAWNNLSTAYIRLKKKKRAFRKLKE  578 (777)
T ss_pred             HHHHHHHHHHHhhcC-ccchhHHHhccHHHHHHhhhHHHHHHHHHHhhcC-CCchhhhhhhhHHHHHHhhhHHHHHHHHH
Confidence            888888888776655 5677888888888889999999999999988763 34578999999999999999999999999


Q ss_pred             HHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCC-CCCChhhHHHHHHHHHh
Q 046446          162 MEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKN-VMPDASIVSIVVDLLAK  218 (244)
Q Consensus       162 ~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~  218 (244)
                      ..+.. .-+...|...+......|.+++|.+.+.++.... ..-|..+...++....+
T Consensus       579 AlKcn-~~~w~iWENymlvsvdvge~eda~~A~~rll~~~~~~~d~~vl~~iv~~~~~  635 (777)
T KOG1128|consen  579 ALKCN-YQHWQIWENYMLVSVDVGEFEDAIKAYHRLLDLRKKYKDDEVLLIIVRTVLE  635 (777)
T ss_pred             HhhcC-CCCCeeeechhhhhhhcccHHHHHHHHHHHHHhhhhcccchhhHHHHHHHHh
Confidence            99877 4466677777777889999999999999887531 12255555555555544

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

Probab=99.00  E-value=4.5e-07  Score=64.06  Aligned_cols=162  Identities=10%  Similarity=0.078  Sum_probs=117.4

Q ss_pred             HHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCH
Q 046446           38 FIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRL  117 (244)
Q Consensus        38 i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~  117 (244)
                      +..|...|+++.+....+.+..    |.        ..+...++.+++...++...+.+ +.+...|..+...|...|++
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~~----~~--------~~~~~~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~   89 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLAD----PL--------HQFASQQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDY   89 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHhC----cc--------ccccCchhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCH
Confidence            3557778888887555432221    11        01223567778888888877766 67888999999999999999


Q ss_pred             HHHHHHHHhcccCCccccHHHHHHHHHHH-HccCC--hHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHH
Q 046446          118 EIALELFHSLPRGVLVADVVTYSIMIHGL-YNDGQ--MDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELL  194 (244)
Q Consensus       118 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~-~~~~~--~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~  194 (244)
                      ++|...|++..+.. +.+...+..+..++ ...|+  .++|.+++++..+.+.. +...+..+...+...|++++|...|
T Consensus        90 ~~A~~a~~~Al~l~-P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~-~~~al~~LA~~~~~~g~~~~Ai~~~  167 (198)
T PRK10370         90 DNALLAYRQALQLR-GENAELYAALATVLYYQAGQHMTPQTREMIDKALALDAN-EVTALMLLASDAFMQADYAQAIELW  167 (198)
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCC-ChhHHHHHHHHHHHcCCHHHHHHHH
Confidence            99999999888775 44677788877764 66676  48999999998886533 6777888888888999999999999


Q ss_pred             HHHHHCCCCCChhhHHHHHHHH
Q 046446          195 HKMKEKNVMPDASIVSIVVDLL  216 (244)
Q Consensus       195 ~~~~~~~~~~~~~~~~~l~~~~  216 (244)
                      +++.+.. .|+..-+. +|++.
T Consensus       168 ~~aL~l~-~~~~~r~~-~i~~i  187 (198)
T PRK10370        168 QKVLDLN-SPRVNRTQ-LVESI  187 (198)
T ss_pred             HHHHhhC-CCCccHHH-HHHHH
Confidence            9988764 44544443 33543

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

Probab=99.00  E-value=5.6e-07  Score=74.74  Aligned_cols=228  Identities=14%  Similarity=0.061  Sum_probs=138.7

Q ss_pred             hhhhhhhcCChhHHHHHHHHHHhCCCC--CChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChh--HHHHHHHHHH
Q 046446            2 LINGYCKNKEIEGALNLYSEMLSKGIK--PDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTR--TYTIFIDGLC   77 (244)
Q Consensus         2 li~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~--~~~~ll~~~~   77 (244)
                      |.+.|.-.|++..+..+...+......  .-...|..+.++|...|+++.|..+|.+..+.  .|+..  .+.-|...+.
T Consensus       276 LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~--~~d~~~l~~~GlgQm~i  353 (1018)
T KOG2002|consen  276 LANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKA--DNDNFVLPLVGLGQMYI  353 (1018)
T ss_pred             HHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHcc--CCCCccccccchhHHHH
Confidence            345566678888888888777765211  12345777778888888888888888665554  34433  3445677788


Q ss_pred             hCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCC----CHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChH
Q 046446           78 KNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSG----RLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMD  153 (244)
Q Consensus        78 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~----~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~  153 (244)
                      +.|+.+.+...|+...+.. +.+..+...|...|+..+    ..+.|..++.+..... +.|...|-.+...+...+-+ 
T Consensus       354 ~~~dle~s~~~fEkv~k~~-p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~-~~d~~a~l~laql~e~~d~~-  430 (1018)
T KOG2002|consen  354 KRGDLEESKFCFEKVLKQL-PNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQT-PVDSEAWLELAQLLEQTDPW-  430 (1018)
T ss_pred             HhchHHHHHHHHHHHHHhC-cchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcc-cccHHHHHHHHHHHHhcChH-
Confidence            8888888888888777654 455666666666666554    3456666666655543 34566666666665544333 


Q ss_pred             HHHHHHHHH----HHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHC---CCCCCh------hhHHHHHHHHHhcc
Q 046446          154 KAHDLFLDM----EENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEK---NVMPDA------SIVSIVVDLLAKNE  220 (244)
Q Consensus       154 ~a~~~~~~~----~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~------~~~~~l~~~~~~~g  220 (244)
                      .++.+|...    ...+..+.+...|.+.......|+++.|...|......   .-.++.      .+--.+...+...+
T Consensus       431 ~sL~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~  510 (1018)
T KOG2002|consen  431 ASLDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARLLEELH  510 (1018)
T ss_pred             HHHHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHHHHhhh
Confidence            335555433    34444566667777777777777777777777766543   112222      12223445555556


Q ss_pred             ccccchhhhhhhhh
Q 046446          221 ISLNSLPSFTVHER  234 (244)
Q Consensus       221 ~~~~a~~~~~~~~~  234 (244)
                      +.+.|.+.|..+.+
T Consensus       511 ~~~~A~e~Yk~Ilk  524 (1018)
T KOG2002|consen  511 DTEVAEEMYKSILK  524 (1018)
T ss_pred             hhhHHHHHHHHHHH
Confidence            66666666665544

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

Probab=99.00  E-value=3.8e-07  Score=69.09  Aligned_cols=227  Identities=14%  Similarity=0.070  Sum_probs=128.1

Q ss_pred             hhhhhhcCChhHHHHHHHHHHhCCCCCChh-hHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCc
Q 046446            3 INGYCKNKEIEGALNLYSEMLSKGIKPDVV-IHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGY   81 (244)
Q Consensus         3 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~   81 (244)
                      ...+...|+.+.|+..|+.....  .|... ........+.+.|+.+....+...+.... .-+...|..-+.......+
T Consensus       239 ak~~~~~Gdn~~a~~~Fe~~~~~--dpy~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV~~~~l~~~K~  315 (564)
T KOG1174|consen  239 GKCLYYNGDYFQAEDIFSSTLCA--NPDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKV-KYTASHWFVHAQLLYDEKK  315 (564)
T ss_pred             hhhhhhhcCchHHHHHHHHHhhC--ChhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhh-hcchhhhhhhhhhhhhhhh
Confidence            34556666666666666666554  22211 11111122234444444444444443321 0122222222223333445


Q ss_pred             HHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHH
Q 046446           82 IVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLD  161 (244)
Q Consensus        82 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  161 (244)
                      ++.|+.+.++.++.+ +.+...+-.-...+...|+.++|.-.|+...... +-+...|..|+..|...|.+.+|..+-+.
T Consensus       316 ~~rAL~~~eK~I~~~-~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~La-p~rL~~Y~GL~hsYLA~~~~kEA~~~An~  393 (564)
T KOG1174|consen  316 FERALNFVEKCIDSE-PRNHEALILKGRLLIALERHTQAVIAFRTAQMLA-PYRLEIYRGLFHSYLAQKRFKEANALANW  393 (564)
T ss_pred             HHHHHHHHHHHhccC-cccchHHHhccHHHHhccchHHHHHHHHHHHhcc-hhhHHHHHHHHHHHHhhchHHHHHHHHHH
Confidence            555555555555443 2344444444455556666666666666655442 33566666677766666666666554433


Q ss_pred             HHHc-----------C-----------------------CCCc-HhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCh
Q 046446          162 MEEN-----------A-----------------------VAPN-VITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDA  206 (244)
Q Consensus       162 ~~~~-----------~-----------------------~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  206 (244)
                      ....           |                       +.|+ ....+.+...|...|..+.+..+++.....  .||.
T Consensus       394 ~~~~~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~--~~D~  471 (564)
T KOG1174|consen  394 TIRLFQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLKINPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLII--FPDV  471 (564)
T ss_pred             HHHHhhcchhhhhhhcceeeccCchhHHHHHHHHHhhhccCCccHHHHHHHHHHHHhhCccchHHHHHHHHHhh--cccc
Confidence            2110           1                       1222 234566677888899999999999987764  6899


Q ss_pred             hhHHHHHHHHHhccccccchhhhhhhhhhh
Q 046446          207 SIVSIVVDLLAKNEISLNSLPSFTVHERQE  236 (244)
Q Consensus       207 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  236 (244)
                      ...+.|.+.+...+.+++|++.|....+.+
T Consensus       472 ~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~d  501 (564)
T KOG1174|consen  472 NLHNHLGDIMRAQNEPQKAMEYYYKALRQD  501 (564)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Confidence            999999999999999999999888766543

>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=98.98  E-value=1.6e-08  Score=75.41  Aligned_cols=219  Identities=10%  Similarity=0.063  Sum_probs=145.2

Q ss_pred             hhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHH
Q 046446            4 NGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIV   83 (244)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   83 (244)
                      +.+.-.|++..++.-.+ .....-..+......+.+++...|+++.++   .++... -.|.......+...+...++-+
T Consensus         9 rn~fy~G~Y~~~i~e~~-~~~~~~~~~~e~~~~~~Rs~iAlg~~~~vl---~ei~~~-~~~~l~av~~la~y~~~~~~~e   83 (290)
T PF04733_consen    9 RNQFYLGNYQQCINEAS-LKSFSPENKLERDFYQYRSYIALGQYDSVL---SEIKKS-SSPELQAVRLLAEYLSSPSDKE   83 (290)
T ss_dssp             HHHHCTT-HHHHCHHHH-CHTSTCHHHHHHHHHHHHHHHHTT-HHHHH---HHS-TT-SSCCCHHHHHHHHHHCTSTTHH
T ss_pred             HHHHHhhhHHHHHHHhh-ccCCCchhHHHHHHHHHHHHHHcCChhHHH---HHhccC-CChhHHHHHHHHHHHhCccchH
Confidence            44566789999887665 333221223445567778888899887654   334333 3677777766666555545566


Q ss_pred             HHHHHHHHHHHhCCC-ccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHH
Q 046446           84 ESVELFRTLRILKCE-LDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDM  162 (244)
Q Consensus        84 ~a~~~~~~~~~~~~~-~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  162 (244)
                      .+..-+++....... .+..........+...|++++|+++++..      .+.......+..|.+.++++.|.+.++.|
T Consensus        84 ~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~  157 (290)
T PF04733_consen   84 SALEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNM  157 (290)
T ss_dssp             CHHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            666655554433322 23333333445677789999999888654      25677788899999999999999999999


Q ss_pred             HHcCCCCcHhHHHHHHHHHHh----cCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchhhhhhhhhhhc
Q 046446          163 EENAVAPNVITFGTLIHGFIR----INEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFTVHERQEE  237 (244)
Q Consensus       163 ~~~~~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  237 (244)
                      .+.  . +..+...+..++..    .+.+.+|..+|+++.+. +.++..+.+.+.-+....|++++|.+.++.......
T Consensus       158 ~~~--~-eD~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~  232 (290)
T PF04733_consen  158 QQI--D-EDSILTQLAEAWVNLATGGEKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDP  232 (290)
T ss_dssp             HCC--S-CCHHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-C
T ss_pred             Hhc--C-CcHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhcc
Confidence            874  2 33445555555443    34689999999998765 678899999999999999999999999887665443

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the epsilon subunit of the coatomer complex, which is involved in the regulation of intracellular protein trafficking between the endoplasmic reticulum and the Golgi complex []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006890 retrograde vesicle-mediated transport, Golgi to ER, 0030126 COPI vesicle coat; PDB: 3MV2_B 3MV3_F 3MKR_A.

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

Probab=98.98  E-value=6.5e-07  Score=71.65  Aligned_cols=220  Identities=13%  Similarity=0.060  Sum_probs=129.9

Q ss_pred             hcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHH
Q 046446            8 KNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVE   87 (244)
Q Consensus         8 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~   87 (244)
                      ...++++|..+|.+....  .|+..+|.--+..-.-.++.++|++++++..+. ++--.-.|-.+.+.+-+.++.+.|.+
T Consensus       630 en~e~eraR~llakar~~--sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~-fp~f~Kl~lmlGQi~e~~~~ie~aR~  706 (913)
T KOG0495|consen  630 ENDELERARDLLAKARSI--SGTERVWMKSANLERYLDNVEEALRLLEEALKS-FPDFHKLWLMLGQIEEQMENIEMARE  706 (913)
T ss_pred             ccccHHHHHHHHHHHhcc--CCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHh-CCchHHHHHHHhHHHHHHHHHHHHHH
Confidence            334444444444444432  334444433333333344444555544444443 22122334444444444455555544


Q ss_pred             HHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcC-
Q 046446           88 LFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENA-  166 (244)
Q Consensus        88 ~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~-  166 (244)
                      .|..-.+. +|..+..|-.|...=-+.|.+-.|..++++..-.+ +-+...|-..|+.=.+.|+.+.|..+.....+.- 
T Consensus       707 aY~~G~k~-cP~~ipLWllLakleEk~~~~~rAR~ildrarlkN-Pk~~~lwle~Ir~ElR~gn~~~a~~lmakALQecp  784 (913)
T KOG0495|consen  707 AYLQGTKK-CPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKN-PKNALLWLESIRMELRAGNKEQAELLMAKALQECP  784 (913)
T ss_pred             HHHhcccc-CCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcC-CCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            44433322 34455566666666667777777888887776655 4567788888888888888888888776655421 


Q ss_pred             ----------------------------CCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHh
Q 046446          167 ----------------------------VAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAK  218 (244)
Q Consensus       167 ----------------------------~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  218 (244)
                                                  ...|++..-.+...|....++++|.++|.+..+.+. -+-.+|..+...+.+
T Consensus       785 ~sg~LWaEaI~le~~~~rkTks~DALkkce~dphVllaia~lfw~e~k~~kar~Wf~Ravk~d~-d~GD~wa~fykfel~  863 (913)
T KOG0495|consen  785 SSGLLWAEAIWLEPRPQRKTKSIDALKKCEHDPHVLLAIAKLFWSEKKIEKAREWFERAVKKDP-DNGDAWAWFYKFELR  863 (913)
T ss_pred             ccchhHHHHHHhccCcccchHHHHHHHhccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHccCC-ccchHHHHHHHHHHH
Confidence                                        122556666667777777888888888888887642 245677888888888


Q ss_pred             ccccccchhhhhhhh
Q 046446          219 NEISLNSLPSFTVHE  233 (244)
Q Consensus       219 ~g~~~~a~~~~~~~~  233 (244)
                      .|.-++-.++++...
T Consensus       864 hG~eed~kev~~~c~  878 (913)
T KOG0495|consen  864 HGTEEDQKEVLKKCE  878 (913)
T ss_pred             hCCHHHHHHHHHHHh
Confidence            887666666665543

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

Probab=98.97  E-value=1.8e-07  Score=72.23  Aligned_cols=191  Identities=14%  Similarity=0.128  Sum_probs=149.1

Q ss_pred             hhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHH
Q 046446            4 NGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIV   83 (244)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   83 (244)
                      ..|....+.++-...|......+ +-++.+|..-.....-.+++++|..=|++....... +...|-.+.-+..+.+.++
T Consensus       368 ~~y~d~~~~~~~~~~F~~A~~ld-p~n~dvYyHRgQm~flL~q~e~A~aDF~Kai~L~pe-~~~~~iQl~~a~Yr~~k~~  445 (606)
T KOG0547|consen  368 AAYADENQSEKMWKDFNKAEDLD-PENPDVYYHRGQMRFLLQQYEEAIADFQKAISLDPE-NAYAYIQLCCALYRQHKIA  445 (606)
T ss_pred             HHHhhhhccHHHHHHHHHHHhcC-CCCCchhHhHHHHHHHHHHHHHHHHHHHHHhhcChh-hhHHHHHHHHHHHHHHHHH
Confidence            46788889999999999988875 456777877777777788999999999999886322 5667777777788899999


Q ss_pred             HHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCC-----ccccHHHH--HHHHHHHHccCChHHHH
Q 046446           84 ESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGV-----LVADVVTY--SIMIHGLYNDGQMDKAH  156 (244)
Q Consensus        84 ~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~--~~li~~~~~~~~~~~a~  156 (244)
                      +++..|++.++. +|..+..|+.....+...+++++|.+.|+......     +..+..++  -.++. +.=.+++..|.
T Consensus       446 ~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~~~~~~v~~~plV~Ka~l~-~qwk~d~~~a~  523 (606)
T KOG0547|consen  446 ESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEPREHLIIVNAAPLVHKALLV-LQWKEDINQAE  523 (606)
T ss_pred             HHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhccccccccccchhhhhhhHhh-hchhhhHHHHH
Confidence            999999999875 57778999999999999999999999999876542     11111111  11111 11248999999


Q ss_pred             HHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHH
Q 046446          157 DLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKE  199 (244)
Q Consensus       157 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  199 (244)
                      .+++...+...+ ....|..|...-.+.|+.++|+++|++...
T Consensus       524 ~Ll~KA~e~Dpk-ce~A~~tlaq~~lQ~~~i~eAielFEksa~  565 (606)
T KOG0547|consen  524 NLLRKAIELDPK-CEQAYETLAQFELQRGKIDEAIELFEKSAQ  565 (606)
T ss_pred             HHHHHHHccCch-HHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            999998885433 456789999999999999999999998654

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

Probab=98.97  E-value=6e-07  Score=70.43  Aligned_cols=205  Identities=12%  Similarity=0.037  Sum_probs=142.0

Q ss_pred             hcCChhHHHHHHHHHHhCCCCCC-hhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHH
Q 046446            8 KNKEIEGALNLYSEMLSKGIKPD-VVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESV   86 (244)
Q Consensus         8 ~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~   86 (244)
                      -.|+..+|.+.|......  .|+ ...|-.....|+-.|.-|+|+..|...-+. ++-..-.+--+.--|.+.+..+.|.
T Consensus       324 ~i~k~seARry~SKat~l--D~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl-~~G~hlP~LYlgmey~~t~n~kLAe  400 (611)
T KOG1173|consen  324 MIGKYSEARRYFSKATTL--DPTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARL-MPGCHLPSLYLGMEYMRTNNLKLAE  400 (611)
T ss_pred             HhcCcHHHHHHHHHHhhc--CccccHHHHHHhHHhhhcchHHHHHHHHHHHHHh-ccCCcchHHHHHHHHHHhccHHHHH
Confidence            345556666666555443  222 224555555565566666666666555443 1112222333444566777888888


Q ss_pred             HHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccC----C--ccccHHHHHHHHHHHHccCChHHHHHHHH
Q 046446           87 ELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRG----V--LVADVVTYSIMIHGLYNDGQMDKAHDLFL  160 (244)
Q Consensus        87 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~--~~~~~~~~~~li~~~~~~~~~~~a~~~~~  160 (244)
                      +.|.+..... |.|+...+-+.-.....+.+.+|..+|+.....    +  ...-..+++.|..+|.+.+.+++|+..++
T Consensus       401 ~Ff~~A~ai~-P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q  479 (611)
T KOG1173|consen  401 KFFKQALAIA-PSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQ  479 (611)
T ss_pred             HHHHHHHhcC-CCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHH
Confidence            8888877654 567777777777777788999999999876521    1  11245578899999999999999999999


Q ss_pred             HHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhc
Q 046446          161 DMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKN  219 (244)
Q Consensus       161 ~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  219 (244)
                      ...... +-+..++.++.-.|...|+++.|.+.|.+...  +.|+..+...++..+...
T Consensus       480 ~aL~l~-~k~~~~~asig~iy~llgnld~Aid~fhKaL~--l~p~n~~~~~lL~~aie~  535 (611)
T KOG1173|consen  480 KALLLS-PKDASTHASIGYIYHLLGNLDKAIDHFHKALA--LKPDNIFISELLKLAIED  535 (611)
T ss_pred             HHHHcC-CCchhHHHHHHHHHHHhcChHHHHHHHHHHHh--cCCccHHHHHHHHHHHHh
Confidence            988763 44889999999999999999999999998765  578887777777765543

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

Probab=98.94  E-value=5.4e-07  Score=63.67  Aligned_cols=155  Identities=10%  Similarity=0.150  Sum_probs=119.7

Q ss_pred             hhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHH
Q 046446            4 NGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIV   83 (244)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   83 (244)
                      -.|...|+++.+....+.+..    |.        ..+...++.+++...+++..+.. +.|...|..+...|...|+++
T Consensus        24 ~~Y~~~g~~~~v~~~~~~~~~----~~--------~~~~~~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~   90 (198)
T PRK10370         24 GSYLLSPKWQAVRAEYQRLAD----PL--------HQFASQQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYD   90 (198)
T ss_pred             HHHHHcchHHHHHHHHHHHhC----cc--------ccccCchhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHH
Confidence            467888888887555433221    11        01223667788888888877763 458889999999999999999


Q ss_pred             HHHHHHHHHHHhCCCccHHhHHHHHHH-HHcCCC--HHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHH
Q 046446           84 ESVELFRTLRILKCELDIQAYSCLIDG-LCKSGR--LEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFL  160 (244)
Q Consensus        84 ~a~~~~~~~~~~~~~~~~~~~~~ll~~-~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~  160 (244)
                      +|...|++..+.. +.+...+..+..+ +...|+  .++|..++++..+.+ +-+..++..+...+...|++++|...|+
T Consensus        91 ~A~~a~~~Al~l~-P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~d-P~~~~al~~LA~~~~~~g~~~~Ai~~~~  168 (198)
T PRK10370         91 NALLAYRQALQLR-GENAELYAALATVLYYQAGQHMTPQTREMIDKALALD-ANEVTALMLLASDAFMQADYAQAIELWQ  168 (198)
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHcCCHHHHHHHHH
Confidence            9999999999876 5678888888886 467777  599999999999885 4478889999999999999999999999


Q ss_pred             HHHHcCCCCcHhHH
Q 046446          161 DMEENAVAPNVITF  174 (244)
Q Consensus       161 ~~~~~~~~p~~~~~  174 (244)
                      .+.+.. +|+..-+
T Consensus       169 ~aL~l~-~~~~~r~  181 (198)
T PRK10370        169 KVLDLN-SPRVNRT  181 (198)
T ss_pred             HHHhhC-CCCccHH
Confidence            998763 3444333

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

Probab=98.92  E-value=8.4e-07  Score=69.77  Aligned_cols=218  Identities=13%  Similarity=0.068  Sum_probs=150.5

Q ss_pred             hhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHH
Q 046446            5 GYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVE   84 (244)
Q Consensus         5 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~   84 (244)
                      .+.+.|+..+|.-.|+...+.. +-+...|..|.......++-..|+..+++..+... -|....-.|.-.|...|.-..
T Consensus       294 ~lm~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP-~NleaLmaLAVSytNeg~q~~  371 (579)
T KOG1125|consen  294 NLMKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELDP-TNLEALMALAVSYTNEGLQNQ  371 (579)
T ss_pred             HHHhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCC-ccHHHHHHHHHHHhhhhhHHH
Confidence            3567888999999998888774 44677888888888888888888888887777522 134445455544544443333


Q ss_pred             HHHHHH-----------------------------------------HHH-HhCCCccHHhHHHHHHHHHcCCCHHHHHH
Q 046446           85 SVELFR-----------------------------------------TLR-ILKCELDIQAYSCLIDGLCKSGRLEIALE  122 (244)
Q Consensus        85 a~~~~~-----------------------------------------~~~-~~~~~~~~~~~~~ll~~~~~~~~~~~a~~  122 (244)
                      |...+.                                         ++. ..+..+|..+...|.-.|--.|++++|.+
T Consensus       372 Al~~L~~Wi~~~p~y~~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiD  451 (579)
T KOG1125|consen  372 ALKMLDKWIRNKPKYVHLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVD  451 (579)
T ss_pred             HHHHHHHHHHhCccchhccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHH
Confidence            333332                                         222 23333677777788888888899999999


Q ss_pred             HHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCc-HhHHHHHHHHHHhcCChhHHHHHHHHHHH--
Q 046446          123 LFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPN-VITFGTLIHGFIRINEPSKVIELLHKMKE--  199 (244)
Q Consensus       123 ~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~--  199 (244)
                      .|+...... +-|...||.|..++....+..+|...|++.++.  .|+ +.....|.-+|...|.+++|.+.|-....  
T Consensus       452 cf~~AL~v~-Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqL--qP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~mq  528 (579)
T KOG1125|consen  452 CFEAALQVK-PNDYLLWNRLGATLANGNRSEEAISAYNRALQL--QPGYVRVRYNLGISCMNLGAYKEAVKHLLEALSMQ  528 (579)
T ss_pred             HHHHHHhcC-CchHHHHHHhhHHhcCCcccHHHHHHHHHHHhc--CCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHHhh
Confidence            999988775 557888999999999999999999999998874  454 44556666778888999999888766542  


Q ss_pred             -C------CCCCChhhHHHHHHHHHhccccccchh
Q 046446          200 -K------NVMPDASIVSIVVDLLAKNEISLNSLP  227 (244)
Q Consensus       200 -~------~~~~~~~~~~~l~~~~~~~g~~~~a~~  227 (244)
                       .      +..++...|..|=.++.-.++.+.+.+
T Consensus       529 ~ks~~~~~~~~~se~iw~tLR~als~~~~~D~l~~  563 (579)
T KOG1125|consen  529 RKSRNHNKAPMASENIWQTLRLALSAMNRSDLLQE  563 (579)
T ss_pred             hcccccccCCcchHHHHHHHHHHHHHcCCchHHHH
Confidence             2      122234566666656665666554433

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.91  E-value=2.9e-07  Score=61.63  Aligned_cols=93  Identities=11%  Similarity=-0.038  Sum_probs=50.6

Q ss_pred             HHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCC
Q 046446           36 TLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSG  115 (244)
Q Consensus        36 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~  115 (244)
                      .....+...|++++|...|+...... +.+...+..+..++.+.|++++|...|++....+ +.+..++..+..++...|
T Consensus        29 ~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~-p~~~~a~~~lg~~l~~~g  106 (144)
T PRK15359         29 ASGYASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD-ASHPEPVYQTGVCLKMMG  106 (144)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHHcC
Confidence            34444555555555555555555442 2245555555555555555555555555555543 345555555555555555


Q ss_pred             CHHHHHHHHHhcccC
Q 046446          116 RLEIALELFHSLPRG  130 (244)
Q Consensus       116 ~~~~a~~~~~~~~~~  130 (244)
                      ++++|...|+.....
T Consensus       107 ~~~eAi~~~~~Al~~  121 (144)
T PRK15359        107 EPGLAREAFQTAIKM  121 (144)
T ss_pred             CHHHHHHHHHHHHHh
Confidence            555555555555544

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

Probab=98.90  E-value=2.8e-06  Score=65.99  Aligned_cols=192  Identities=10%  Similarity=0.009  Sum_probs=128.5

Q ss_pred             hhhhcCChhHHHHHHHHHHhCC-CCCChh-hHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHh----
Q 046446            5 GYCKNKEIEGALNLYSEMLSKG-IKPDVV-IHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCK----   78 (244)
Q Consensus         5 ~~~~~~~~~~a~~~~~~~~~~~-~~~~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~----   78 (244)
                      .+...|+.+.+...+....+.. ..++.. ........+...|++++|.+.+++..+.. +.+...+.. ...+..    
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~-~~~~~~~~~~   92 (355)
T cd05804          15 LLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDY-PRDLLALKL-HLGAFGLGDF   92 (355)
T ss_pred             HHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHH-hHHHHHhccc
Confidence            4455677788777777765542 122221 12222334567799999999999988762 334444442 222222    


Q ss_pred             CCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHH
Q 046446           79 NGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDL  158 (244)
Q Consensus        79 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~  158 (244)
                      .+....+.+.+... ....+........+...+...|++++|...+++..+.. +.+...+..+..++...|++++|..+
T Consensus        93 ~~~~~~~~~~l~~~-~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~g~~~eA~~~  170 (355)
T cd05804          93 SGMRDHVARVLPLW-APENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQGRFKEGIAF  170 (355)
T ss_pred             ccCchhHHHHHhcc-CcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHH
Confidence            34555555555441 11222334455566778899999999999999998875 44577888899999999999999999


Q ss_pred             HHHHHHcCC-CCcH--hHHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 046446          159 FLDMEENAV-APNV--ITFGTLIHGFIRINEPSKVIELLHKMKEK  200 (244)
Q Consensus       159 ~~~~~~~~~-~p~~--~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  200 (244)
                      ++....... .|+.  ..|..+...+...|++++|..++++....
T Consensus       171 l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~  215 (355)
T cd05804         171 MESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAP  215 (355)
T ss_pred             HHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhcc
Confidence            998876432 2232  34557788899999999999999998643

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.

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.90  E-value=4.4e-06  Score=59.44  Aligned_cols=188  Identities=15%  Similarity=0.161  Sum_probs=142.4

Q ss_pred             cCChhHHHHHHHHHHhC---C-CCCChh-hHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHH
Q 046446            9 NKEIEGALNLYSEMLSK---G-IKPDVV-IHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIV   83 (244)
Q Consensus         9 ~~~~~~a~~~~~~~~~~---~-~~~~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   83 (244)
                      ..+.++..+++.++...   | ..++.. .|..++-+....|+.+.|...++++.++ ++-+..+-..-...+-..|.++
T Consensus        25 ~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~-fp~S~RV~~lkam~lEa~~~~~  103 (289)
T KOG3060|consen   25 VRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDR-FPGSKRVGKLKAMLLEATGNYK  103 (289)
T ss_pred             ccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHh-CCCChhHHHHHHHHHHHhhchh
Confidence            45678889999888753   4 455655 4666777778889999999999999887 3334444333333455678999


Q ss_pred             HHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHH
Q 046446           84 ESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDME  163 (244)
Q Consensus        84 ~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~  163 (244)
                      +|+++++.+.+.+ |.|.+++-.-+...-..|+..+|++-+....+. +..|...|.-+...|...|++++|.-.++++.
T Consensus       104 ~A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~l  181 (289)
T KOG3060|consen  104 EAIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCLEELL  181 (289)
T ss_pred             hHHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHH
Confidence            9999999999887 678888888888888888888888887777665 35689999999999999999999999999988


Q ss_pred             HcCCCC-cHhHHHHHHHHHHhcC---ChhHHHHHHHHHHHCC
Q 046446          164 ENAVAP-NVITFGTLIHGFIRIN---EPSKVIELLHKMKEKN  201 (244)
Q Consensus       164 ~~~~~p-~~~~~~~l~~~~~~~g---~~~~a~~~~~~~~~~~  201 (244)
                      -.  .| ++..|..+...+...|   +.+.+.+.|.+..+..
T Consensus       182 l~--~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~  221 (289)
T KOG3060|consen  182 LI--QPFNPLYFQRLAEVLYTQGGAENLELARKYYERALKLN  221 (289)
T ss_pred             Hc--CCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhC
Confidence            64  34 4444555655555444   4567888888877754

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

Probab=98.89  E-value=1.2e-06  Score=62.49  Aligned_cols=156  Identities=12%  Similarity=0.053  Sum_probs=79.2

Q ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHcc
Q 046446           70 TIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYND  149 (244)
Q Consensus        70 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  149 (244)
                      ..+-..+...|+-+....+........ +.+....+.++....+.|++..|...+++..... ++|..+|+.+.-+|-+.
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~~-~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~-p~d~~~~~~lgaaldq~  147 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIAY-PKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLA-PTDWEAWNLLGAALDQL  147 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhccC-cccHHHHHHHHHHHHHhcchHHHHHHHHHHhccC-CCChhhhhHHHHHHHHc
Confidence            334444445555555555554433221 2344444445555555555555555555555443 44555555555555555


Q ss_pred             CChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchhhh
Q 046446          150 GQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSF  229 (244)
Q Consensus       150 ~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  229 (244)
                      |++++|..-|.+..+... -+....+.+.-.+.-.|+.+.|..++......+. -|...-..+..+....|++.+|..+.
T Consensus       148 Gr~~~Ar~ay~qAl~L~~-~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~-ad~~v~~NLAl~~~~~g~~~~A~~i~  225 (257)
T COG5010         148 GRFDEARRAYRQALELAP-NEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPA-ADSRVRQNLALVVGLQGDFREAEDIA  225 (257)
T ss_pred             cChhHHHHHHHHHHHhcc-CCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCC-CchHHHHHHHHHHhhcCChHHHHhhc
Confidence            555555555555554321 1334445555555555555555555555554432 14444445555555555555554443

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.89  E-value=4.4e-07  Score=60.76  Aligned_cols=95  Identities=12%  Similarity=-0.078  Sum_probs=65.9

Q ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHc
Q 046446           69 YTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYN  148 (244)
Q Consensus        69 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  148 (244)
                      +..+...+...|++++|...|++..... +.+...|..+..++...|++++|...|+.....+ +.+...+..+..++..
T Consensus        27 ~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~-p~~~~a~~~lg~~l~~  104 (144)
T PRK15359         27 VYASGYASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD-ASHPEPVYQTGVCLKM  104 (144)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHH
Confidence            4455666677777777777777776655 4566777777777777777777777777776654 4456677777777777


Q ss_pred             cCChHHHHHHHHHHHHc
Q 046446          149 DGQMDKAHDLFLDMEEN  165 (244)
Q Consensus       149 ~~~~~~a~~~~~~~~~~  165 (244)
                      .|++++|...|+...+.
T Consensus       105 ~g~~~eAi~~~~~Al~~  121 (144)
T PRK15359        105 MGEPGLAREAFQTAIKM  121 (144)
T ss_pred             cCCHHHHHHHHHHHHHh
Confidence            77777777777776653

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

Probab=98.89  E-value=3.6e-07  Score=65.06  Aligned_cols=164  Identities=15%  Similarity=0.117  Sum_probs=125.8

Q ss_pred             ChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHH
Q 046446           30 DVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLID  109 (244)
Q Consensus        30 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  109 (244)
                      |... ..+-..+...|+-+....+....... .+-|.......++...+.|++..|...+.+..... ++|..+|+.+.-
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-AKLATALYLRGDADSSLAVLQKSAIA-YPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLA-PTDWEAWNLLGA  142 (257)
T ss_pred             hHHH-HHHHHHHHhcccccchHHHHhhhhcc-CcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccC-CCChhhhhHHHH
Confidence            3444 55566677778877777776664433 23355666778888899999999999999988766 788999999999


Q ss_pred             HHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhH
Q 046446          110 GLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSK  189 (244)
Q Consensus       110 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~  189 (244)
                      +|.+.|++++|..-|.+..+.. +-+....|.+.-.+.-.|+++.|..++......+.. |...-..+..+....|+++.
T Consensus       143 aldq~Gr~~~Ar~ay~qAl~L~-~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~a-d~~v~~NLAl~~~~~g~~~~  220 (257)
T COG5010         143 ALDQLGRFDEARRAYRQALELA-PNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAA-DSRVRQNLALVVGLQGDFRE  220 (257)
T ss_pred             HHHHccChhHHHHHHHHHHHhc-cCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCC-chHHHHHHHHHHhhcCChHH
Confidence            9999999999999888877653 335677888888888889999999999888775433 66667777788888899999


Q ss_pred             HHHHHHHHH
Q 046446          190 VIELLHKMK  198 (244)
Q Consensus       190 a~~~~~~~~  198 (244)
                      |..+...-.
T Consensus       221 A~~i~~~e~  229 (257)
T COG5010         221 AEDIAVQEL  229 (257)
T ss_pred             HHhhccccc
Confidence            988776544

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

Probab=98.86  E-value=4.8e-06  Score=66.86  Aligned_cols=188  Identities=13%  Similarity=0.066  Sum_probs=145.6

Q ss_pred             hhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHH
Q 046446            6 YCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVES   85 (244)
Q Consensus         6 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   85 (244)
                      +...|++..|..++.+..+.. +.+...|-..+..-....+++.|..+|.+...  ..|+..+|.--+..---.+..++|
T Consensus       594 ~w~agdv~~ar~il~~af~~~-pnseeiwlaavKle~en~e~eraR~llakar~--~sgTeRv~mKs~~~er~ld~~eeA  670 (913)
T KOG0495|consen  594 KWKAGDVPAARVILDQAFEAN-PNSEEIWLAAVKLEFENDELERARDLLAKARS--ISGTERVWMKSANLERYLDNVEEA  670 (913)
T ss_pred             HHhcCCcHHHHHHHHHHHHhC-CCcHHHHHHHHHHhhccccHHHHHHHHHHHhc--cCCcchhhHHHhHHHHHhhhHHHH
Confidence            445688888888888887763 34666788888888888888999888877766  467777777666666667888889


Q ss_pred             HHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHc
Q 046446           86 VELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEEN  165 (244)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  165 (244)
                      .+++++..+. ++.-...|..+...+-+.++.+.|...|..-.+. ++..+..|-.+...=-+.|++-.|..+++.....
T Consensus       671 ~rllEe~lk~-fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~-cP~~ipLWllLakleEk~~~~~rAR~ildrarlk  748 (913)
T KOG0495|consen  671 LRLLEEALKS-FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKK-CPNSIPLWLLLAKLEEKDGQLVRARSILDRARLK  748 (913)
T ss_pred             HHHHHHHHHh-CCchHHHHHHHhHHHHHHHHHHHHHHHHHhcccc-CCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhc
Confidence            9988887765 3445667888888888888888888888765554 2445667888877777888999999999988766


Q ss_pred             CCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHH
Q 046446          166 AVAPNVITFGTLIHGFIRINEPSKVIELLHKMKE  199 (244)
Q Consensus       166 ~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  199 (244)
                      +.. +...|...|+.-.+.|..+.|..++.+..+
T Consensus       749 NPk-~~~lwle~Ir~ElR~gn~~~a~~lmakALQ  781 (913)
T KOG0495|consen  749 NPK-NALLWLESIRMELRAGNKEQAELLMAKALQ  781 (913)
T ss_pred             CCC-cchhHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            543 778888889999999999999888877654

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

Probab=98.85  E-value=2.2e-06  Score=72.40  Aligned_cols=206  Identities=12%  Similarity=0.073  Sum_probs=133.5

Q ss_pred             hhhhhhhcCChhHHHHHHHHHHhCCCCCChh-hHHHHHHHHhhhchHHHHHHHHHHHHHcCCCC----------------
Q 046446            2 LINGYCKNKEIEGALNLYSEMLSKGIKPDVV-IHNTLFIGLFEIHQVERAFKLFDEMQRDGVAA----------------   64 (244)
Q Consensus         2 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~----------------   64 (244)
                      |+..+...+++++|.++.+...+.  .|+.. .|..+...+.+.++.+.+..+  .+... +..                
T Consensus        37 Li~~~~~~~~~deai~i~~~~l~~--~P~~i~~yy~~G~l~~q~~~~~~~~lv--~~l~~-~~~~~~~~~ve~~~~~i~~  111 (906)
T PRK14720         37 LIDAYKSENLTDEAKDICEEHLKE--HKKSISALYISGILSLSRRPLNDSNLL--NLIDS-FSQNLKWAIVEHICDKILL  111 (906)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHh--CCcceehHHHHHHHHHhhcchhhhhhh--hhhhh-cccccchhHHHHHHHHHHh
Confidence            567778889999999999877766  45443 333333345555555554444  22222 111                


Q ss_pred             ---ChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHH
Q 046446           65 ---DTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSI  141 (244)
Q Consensus        65 ---~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  141 (244)
                         +...+..+..+|-+.|+.+++..+|+++.+.. +-|..+.|.+...|+.. ++++|..++.+....-  .+..-|+.
T Consensus       112 ~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~~~--i~~kq~~~  187 (906)
T PRK14720        112 YGENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAITYLKKAIYRF--IKKKQYVG  187 (906)
T ss_pred             hhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHHHHHHHHHHH--HhhhcchH
Confidence               22566777788888889999999999888887 67888888888888888 8888888887766541  12222222


Q ss_pred             HHHHH-----HccCChHHHHHHHHHHHHc-CCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHH
Q 046446          142 MIHGL-----YNDGQMDKAHDLFLDMEEN-AVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDL  215 (244)
Q Consensus       142 li~~~-----~~~~~~~~a~~~~~~~~~~-~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  215 (244)
                      +...+     ....+++.-..+.+.+... |..--..++.-+...|...++|+++..+++.+.+..-. |.....-++.+
T Consensus       188 ~~e~W~k~~~~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~~~~-n~~a~~~l~~~  266 (906)
T PRK14720        188 IEEIWSKLVHYNSDDFDFFLRIERKVLGHREFTRLVGLLEDLYEPYKALEDWDEVIYILKKILEHDNK-NNKAREELIRF  266 (906)
T ss_pred             HHHHHHHHHhcCcccchHHHHHHHHHHhhhccchhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcCCc-chhhHHHHHHH
Confidence            22211     1223444444455544432 33334455666677888888999999999999887533 66777778888


Q ss_pred             HH
Q 046446          216 LA  217 (244)
Q Consensus       216 ~~  217 (244)
                      |.
T Consensus       267 y~  268 (906)
T PRK14720        267 YK  268 (906)
T ss_pred             HH
Confidence            87

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

Probab=98.82  E-value=3.5e-07  Score=73.77  Aligned_cols=213  Identities=11%  Similarity=0.032  Sum_probs=166.9

Q ss_pred             hhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHH
Q 046446            4 NGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIV   83 (244)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   83 (244)
                      ..+...|-...|..+|+++.         .|..+|.+|...|+-.+|..+..+..+  -+||+..|..+.+......-++
T Consensus       406 ell~slGitksAl~I~Erle---------mw~~vi~CY~~lg~~~kaeei~~q~le--k~~d~~lyc~LGDv~~d~s~yE  474 (777)
T KOG1128|consen  406 ELLLSLGITKSALVIFERLE---------MWDPVILCYLLLGQHGKAEEINRQELE--KDPDPRLYCLLGDVLHDPSLYE  474 (777)
T ss_pred             HHHHHcchHHHHHHHHHhHH---------HHHHHHHHHHHhcccchHHHHHHHHhc--CCCcchhHHHhhhhccChHHHH
Confidence            45666777788888876654         566788888899999999888887777  4788999999888887777788


Q ss_pred             HHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHH
Q 046446           84 ESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDME  163 (244)
Q Consensus        84 ~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~  163 (244)
                      .|.++.+..-..       +-..+.....+.++++++.+.|+.-...+ +.-..+|-.+..+..+.+++..|...|....
T Consensus       475 kawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~n-plq~~~wf~~G~~ALqlek~q~av~aF~rcv  546 (777)
T KOG1128|consen  475 KAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEIN-PLQLGTWFGLGCAALQLEKEQAAVKAFHRCV  546 (777)
T ss_pred             HHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhcC-ccchhHHHhccHHHHHHhhhHHHHHHHHHHh
Confidence            888888764322       22223333345789999999999876654 4467789999999999999999999999887


Q ss_pred             HcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchhhhhhhhhhhc
Q 046446          164 ENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFTVHERQEE  237 (244)
Q Consensus       164 ~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  237 (244)
                      ... +-+...||.+-.+|.+.++-.+|...+++..+.+ .-+...+..-+-.-.+.|.+++|++.+..+....+
T Consensus       547 tL~-Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn-~~~w~iWENymlvsvdvge~eda~~A~~rll~~~~  618 (777)
T KOG1128|consen  547 TLE-PDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN-YQHWQIWENYMLVSVDVGEFEDAIKAYHRLLDLRK  618 (777)
T ss_pred             hcC-CCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC-CCCCeeeechhhhhhhcccHHHHHHHHHHHHHhhh
Confidence            642 2356789999999999999999999999999887 33556666677788899999999999988876554

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

Probab=98.82  E-value=2.9e-06  Score=73.25  Aligned_cols=200  Identities=11%  Similarity=0.047  Sum_probs=118.3

Q ss_pred             CChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCC-----ChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHh
Q 046446           29 PDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAA-----DTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQA  103 (244)
Q Consensus        29 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~-----~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  103 (244)
                      -+...|-..|....+.++.+.|.++.++.... +.+     -...|.++++.-..-|.-+...++|+++.+..  -....
T Consensus      1456 NSSi~WI~YMaf~LelsEiekAR~iaerAL~t-IN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqyc--d~~~V 1532 (1710)
T KOG1070|consen 1456 NSSILWIRYMAFHLELSEIEKARKIAERALKT-INFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYC--DAYTV 1532 (1710)
T ss_pred             CcchHHHHHHHHHhhhhhhHHHHHHHHHHhhh-CCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhc--chHHH
Confidence            34455666677777777777777777776553 211     12345555555555556666677777766542  23445


Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCC-CcHhHHHHHHHHHH
Q 046446          104 YSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVA-PNVITFGTLIHGFI  182 (244)
Q Consensus       104 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~-p~~~~~~~l~~~~~  182 (244)
                      |..|...|.+.+.+++|-++++.|.+.- .-....|...+..+.++++-+.|.+++.+..+.-.+ -........+..-.
T Consensus      1533 ~~~L~~iy~k~ek~~~A~ell~~m~KKF-~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLEF 1611 (1710)
T KOG1070|consen 1533 HLKLLGIYEKSEKNDEADELLRLMLKKF-GQTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLEF 1611 (1710)
T ss_pred             HHHHHHHHHHhhcchhHHHHHHHHHHHh-cchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHh
Confidence            6667777777777777777777766542 135566777777777777777777777665543111 01222333344444


Q ss_pred             hcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchhhhhhhh
Q 046446          183 RINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFTVHE  233 (244)
Q Consensus       183 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  233 (244)
                      +.|+.+++..+|+....... -....|+..++.-.+.|+...+..+|++..
T Consensus      1612 k~GDaeRGRtlfEgll~ayP-KRtDlW~VYid~eik~~~~~~vR~lfeRvi 1661 (1710)
T KOG1070|consen 1612 KYGDAERGRTLFEGLLSAYP-KRTDLWSVYIDMEIKHGDIKYVRDLFERVI 1661 (1710)
T ss_pred             hcCCchhhHHHHHHHHhhCc-cchhHHHHHHHHHHccCCHHHHHHHHHHHH
Confidence            56666666666666665432 244566666666666666666666666544

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

Probab=98.80  E-value=1.1e-05  Score=57.86  Aligned_cols=146  Identities=12%  Similarity=0.136  Sum_probs=105.5

Q ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHc
Q 046446           69 YTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYN  148 (244)
Q Consensus        69 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  148 (244)
                      ...-...|...|++++|++.....      -+......=...+.+..+.+-|.+.++.|.+..   +..|.+.|.+++.+
T Consensus       111 ~l~aa~i~~~~~~~deAl~~~~~~------~~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~id---ed~tLtQLA~awv~  181 (299)
T KOG3081|consen  111 LLLAAIIYMHDGDFDEALKALHLG------ENLEAAALNVQILLKMHRFDLAEKELKKMQQID---EDATLTQLAQAWVK  181 (299)
T ss_pred             HHHhhHHhhcCCChHHHHHHHhcc------chHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc---hHHHHHHHHHHHHH
Confidence            334455678888999998887762      133333333556677788899999999998863   56677767666654


Q ss_pred             ----cCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcccccc
Q 046446          149 ----DGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLN  224 (244)
Q Consensus       149 ----~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  224 (244)
                          .+...+|.-+|++|.++ ..|++.+.+-...++...|++++|..+++....+... ++.+...++-+-...|...+
T Consensus       182 la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~-dpetL~Nliv~a~~~Gkd~~  259 (299)
T KOG3081|consen  182 LATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAK-DPETLANLIVLALHLGKDAE  259 (299)
T ss_pred             HhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCC-CHHHHHHHHHHHHHhCCChH
Confidence                45688899999998864 5788888888888889999999999999998877533 56666666666555666544


Q ss_pred             c
Q 046446          225 S  225 (244)
Q Consensus       225 a  225 (244)
                      +
T Consensus       260 ~  260 (299)
T KOG3081|consen  260 V  260 (299)
T ss_pred             H
Confidence            3

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.80  E-value=2.1e-06  Score=71.46  Aligned_cols=134  Identities=12%  Similarity=0.085  Sum_probs=100.3

Q ss_pred             CCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCC-hhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHH
Q 046446           28 KPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAAD-TRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSC  106 (244)
Q Consensus        28 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  106 (244)
                      +.++..+..|.....+.|.+++|..+++...+.  .|+ ......+...+.+.+++++|+..+++..... +-+......
T Consensus        83 ~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~--~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~-p~~~~~~~~  159 (694)
T PRK15179         83 PHTELFQVLVARALEAAHRSDEGLAVWRGIHQR--FPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGG-SSSAREILL  159 (694)
T ss_pred             cccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhh--CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcC-CCCHHHHHH
Confidence            445677777777777888888888888888775  344 4556677778888888888888888887765 456667777


Q ss_pred             HHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHc
Q 046446          107 LIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEEN  165 (244)
Q Consensus       107 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  165 (244)
                      +..++...|++++|..+|+++...+ +-+..++..+...+...|+.++|...|+...+.
T Consensus       160 ~a~~l~~~g~~~~A~~~y~~~~~~~-p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~  217 (694)
T PRK15179        160 EAKSWDEIGQSEQADACFERLSRQH-PEFENGYVGWAQSLTRRGALWRARDVLQAGLDA  217 (694)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            7778888888888888888887643 334777788888888888888888888877653

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

Probab=98.79  E-value=3.2e-06  Score=72.96  Aligned_cols=214  Identities=14%  Similarity=0.055  Sum_probs=166.3

Q ss_pred             hhhhhhcCChhHHHHHHHHHHhC-CCCC---ChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHh
Q 046446            3 INGYCKNKEIEGALNLYSEMLSK-GIKP---DVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCK   78 (244)
Q Consensus         3 i~~~~~~~~~~~a~~~~~~~~~~-~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~   78 (244)
                      |....+.++.+.|.+++++.+.. ++.-   -...|.++++.-..-|.-+...++|+++.+. .. .-..|..|...|.+
T Consensus      1465 Maf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqy-cd-~~~V~~~L~~iy~k 1542 (1710)
T KOG1070|consen 1465 MAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQY-CD-AYTVHLKLLGIYEK 1542 (1710)
T ss_pred             HHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHh-cc-hHHHHHHHHHHHHH
Confidence            45667889999999999999875 2111   2346777777766778889999999999886 21 23567889999999


Q ss_pred             CCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCcccc---HHHHHHHHHHHHccCChHHH
Q 046446           79 NGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVAD---VVTYSIMIHGLYNDGQMDKA  155 (244)
Q Consensus        79 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~li~~~~~~~~~~~a  155 (244)
                      .+..++|.++++.|.+.= ......|...+..+.+..+-+.|..++.+..+.  -|.   .....-.+..-.+.|+.+.+
T Consensus      1543 ~ek~~~A~ell~~m~KKF-~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~--lPk~eHv~~IskfAqLEFk~GDaeRG 1619 (1710)
T KOG1070|consen 1543 SEKNDEADELLRLMLKKF-GQTRKVWIMYADFLLRQNEAEAARELLKRALKS--LPKQEHVEFISKFAQLEFKYGDAERG 1619 (1710)
T ss_pred             hhcchhHHHHHHHHHHHh-cchhhHHHHHHHHHhcccHHHHHHHHHHHHHhh--cchhhhHHHHHHHHHHHhhcCCchhh
Confidence            999999999999998752 367889999999999999999999999987765  233   34445555666789999999


Q ss_pred             HHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCh--hhHHHHHHHHHhcccc
Q 046446          156 HDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDA--SIVSIVVDLLAKNEIS  222 (244)
Q Consensus       156 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~g~~  222 (244)
                      ..+|+.......+ -...|+..+..-.++|+.+.+..+|++....++.|-.  ..|..-+..=.+.|+-
T Consensus      1620 RtlfEgll~ayPK-RtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde 1687 (1710)
T KOG1070|consen 1620 RTLFEGLLSAYPK-RTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDE 1687 (1710)
T ss_pred             HHHHHHHHhhCcc-chhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCch
Confidence            9999998875332 5678999999999999999999999999999887753  3444444433444554

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.79  E-value=5.3e-06  Score=69.19  Aligned_cols=145  Identities=10%  Similarity=0.033  Sum_probs=121.8

Q ss_pred             CCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHH
Q 046446           62 VAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSI  141 (244)
Q Consensus        62 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  141 (244)
                      ...++..+..|.....+.|..++|..+++...+.. |-+......+...+.+.+++++|+...++..... +-+....+.
T Consensus        82 ~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~-Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~-p~~~~~~~~  159 (694)
T PRK15179         82 YPHTELFQVLVARALEAAHRSDEGLAVWRGIHQRF-PDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGG-SSSAREILL  159 (694)
T ss_pred             ccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcC-CCCHHHHHH
Confidence            34568889999999999999999999999999875 5677788889999999999999999999999885 445777788


Q ss_pred             HHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHH
Q 046446          142 MIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVS  210 (244)
Q Consensus       142 li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  210 (244)
                      +..++...|++++|..+|+++...+ +-+..++..+..++...|+.++|...|+...+.. .|....|+
T Consensus       160 ~a~~l~~~g~~~~A~~~y~~~~~~~-p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~-~~~~~~~~  226 (694)
T PRK15179        160 EAKSWDEIGQSEQADACFERLSRQH-PEFENGYVGWAQSLTRRGALWRARDVLQAGLDAI-GDGARKLT  226 (694)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhh-CcchHHHH
Confidence            8889999999999999999999843 2357888888999999999999999999988652 33444443

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

Probab=98.78  E-value=8.4e-07  Score=58.81  Aligned_cols=92  Identities=16%  Similarity=0.078  Sum_probs=40.2

Q ss_pred             HHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccC
Q 046446           71 IFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDG  150 (244)
Q Consensus        71 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~  150 (244)
                      .+...+...|++++|.+.++...+.+ +.+...+..+...+...|++++|..+++.....+ +.+...+..+...+...|
T Consensus        22 ~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~g   99 (135)
T TIGR02552        22 ALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAECLLALG   99 (135)
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHHcC
Confidence            33344444444444444444444433 2344444444444444444444444444443332 223344444444444444


Q ss_pred             ChHHHHHHHHHHHH
Q 046446          151 QMDKAHDLFLDMEE  164 (244)
Q Consensus       151 ~~~~a~~~~~~~~~  164 (244)
                      ++++|...|+...+
T Consensus       100 ~~~~A~~~~~~al~  113 (135)
T TIGR02552       100 EPESALKALDLAIE  113 (135)
T ss_pred             CHHHHHHHHHHHHH
Confidence            44444444444443

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

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

Probab=98.74  E-value=1.1e-06  Score=58.24  Aligned_cols=116  Identities=16%  Similarity=0.138  Sum_probs=93.5

Q ss_pred             HHHHHHhCCCCC-ChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhC
Q 046446           18 LYSEMLSKGIKP-DVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILK   96 (244)
Q Consensus        18 ~~~~~~~~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~   96 (244)
                      .++.....  .| +......+...+...|++++|...|+.....+ +.+...+..+...+...|++++|...+++..+.+
T Consensus         5 ~~~~~l~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~   81 (135)
T TIGR02552         5 TLKDLLGL--DSEQLEQIYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD   81 (135)
T ss_pred             hHHHHHcC--ChhhHHHHHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            45555555  34 34556677788889999999999999998864 4477888899999999999999999999988776


Q ss_pred             CCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHH
Q 046446           97 CELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTY  139 (244)
Q Consensus        97 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  139 (244)
                       +.+...+..+..++...|++++|...|+...+..  |+...+
T Consensus        82 -p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--p~~~~~  121 (135)
T TIGR02552        82 -PDDPRPYFHAAECLLALGEPESALKALDLAIEIC--GENPEY  121 (135)
T ss_pred             -CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhc--cccchH
Confidence             5678888888999999999999999999988763  554443

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

>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=98.72  E-value=8.7e-07  Score=68.60  Aligned_cols=121  Identities=14%  Similarity=0.113  Sum_probs=58.7

Q ss_pred             HHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCC
Q 046446           36 TLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSG  115 (244)
Q Consensus        36 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~  115 (244)
                      .++..+...++++.|..+++++.+..  |+  ....+++.+...++-.+|.+++.+..+.. +.+......-...+.+.+
T Consensus       174 ~Ll~~l~~t~~~~~ai~lle~L~~~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fLl~k~  248 (395)
T PF09295_consen  174 TLLKYLSLTQRYDEAIELLEKLRERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFLLSKK  248 (395)
T ss_pred             HHHHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcC
Confidence            33444444455555555555555442  22  22334444444555555555555554432 234444444444455555


Q ss_pred             CHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHH
Q 046446          116 RLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDM  162 (244)
Q Consensus       116 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  162 (244)
                      +++.|+.+.+++.... +-+..+|..|..+|...|+++.|+..++.+
T Consensus       249 ~~~lAL~iAk~av~ls-P~~f~~W~~La~~Yi~~~d~e~ALlaLNs~  294 (395)
T PF09295_consen  249 KYELALEIAKKAVELS-PSEFETWYQLAECYIQLGDFENALLALNSC  294 (395)
T ss_pred             CHHHHHHHHHHHHHhC-chhHHHHHHHHHHHHhcCCHHHHHHHHhcC
Confidence            5555555555555442 222345555555555555555555555443

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

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

Probab=98.71  E-value=3.7e-05  Score=59.73  Aligned_cols=224  Identities=12%  Similarity=0.109  Sum_probs=135.9

Q ss_pred             cCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHH
Q 046446            9 NKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVEL   88 (244)
Q Consensus         9 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~   88 (244)
                      .|++..|.++|++-.+-  .|+...|++.|+.=.+-+.++.|..+|++..-  +.|+..+|---.+.=-+.|....+.++
T Consensus       154 LgNi~gaRqiferW~~w--~P~eqaW~sfI~fElRykeieraR~IYerfV~--~HP~v~~wikyarFE~k~g~~~~aR~V  229 (677)
T KOG1915|consen  154 LGNIAGARQIFERWMEW--EPDEQAWLSFIKFELRYKEIERARSIYERFVL--VHPKVSNWIKYARFEEKHGNVALARSV  229 (677)
T ss_pred             hcccHHHHHHHHHHHcC--CCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhe--ecccHHHHHHHHHHHHhcCcHHHHHHH
Confidence            57788888888887776  78888888888888888888888888887764  346666665544444444444444444


Q ss_pred             HHHHH---------------------------------------------------------------------------
Q 046446           89 FRTLR---------------------------------------------------------------------------   93 (244)
Q Consensus        89 ~~~~~---------------------------------------------------------------------------   93 (244)
                      |+...                                                                           
T Consensus       230 yerAie~~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~  309 (677)
T KOG1915|consen  230 YERAIEFLGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKF  309 (677)
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhh
Confidence            33321                                                                           


Q ss_pred             ------HhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHH--HHHHHH----HH----HHccCChHHHHH
Q 046446           94 ------ILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVV--TYSIMI----HG----LYNDGQMDKAHD  157 (244)
Q Consensus        94 ------~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~li----~~----~~~~~~~~~a~~  157 (244)
                            +.+ +.|-.+|--.++.-...|+.+...++|++....- +|-..  .|.-.|    +.    =....+.+.+.+
T Consensus       310 qYE~~v~~n-p~nYDsWfdylrL~e~~g~~~~Ire~yErAIanv-pp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~  387 (677)
T KOG1915|consen  310 QYEKEVSKN-PYNYDSWFDYLRLEESVGDKDRIRETYERAIANV-PPASEKRYWRRYIYLWINYALYEELEAEDVERTRQ  387 (677)
T ss_pred             HHHHHHHhC-CCCchHHHHHHHHHHhcCCHHHHHHHHHHHHccC-CchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHH
Confidence                  111 3455666666666667777777777777776542 33111  111111    11    112344555555


Q ss_pred             HHHHHHH------------------------------------cCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCC
Q 046446          158 LFLDMEE------------------------------------NAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKN  201 (244)
Q Consensus       158 ~~~~~~~------------------------------------~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  201 (244)
                      +++...+                                    -|..|-..+|...|..-.+.++++.+..+++...+.+
T Consensus       388 vyq~~l~lIPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG~cPK~KlFk~YIelElqL~efDRcRkLYEkfle~~  467 (677)
T KOG1915|consen  388 VYQACLDLIPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIGKCPKDKLFKGYIELELQLREFDRCRKLYEKFLEFS  467 (677)
T ss_pred             HHHHHHhhcCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            5543332                                    1344556666666666666777777777777777654


Q ss_pred             CCCChhhHHHHHHHHHhccccccchhhhhhhhhhhccc
Q 046446          202 VMPDASIVSIVVDLLAKNEISLNSLPSFTVHERQEEVD  239 (244)
Q Consensus       202 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  239 (244)
                      . -+..+|......=...|+.+.|..+|+....+..++
T Consensus       468 P-e~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ld  504 (677)
T KOG1915|consen  468 P-ENCYAWSKYAELETSLGDTDRARAIFELAISQPALD  504 (677)
T ss_pred             h-HhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccc
Confidence            2 255666666666666778888888887776665443

>PLN02789 farnesyltranstransferase

Probab=98.71  E-value=2.1e-05  Score=59.72  Aligned_cols=194  Identities=11%  Similarity=-0.033  Sum_probs=138.7

Q ss_pred             HHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCC-cHHHHHHHHHHHHHhCCCccHHhHHHHHHHHH
Q 046446           34 HNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNG-YIVESVELFRTLRILKCELDIQAYSCLIDGLC  112 (244)
Q Consensus        34 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~  112 (244)
                      +..+-..+...+..++|+.++.++.+.... +..+|+.-..++...| ++++++..++++.+.+ +.+..+|+.-...+.
T Consensus        40 ~~~~ra~l~~~e~serAL~lt~~aI~lnP~-~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~n-pknyqaW~~R~~~l~  117 (320)
T PLN02789         40 MDYFRAVYASDERSPRALDLTADVIRLNPG-NYTVWHFRRLCLEALDADLEEELDFAEDVAEDN-PKNYQIWHHRRWLAE  117 (320)
T ss_pred             HHHHHHHHHcCCCCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHC-CcchHHhHHHHHHHH
Confidence            334444555667889999999999886322 4456766666666777 6799999999999876 567777887766666


Q ss_pred             cCCCH--HHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhc---CCh
Q 046446          113 KSGRL--EIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRI---NEP  187 (244)
Q Consensus       113 ~~~~~--~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~---g~~  187 (244)
                      +.|..  ++++.+++.+.+.+ +-+..+|+...-++.+.|+++++++.++.+.+.+.. |...|+.....+.+.   |..
T Consensus       118 ~l~~~~~~~el~~~~kal~~d-pkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~-N~sAW~~R~~vl~~~~~l~~~  195 (320)
T PLN02789        118 KLGPDAANKELEFTRKILSLD-AKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVR-NNSAWNQRYFVITRSPLLGGL  195 (320)
T ss_pred             HcCchhhHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCC-chhHHHHHHHHHHhccccccc
Confidence            66663  67888898888775 457899999999999999999999999999987655 677787776665544   223


Q ss_pred             ----hHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcc----ccccchhhhhhh
Q 046446          188 ----SKVIELLHKMKEKNVMPDASIVSIVVDLLAKNE----ISLNSLPSFTVH  232 (244)
Q Consensus       188 ----~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g----~~~~a~~~~~~~  232 (244)
                          ++......++..... -|...|+.+...+...+    ...++.+++...
T Consensus       196 ~~~~e~el~y~~~aI~~~P-~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~  247 (320)
T PLN02789        196 EAMRDSELKYTIDAILANP-RNESPWRYLRGLFKDDKEALVSDPEVSSVCLEV  247 (320)
T ss_pred             cccHHHHHHHHHHHHHhCC-CCcCHHHHHHHHHhcCCcccccchhHHHHHHHh
Confidence                356666666666542 36677777777776633    334566666554

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

Probab=98.68  E-value=8.5e-07  Score=69.04  Aligned_cols=124  Identities=13%  Similarity=0.131  Sum_probs=92.7

Q ss_pred             CCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHh--CCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHH
Q 046446           61 GVAADTRTYTIFIDGLCKNGYIVESVELFRTLRIL--KCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVT  138 (244)
Q Consensus        61 ~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  138 (244)
                      +.+.++.....+++.+....+.+.+..++-+.+..  ....-..|..++++.|...|..++++.+++.=...|+-||..+
T Consensus        61 ~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s  140 (429)
T PF10037_consen   61 KKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFS  140 (429)
T ss_pred             CCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhh
Confidence            45556777777888877777788888887777654  2223344556888888888888888888888888888888888


Q ss_pred             HHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhc
Q 046446          139 YSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRI  184 (244)
Q Consensus       139 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  184 (244)
                      +|.|+..+.+.|++..|.++...|...+...+..|+...+.+|.+-
T Consensus       141 ~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  141 FNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            8888888888888888888888877666666667766666665554

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 [].

>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=98.67  E-value=2.1e-06  Score=66.58  Aligned_cols=127  Identities=14%  Similarity=0.106  Sum_probs=86.9

Q ss_pred             ChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHH
Q 046446           65 DTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIH  144 (244)
Q Consensus        65 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  144 (244)
                      +......|++.+...++++.|.++++++.+..  |+  ....++..+...++-.+|.+++++..... +-+......-..
T Consensus       168 ~NyLv~~Ll~~l~~t~~~~~ai~lle~L~~~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~  242 (395)
T PF09295_consen  168 NNYLVDTLLKYLSLTQRYDEAIELLEKLRERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAE  242 (395)
T ss_pred             chHHHHHHHHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            34445566666667777888888888877654  44  33346677777777777777777776543 335566666667


Q ss_pred             HHHccCChHHHHHHHHHHHHcCCCCc-HhHHHHHHHHHHhcCChhHHHHHHHHHH
Q 046446          145 GLYNDGQMDKAHDLFLDMEENAVAPN-VITFGTLIHGFIRINEPSKVIELLHKMK  198 (244)
Q Consensus       145 ~~~~~~~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~  198 (244)
                      .+...++++.|+.+.+++.+.  .|+ -.+|..|..+|...|+++.|+..++.+-
T Consensus       243 fLl~k~~~~lAL~iAk~av~l--sP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  243 FLLSKKKYELALEIAKKAVEL--SPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             HHHhcCCHHHHHHHHHHHHHh--CchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            777778888888888777764  343 4477778888888888888877777654

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

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.61  E-value=8.7e-08  Score=47.27  Aligned_cols=33  Identities=42%  Similarity=0.613  Sum_probs=18.8

Q ss_pred             hHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCC
Q 046446           33 IHNTLFIGLFEIHQVERAFKLFDEMQRDGVAAD   65 (244)
Q Consensus        33 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~   65 (244)
                      +||.+|.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            455555555555555555555555555555554

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.

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

Probab=98.61  E-value=1.2e-05  Score=57.67  Aligned_cols=172  Identities=11%  Similarity=0.067  Sum_probs=120.8

Q ss_pred             HHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCC
Q 046446           18 LYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKC   97 (244)
Q Consensus        18 ~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~   97 (244)
                      +.+.+.......+......-...|...+++++|++..+..    ...+...  .=...+.+..+.+.|.+.+++|.+-  
T Consensus        95 l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~----~~lE~~A--l~VqI~lk~~r~d~A~~~lk~mq~i--  166 (299)
T KOG3081|consen   95 LYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLG----ENLEAAA--LNVQILLKMHRFDLAEKELKKMQQI--  166 (299)
T ss_pred             HHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhcc----chHHHHH--HHHHHHHHHHHHHHHHHHHHHHHcc--
Confidence            3444444433333333444456688899999999988762    2223333  3345566778999999999999874  


Q ss_pred             CccHHhHHHHHHHHH----cCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhH
Q 046446           98 ELDIQAYSCLIDGLC----KSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVIT  173 (244)
Q Consensus        98 ~~~~~~~~~ll~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~  173 (244)
                       .+..|.+-|..++.    ..+...+|+-+|++|.+. .+|+..+.+....++...|++++|..++++....... ++.+
T Consensus       167 -ded~tLtQLA~awv~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~-dpet  243 (299)
T KOG3081|consen  167 -DEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAK-DPET  243 (299)
T ss_pred             -chHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCC-CHHH
Confidence             35566665666554    445789999999999885 3789999999999999999999999999999876544 6677


Q ss_pred             HHHHHHHHHhcCChh-HHHHHHHHHHHC
Q 046446          174 FGTLIHGFIRINEPS-KVIELLHKMKEK  200 (244)
Q Consensus       174 ~~~l~~~~~~~g~~~-~a~~~~~~~~~~  200 (244)
                      ...++-+-...|... -..+.+.++...
T Consensus       244 L~Nliv~a~~~Gkd~~~~~r~l~QLk~~  271 (299)
T KOG3081|consen  244 LANLIVLALHLGKDAEVTERNLSQLKLS  271 (299)
T ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHhc
Confidence            776666666666654 445566666654

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.61  E-value=9.2e-08  Score=47.18  Aligned_cols=33  Identities=36%  Similarity=0.764  Sum_probs=16.0

Q ss_pred             HHHHHHHHHHccCChHHHHHHHHHHHHcCCCCc
Q 046446          138 TYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPN  170 (244)
Q Consensus       138 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~  170 (244)
                      +||++|.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            344444444444444444444444444444443

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.

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

Probab=98.61  E-value=9.7e-07  Score=54.70  Aligned_cols=80  Identities=14%  Similarity=0.274  Sum_probs=63.4

Q ss_pred             HHHHHHHHhhhchHHHHHHHHHHHHHcCC-CCChhHHHHHHHHHHhCC--------cHHHHHHHHHHHHHhCCCccHHhH
Q 046446           34 HNTLFIGLFEIHQVERAFKLFDEMQRDGV-AADTRTYTIFIDGLCKNG--------YIVESVELFRTLRILKCELDIQAY  104 (244)
Q Consensus        34 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~~~~~~~~~ll~~~~~~~--------~~~~a~~~~~~~~~~~~~~~~~~~  104 (244)
                      -...|..+...+++...-.+|+.+++.|+ .|+..+|+.++.+.++..        +....+.+|+.|...+++|+..+|
T Consensus        28 ~i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etY  107 (120)
T PF08579_consen   28 QIDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETY  107 (120)
T ss_pred             HHHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHH
Confidence            34556666677888888888888888888 888888888888877643        345678888888888888999999


Q ss_pred             HHHHHHHHc
Q 046446          105 SCLIDGLCK  113 (244)
Q Consensus       105 ~~ll~~~~~  113 (244)
                      +.++..+.+
T Consensus       108 nivl~~Llk  116 (120)
T PF08579_consen  108 NIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHH
Confidence            888887764

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 [, , ].

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

Probab=98.60  E-value=1.3e-05  Score=53.75  Aligned_cols=115  Identities=12%  Similarity=0.098  Sum_probs=55.0

Q ss_pred             hchHHHHHHHHHHHHHcCCCCC---hhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCcc--HHhHHHHHHHHHcCCCHH
Q 046446           44 IHQVERAFKLFDEMQRDGVAAD---TRTYTIFIDGLCKNGYIVESVELFRTLRILKCELD--IQAYSCLIDGLCKSGRLE  118 (244)
Q Consensus        44 ~~~~~~a~~~~~~m~~~~~~~~---~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~ll~~~~~~~~~~  118 (244)
                      .++...+...++.+...... +   ....-.+...+...|++++|...|+........++  ......+...+...|+++
T Consensus        24 ~~~~~~~~~~~~~l~~~~~~-s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d  102 (145)
T PF09976_consen   24 AGDPAKAEAAAEQLAKDYPS-SPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQYD  102 (145)
T ss_pred             CCCHHHHHHHHHHHHHHCCC-ChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHH
Confidence            45555555555555554211 1   11222233445555666666666665555431111  122333455555556666


Q ss_pred             HHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHH
Q 046446          119 IALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLD  161 (244)
Q Consensus       119 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  161 (244)
                      +|+..++.....  ......+.....+|.+.|++++|...|+.
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            666655553332  22333444555555556666666555543

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.60  E-value=7.1e-05  Score=53.51  Aligned_cols=185  Identities=12%  Similarity=0.024  Sum_probs=138.1

Q ss_pred             hchHHHHHHHHHHHHHc---C-CCCChh-HHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHH
Q 046446           44 IHQVERAFKLFDEMQRD---G-VAADTR-TYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLE  118 (244)
Q Consensus        44 ~~~~~~a~~~~~~m~~~---~-~~~~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~  118 (244)
                      ..+.++.++++.++...   | ..++.. .|..++-+....|+.+.|...++++...- +-+...-..-.-.+-..|+++
T Consensus        25 ~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~f-p~S~RV~~lkam~lEa~~~~~  103 (289)
T KOG3060|consen   25 VRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRF-PGSKRVGKLKAMLLEATGNYK  103 (289)
T ss_pred             ccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHhhchh
Confidence            35778888888887653   4 555554 46677778888999999999999988763 444444333344456789999


Q ss_pred             HHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHH
Q 046446          119 IALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMK  198 (244)
Q Consensus       119 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  198 (244)
                      +|.++++.+.+.+ +.|..++---+...-..|+--+|++-+....+. +..|...|..+...|...|++++|.-.++++.
T Consensus       104 ~A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~l  181 (289)
T KOG3060|consen  104 EAIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCLEELL  181 (289)
T ss_pred             hHHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHH
Confidence            9999999999886 667778877777777788888999988887775 56799999999999999999999999999998


Q ss_pred             HCCCCCChhhHHHHHHHHHhcccc---ccchhhhhhh
Q 046446          199 EKNVMPDASIVSIVVDLLAKNEIS---LNSLPSFTVH  232 (244)
Q Consensus       199 ~~~~~~~~~~~~~l~~~~~~~g~~---~~a~~~~~~~  232 (244)
                      -.. +.++..+..+.+.+.-.|..   +-+.++|...
T Consensus       182 l~~-P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~a  217 (289)
T KOG3060|consen  182 LIQ-PFNPLYFQRLAEVLYTQGGAENLELARKYYERA  217 (289)
T ss_pred             HcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence            753 23555566677665544433   4445555443

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

Probab=98.59  E-value=2.1e-06  Score=66.92  Aligned_cols=124  Identities=10%  Similarity=0.035  Sum_probs=96.3

Q ss_pred             CCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHc--CCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHh
Q 046446           26 GIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRD--GVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQA  103 (244)
Q Consensus        26 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~--~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  103 (244)
                      +.+.+......+++.+....+.+.+..++.+.+..  ....-..|.+++++.|.+.|..+.++.+++.=...|+-||..+
T Consensus        61 ~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s  140 (429)
T PF10037_consen   61 KKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFS  140 (429)
T ss_pred             CCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhh
Confidence            44567777788888888888888888888888765  2222345566889999999999999999988888898899999


Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHcc
Q 046446          104 YSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYND  149 (244)
Q Consensus       104 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  149 (244)
                      +|.||+.+.+.|++..|.++...|...+...+..|+...+.+|.+-
T Consensus       141 ~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  141 FNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            9999999999999999999888877666556666666666555544

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 [].

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

Probab=98.57  E-value=2.3e-05  Score=60.89  Aligned_cols=119  Identities=11%  Similarity=0.041  Sum_probs=76.5

Q ss_pred             HHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCcccc-HHHHHHHHHHHHccCChH
Q 046446           75 GLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVAD-VVTYSIMIHGLYNDGQMD  153 (244)
Q Consensus        75 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~~~~~  153 (244)
                      .+...|..+.|+..++.+...- |-|...+......+...++.++|.+.++.+...  .|+ ...+-.+.+++.+.|++.
T Consensus       315 ~~~~~~~~d~A~~~l~~L~~~~-P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~a~all~~g~~~  391 (484)
T COG4783         315 QTYLAGQYDEALKLLQPLIAAQ-PDNPYYLELAGDILLEANKAKEAIERLKKALAL--DPNSPLLQLNLAQALLKGGKPQ  391 (484)
T ss_pred             HHHHhcccchHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCCccHHHHHHHHHHHhcCChH
Confidence            3445667777777777766542 455666666667777777777777777777665  344 555566667777777777


Q ss_pred             HHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHH
Q 046446          154 KAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKM  197 (244)
Q Consensus       154 ~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~  197 (244)
                      +|..+++..... .+-|+..|..|.++|...|+..++..-..+.
T Consensus       392 eai~~L~~~~~~-~p~dp~~w~~LAqay~~~g~~~~a~~A~AE~  434 (484)
T COG4783         392 EAIRILNRYLFN-DPEDPNGWDLLAQAYAELGNRAEALLARAEG  434 (484)
T ss_pred             HHHHHHHHHhhc-CCCCchHHHHHHHHHHHhCchHHHHHHHHHH
Confidence            777777766554 2336667777777777766666655544443

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.57  E-value=1.4e-07  Score=46.17  Aligned_cols=32  Identities=28%  Similarity=0.650  Sum_probs=16.3

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHHCCCCC
Q 046446          173 TFGTLIHGFIRINEPSKVIELLHKMKEKNVMP  204 (244)
Q Consensus       173 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  204 (244)
                      +|+.++.+|++.|+++.|.++|++|.+.|++|
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            45555555555555555555555555555444

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

Probab=98.55  E-value=1.7e-05  Score=53.24  Aligned_cols=126  Identities=13%  Similarity=0.062  Sum_probs=79.2

Q ss_pred             HHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCcc---HHhHHHHHHHHHcCCCHHHHHHHHHhcccCCcccc--HHHHHHH
Q 046446           68 TYTIFIDGLCKNGYIVESVELFRTLRILKCELD---IQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVAD--VVTYSIM  142 (244)
Q Consensus        68 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l  142 (244)
                      .|..++..+ ..++...+...++.+.+.. +.+   ....-.+...+...|++++|...|+........|+  ......+
T Consensus        14 ~y~~~~~~~-~~~~~~~~~~~~~~l~~~~-~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~L   91 (145)
T PF09976_consen   14 LYEQALQAL-QAGDPAKAEAAAEQLAKDY-PSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRL   91 (145)
T ss_pred             HHHHHHHHH-HCCCHHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHH
Confidence            344444444 3677777777777777654 223   23333455677778888888888888777642222  2244456


Q ss_pred             HHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHH
Q 046446          143 IHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKM  197 (244)
Q Consensus       143 i~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~  197 (244)
                      ...+...|++++|+..++.....  ......+......+.+.|++++|...|+..
T Consensus        92 A~~~~~~~~~d~Al~~L~~~~~~--~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen   92 ARILLQQGQYDEALATLQQIPDE--AFKALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             HHHHHHcCCHHHHHHHHHhccCc--chHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            67777788888888887664332  223445556667777888888888777653

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.55  E-value=1.7e-07  Score=45.94  Aligned_cols=33  Identities=33%  Similarity=0.539  Sum_probs=23.1

Q ss_pred             HHHHHHHHHHHccCChHHHHHHHHHHHHcCCCC
Q 046446          137 VTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAP  169 (244)
Q Consensus       137 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p  169 (244)
                      .+|+.++.+|++.|+++.|.++|++|.+.|+.|
T Consensus         2 ~ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    2 HTYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             cHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            467777777777777777777777777766665

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.55  E-value=0.00011  Score=55.07  Aligned_cols=222  Identities=10%  Similarity=0.044  Sum_probs=163.7

Q ss_pred             hhhhcCChhHHHHHHHHHHhCCCCCCh--------------hhH--HHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhH
Q 046446            5 GYCKNKEIEGALNLYSEMLSKGIKPDV--------------VIH--NTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRT   68 (244)
Q Consensus         5 ~~~~~~~~~~a~~~~~~~~~~~~~~~~--------------~~~--~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~   68 (244)
                      .+.+.|.++.|..=|+..+++  .|+.              ..|  ...+..+...|+...|+.....+.+- .+.|...
T Consensus       115 vllK~Gele~A~~DF~~vl~~--~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi-~~Wda~l  191 (504)
T KOG0624|consen  115 VLLKQGELEQAEADFDQVLQH--EPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEI-QPWDASL  191 (504)
T ss_pred             hhhhcccHHHHHHHHHHHHhc--CCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhc-CcchhHH
Confidence            467899999999999999987  3421              111  22345566678999999999999886 3458888


Q ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHH----HH--
Q 046446           69 YTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYS----IM--  142 (244)
Q Consensus        69 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~----~l--  142 (244)
                      +..-..+|...|++..|+.=++...+.. ..++.++--+-..+...|+.+.++...++..+.+  ||...+.    .+  
T Consensus       192 ~~~Rakc~i~~~e~k~AI~Dlk~askLs-~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKld--pdHK~Cf~~YKklkK  268 (504)
T KOG0624|consen  192 RQARAKCYIAEGEPKKAIHDLKQASKLS-QDNTEGHYKISQLLYTVGDAENSLKEIRECLKLD--PDHKLCFPFYKKLKK  268 (504)
T ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHhhhhHHHHHHHHHHHHccC--cchhhHHHHHHHHHH
Confidence            8888899999999999998888877765 4566666677788888999999999999988763  5543221    11  


Q ss_pred             -------HHHHHccCChHHHHHHHHHHHHcCCCCcH---hHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC-hhhHHH
Q 046446          143 -------IHGLYNDGQMDKAHDLFLDMEENAVAPNV---ITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPD-ASIVSI  211 (244)
Q Consensus       143 -------i~~~~~~~~~~~a~~~~~~~~~~~~~p~~---~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~  211 (244)
                             +......++|.++.+-.+...+.......   ..+..+-.++...|++.+|++...+..+-  .|+ ..++.-
T Consensus       269 v~K~les~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~~--d~~dv~~l~d  346 (504)
T KOG0624|consen  269 VVKSLESAEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLDI--DPDDVQVLCD  346 (504)
T ss_pred             HHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHHHHHHHHhc--CchHHHHHHH
Confidence                   22344567888888888777665433222   23445556777789999999999988764  454 778888


Q ss_pred             HHHHHHhccccccchhhhhhhhh
Q 046446          212 VVDLLAKNEISLNSLPSFTVHER  234 (244)
Q Consensus       212 l~~~~~~~g~~~~a~~~~~~~~~  234 (244)
                      -..+|.-...++.|+.-|+...+
T Consensus       347 RAeA~l~dE~YD~AI~dye~A~e  369 (504)
T KOG0624|consen  347 RAEAYLGDEMYDDAIHDYEKALE  369 (504)
T ss_pred             HHHHHhhhHHHHHHHHHHHHHHh
Confidence            88899988999999988876543

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

Probab=98.54  E-value=1.2e-05  Score=63.47  Aligned_cols=187  Identities=12%  Similarity=0.064  Sum_probs=140.5

Q ss_pred             HhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHH
Q 046446           41 LFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIA  120 (244)
Q Consensus        41 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a  120 (244)
                      +.+.|++.+|.-.|+...+.... +...|..|.......++-..|+..+++..+.. +-|..+...|.-.|...|.-.+|
T Consensus       295 lm~nG~L~~A~LafEAAVkqdP~-haeAW~~LG~~qaENE~E~~ai~AL~rcl~Ld-P~NleaLmaLAVSytNeg~q~~A  372 (579)
T KOG1125|consen  295 LMKNGDLSEAALAFEAAVKQDPQ-HAEAWQKLGITQAENENEQNAISALRRCLELD-PTNLEALMALAVSYTNEGLQNQA  372 (579)
T ss_pred             HHhcCCchHHHHHHHHHHhhChH-HHHHHHHhhhHhhhccchHHHHHHHHHHHhcC-CccHHHHHHHHHHHhhhhhHHHH
Confidence            45788999999999988887433 78899999999999999999999999999876 56788888888888888887888


Q ss_pred             HHHHHhcccC------------------------------------------CccccHHHHHHHHHHHHccCChHHHHHH
Q 046446          121 LELFHSLPRG------------------------------------------VLVADVVTYSIMIHGLYNDGQMDKAHDL  158 (244)
Q Consensus       121 ~~~~~~~~~~------------------------------------------~~~~~~~~~~~li~~~~~~~~~~~a~~~  158 (244)
                      ++.++.-...                                          +..+|......|.-.|--.|++++|...
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            8777654211                                          1124555566666667777888888888


Q ss_pred             HHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC-hhhHHHHHHHHHhccccccchhhhhhh
Q 046446          159 FLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPD-ASIVSIVVDLLAKNEISLNSLPSFTVH  232 (244)
Q Consensus       159 ~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~  232 (244)
                      |+..+... +-|...||.|...++...+.++|+..|.+.++.  +|+ .++..-|.-+|...|.+.+|...|-..
T Consensus       453 f~~AL~v~-Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqL--qP~yVR~RyNlgIS~mNlG~ykEA~~hlL~A  524 (579)
T KOG1125|consen  453 FEAALQVK-PNDYLLWNRLGATLANGNRSEEAISAYNRALQL--QPGYVRVRYNLGISCMNLGAYKEAVKHLLEA  524 (579)
T ss_pred             HHHHHhcC-CchHHHHHHhhHHhcCCcccHHHHHHHHHHHhc--CCCeeeeehhhhhhhhhhhhHHHHHHHHHHH
Confidence            88877643 226677888888888888888888888888775  444 234445666777788887776665443

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

Probab=98.54  E-value=2.4e-06  Score=52.98  Aligned_cols=80  Identities=13%  Similarity=0.325  Sum_probs=58.1

Q ss_pred             HHHHHHHHccCChHHHHHHHHHHHHcCC-CCcHhHHHHHHHHHHhcC--------ChhHHHHHHHHHHHCCCCCChhhHH
Q 046446          140 SIMIHGLYNDGQMDKAHDLFLDMEENAV-APNVITFGTLIHGFIRIN--------EPSKVIELLHKMKEKNVMPDASIVS  210 (244)
Q Consensus       140 ~~li~~~~~~~~~~~a~~~~~~~~~~~~-~p~~~~~~~l~~~~~~~g--------~~~~a~~~~~~~~~~~~~~~~~~~~  210 (244)
                      ...|..+...+++.....+|+.+++.|+ .|+..+|+.++.+.++..        +.-..+.+|+.|...+++|+..+|+
T Consensus        29 i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYn  108 (120)
T PF08579_consen   29 IDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYN  108 (120)
T ss_pred             HHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHH
Confidence            3445555556788888888888888887 778888888877766542        2345677888888888888888888


Q ss_pred             HHHHHHHhc
Q 046446          211 IVVDLLAKN  219 (244)
Q Consensus       211 ~l~~~~~~~  219 (244)
                      .++..+.+.
T Consensus       109 ivl~~Llkg  117 (120)
T PF08579_consen  109 IVLGSLLKG  117 (120)
T ss_pred             HHHHHHHHh
Confidence            888877653

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 [, , ].

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

Probab=98.52  E-value=6e-05  Score=58.63  Aligned_cols=137  Identities=15%  Similarity=0.117  Sum_probs=72.5

Q ss_pred             hhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHH
Q 046446           43 EIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALE  122 (244)
Q Consensus        43 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~  122 (244)
                      ..|+++.|+..+..+... .+-|+..+......+.+.++.++|.+.++.+.... +......-.+..++.+.|++.+|..
T Consensus       318 ~~~~~d~A~~~l~~L~~~-~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~-P~~~~l~~~~a~all~~g~~~eai~  395 (484)
T COG4783         318 LAGQYDEALKLLQPLIAA-QPDNPYYLELAGDILLEANKAKEAIERLKKALALD-PNSPLLQLNLAQALLKGGKPQEAIR  395 (484)
T ss_pred             HhcccchHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CCccHHHHHHHHHHHhcCChHHHHH
Confidence            345555566655555544 22233334444555566666666666666665543 2224445555566666666666666


Q ss_pred             HHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 046446          123 LFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEK  200 (244)
Q Consensus       123 ~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  200 (244)
                      +++...... +-|...|..|.++|...|+..++..-.-                  ..+...|++++|...+....+.
T Consensus       396 ~L~~~~~~~-p~dp~~w~~LAqay~~~g~~~~a~~A~A------------------E~~~~~G~~~~A~~~l~~A~~~  454 (484)
T COG4783         396 ILNRYLFND-PEDPNGWDLLAQAYAELGNRAEALLARA------------------EGYALAGRLEQAIIFLMRASQQ  454 (484)
T ss_pred             HHHHHhhcC-CCCchHHHHHHHHHHHhCchHHHHHHHH------------------HHHHhCCCHHHHHHHHHHHHHh
Confidence            666555443 3455566666666666665555544332                  2233455566665555555543

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

Probab=98.52  E-value=0.00011  Score=57.32  Aligned_cols=208  Identities=13%  Similarity=0.044  Sum_probs=155.4

Q ss_pred             hcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHH
Q 046446            8 KNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVE   87 (244)
Q Consensus         8 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~   87 (244)
                      ..+++.+|..+|++.+.-. ..+...|--.+.+=.+...+..|..+|++.... ++--...|.--+.+=-..|++..|.+
T Consensus        85 sq~e~~RARSv~ERALdvd-~r~itLWlkYae~Emknk~vNhARNv~dRAvt~-lPRVdqlWyKY~ymEE~LgNi~gaRq  162 (677)
T KOG1915|consen   85 SQKEIQRARSVFERALDVD-YRNITLWLKYAEFEMKNKQVNHARNVWDRAVTI-LPRVDQLWYKYIYMEEMLGNIAGARQ  162 (677)
T ss_pred             hHHHHHHHHHHHHHHHhcc-cccchHHHHHHHHHHhhhhHhHHHHHHHHHHHh-cchHHHHHHHHHHHHHHhcccHHHHH
Confidence            3577889999999998865 456667777788888889999999999998775 22233455555556667899999999


Q ss_pred             HHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHc-C
Q 046446           88 LFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEEN-A  166 (244)
Q Consensus        88 ~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-~  166 (244)
                      +|++-.+  ..|+...|++.|+.=.+-...+.|..++++..-.  .|++.+|--....=.++|+...+..+|....+. |
T Consensus       163 iferW~~--w~P~eqaW~sfI~fElRykeieraR~IYerfV~~--HP~v~~wikyarFE~k~g~~~~aR~VyerAie~~~  238 (677)
T KOG1915|consen  163 IFERWME--WEPDEQAWLSFIKFELRYKEIERARSIYERFVLV--HPKVSNWIKYARFEEKHGNVALARSVYERAIEFLG  238 (677)
T ss_pred             HHHHHHc--CCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhee--cccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhh
Confidence            9998775  4799999999999999999999999999998876  489999999999889999999999999887653 1


Q ss_pred             C-CCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC--hhhHHHHHHHHHhcccc
Q 046446          167 V-APNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPD--ASIVSIVVDLLAKNEIS  222 (244)
Q Consensus       167 ~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~  222 (244)
                      - ..+...|.+....-.++..++.|..+|+-..+.- +-+  ...|......=.+-|+.
T Consensus       239 ~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~-pk~raeeL~k~~~~fEKqfGd~  296 (677)
T KOG1915|consen  239 DDEEAEILFVAFAEFEERQKEYERARFIYKYALDHI-PKGRAEELYKKYTAFEKQFGDK  296 (677)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc-CcccHHHHHHHHHHHHHHhcch
Confidence            0 1123334444444446778889999998887752 222  34455444444445554

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.51  E-value=1.8e-05  Score=57.88  Aligned_cols=226  Identities=12%  Similarity=0.113  Sum_probs=151.7

Q ss_pred             hhhhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHH-HHHHHHhCC
Q 046446            2 LINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTI-FIDGLCKNG   80 (244)
Q Consensus         2 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~-ll~~~~~~~   80 (244)
                      ++..+.+..+++.|++++....++. +.+..-...+..+|....++..|-+.|+++-..  .|...-|.. -...+.+.+
T Consensus        16 viy~lI~d~ry~DaI~~l~s~~Er~-p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql--~P~~~qYrlY~AQSLY~A~   92 (459)
T KOG4340|consen   16 VVYRLIRDARYADAIQLLGSELERS-PRSRAGLSLLGYCYYRLQEFALAAECYEQLGQL--HPELEQYRLYQAQSLYKAC   92 (459)
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--ChHHHHHHHHHHHHHHHhc
Confidence            3455678888999999988877762 236667788888888999999999999998775  455544432 245666788


Q ss_pred             cHHHHHHHHHHHHHhCCCccHHhHHHHHH--HHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHH
Q 046446           81 YIVESVELFRTLRILKCELDIQAYSCLID--GLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDL  158 (244)
Q Consensus        81 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~--~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~  158 (244)
                      .+.+|+++...|...   ++...-..-+.  ..-..+++..+..++++....|   +..+.+.......+.|+++.|.+-
T Consensus        93 i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en---~Ad~~in~gCllykegqyEaAvqk  166 (459)
T KOG4340|consen   93 IYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSEN---EADGQINLGCLLYKEGQYEAAVQK  166 (459)
T ss_pred             ccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCCC---ccchhccchheeeccccHHHHHHH
Confidence            999999999888653   22211111111  2235677888888888877543   444455555556689999999999


Q ss_pred             HHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCC-------------CChh--------hHHHHHHH--
Q 046446          159 FLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVM-------------PDAS--------IVSIVVDL--  215 (244)
Q Consensus       159 ~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~-------------~~~~--------~~~~l~~~--  215 (244)
                      |+...+-+--.....|+..+..| +.|+...|++...++.++|++             ||..        .-+.++.+  
T Consensus       167 FqaAlqvsGyqpllAYniALaHy-~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal~eAfN  245 (459)
T KOG4340|consen  167 FQAALQVSGYQPLLAYNLALAHY-SSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSALVEAFN  245 (459)
T ss_pred             HHHHHhhcCCCchhHHHHHHHHH-hhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchHHHHHHHHHHHhh
Confidence            99988754444566787766555 568999999999999887643             1211        12233333  


Q ss_pred             -----HHhccccccchhhhhhhhhhhc
Q 046446          216 -----LAKNEISLNSLPSFTVHERQEE  237 (244)
Q Consensus       216 -----~~~~g~~~~a~~~~~~~~~~~~  237 (244)
                           +.+.|+.+.|.+.+-.|+-+.+
T Consensus       246 LKaAIeyq~~n~eAA~eaLtDmPPRaE  272 (459)
T KOG4340|consen  246 LKAAIEYQLRNYEAAQEALTDMPPRAE  272 (459)
T ss_pred             hhhhhhhhcccHHHHHHHhhcCCCccc
Confidence                 3456777777777777665443

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

Probab=98.51  E-value=2.6e-05  Score=66.27  Aligned_cols=202  Identities=7%  Similarity=-0.031  Sum_probs=137.3

Q ss_pred             CCCC-ChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCCh-hHHHHHHHHHHhCCcHHHHHHH---------------
Q 046446           26 GIKP-DVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADT-RTYTIFIDGLCKNGYIVESVEL---------------   88 (244)
Q Consensus        26 ~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~-~~~~~ll~~~~~~~~~~~a~~~---------------   88 (244)
                      ...| +...+..|+..+...+++++|.++.+...+.  .|+. ..|..+...+.+.++..++.-+               
T Consensus        25 ~~~p~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~--~P~~i~~yy~~G~l~~q~~~~~~~~lv~~l~~~~~~~~~~~v  102 (906)
T PRK14720         25 NYSLSKFKELDDLIDAYKSENLTDEAKDICEEHLKE--HKKSISALYISGILSLSRRPLNDSNLLNLIDSFSQNLKWAIV  102 (906)
T ss_pred             cCCcchHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CCcceehHHHHHHHHHhhcchhhhhhhhhhhhcccccchhHH
Confidence            3444 4557889999999999999999999976664  3433 3444444456666655554444               


Q ss_pred             ---HHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHc
Q 046446           89 ---FRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEEN  165 (244)
Q Consensus        89 ---~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  165 (244)
                         ...+...  .-+..++-.+..+|-+.|+.++|..+|+++.+.. +-|+.+.|.+...|... +.++|.+++......
T Consensus       103 e~~~~~i~~~--~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~~  178 (906)
T PRK14720        103 EHICDKILLY--GENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAITYLKKAIYR  178 (906)
T ss_pred             HHHHHHHHhh--hhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHHHHHHHHHH
Confidence               2222221  2234677788899999999999999999999887 66899999999999999 999999999887654


Q ss_pred             CCCCcHhHHHHHHH---HHH--hcCChhHHHHHHHHHHHC-CCCCChhhHHHHHHHHHhccccccchhhhhhhhhh
Q 046446          166 AVAPNVITFGTLIH---GFI--RINEPSKVIELLHKMKEK-NVMPDASIVSIVVDLLAKNEISLNSLPSFTVHERQ  235 (244)
Q Consensus       166 ~~~p~~~~~~~l~~---~~~--~~g~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  235 (244)
                      -+  +..-|+.+..   -++  ...+++.-..+.+.+... |..--..++.-+-..|.+.+++++++.+++.+..-
T Consensus       179 ~i--~~kq~~~~~e~W~k~~~~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~  252 (906)
T PRK14720        179 FI--KKKQYVGIEEIWSKLVHYNSDDFDFFLRIERKVLGHREFTRLVGLLEDLYEPYKALEDWDEVIYILKKILEH  252 (906)
T ss_pred             HH--hhhcchHHHHHHHHHHhcCcccchHHHHHHHHHHhhhccchhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhc
Confidence            11  1111222211   111  223444555555555544 44445567777778888899999999999877654

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

Probab=98.47  E-value=0.00028  Score=54.15  Aligned_cols=208  Identities=16%  Similarity=0.110  Sum_probs=129.4

Q ss_pred             hhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHH
Q 046446            6 YCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVES   85 (244)
Q Consensus         6 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   85 (244)
                      +.+.|+.+....+...+.... +.+...|-.-.......++++.|+.+-++..+... -+...+-.-...+...+++++|
T Consensus       276 L~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~~-r~~~alilKG~lL~~~~R~~~A  353 (564)
T KOG1174|consen  276 LGQEGGCEQDSALMDYLFAKV-KYTASHWFVHAQLLYDEKKFERALNFVEKCIDSEP-RNHEALILKGRLLIALERHTQA  353 (564)
T ss_pred             HHhccCHhhHHHHHHHHHhhh-hcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccCc-ccchHHHhccHHHHhccchHHH
Confidence            345566666666666555431 22333344444444455666666666666555421 1333444444555666666766


Q ss_pred             HHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHH------------------------------------Hhccc
Q 046446           86 VELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELF------------------------------------HSLPR  129 (244)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~------------------------------------~~~~~  129 (244)
                      .-.|+...... |-+...|..|+.+|...|.+.+|..+-                                    +.-..
T Consensus       354 ~IaFR~Aq~La-p~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~  432 (564)
T KOG1174|consen  354 VIAFRTAQMLA-PYRLEIYRGLFHSYLAQKRFKEANALANWTIRLFQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLK  432 (564)
T ss_pred             HHHHHHHHhcc-hhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHHhhcchhhhhhhcceeeccCchhHHHHHHHHHhhhc
Confidence            66666665543 345666777777776666666655433                                    22222


Q ss_pred             CCcccc-HHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhh
Q 046446          130 GVLVAD-VVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASI  208 (244)
Q Consensus       130 ~~~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  208 (244)
                      .  .|+ ....+.+...+...|..+++..+++....  ..||....+.+...+...+.+.++.+.|......+  |+...
T Consensus       433 ~--~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~--~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~d--P~~~~  506 (564)
T KOG1174|consen  433 I--NPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLI--IFPDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQD--PKSKR  506 (564)
T ss_pred             c--CCccHHHHHHHHHHHHhhCccchHHHHHHHHHh--hccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhcC--ccchH
Confidence            2  333 34557778888999999999999998776  36899999999999999999999999999887754  54433


Q ss_pred             HHHHHHHHHhcccc
Q 046446          209 VSIVVDLLAKNEIS  222 (244)
Q Consensus       209 ~~~l~~~~~~~g~~  222 (244)
                      -..=++-+.+..+.
T Consensus       507 sl~Gl~~lEK~~~~  520 (564)
T KOG1174|consen  507 TLRGLRLLEKSDDE  520 (564)
T ss_pred             HHHHHHHHHhccCC
Confidence            33334445554444

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=98.46  E-value=0.00014  Score=59.59  Aligned_cols=129  Identities=15%  Similarity=0.068  Sum_probs=97.8

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHh
Q 046446          104 YSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIR  183 (244)
Q Consensus       104 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~  183 (244)
                      |......+.+.+..++|...+.+..... +.....|......+...|.+.+|.+.|........ -++.+...+..++.+
T Consensus       653 wllaa~~~~~~~~~~~a~~CL~Ea~~~~-~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~ldP-~hv~s~~Ala~~lle  730 (799)
T KOG4162|consen  653 WLLAADLFLLSGNDDEARSCLLEASKID-PLSASVYYLRGLLLEVKGQLEEAKEAFLVALALDP-DHVPSMTALAELLLE  730 (799)
T ss_pred             HHHHHHHHHhcCCchHHHHHHHHHHhcc-hhhHHHHHHhhHHHHHHHhhHHHHHHHHHHHhcCC-CCcHHHHHHHHHHHH
Confidence            4455566667777777777776666543 34455666666777788999999999988776432 245677888889999


Q ss_pred             cCChhHHHH--HHHHHHHCCCCCChhhHHHHHHHHHhccccccchhhhhhhhhh
Q 046446          184 INEPSKVIE--LLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFTVHERQ  235 (244)
Q Consensus       184 ~g~~~~a~~--~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  235 (244)
                      .|+...+..  ++.++.+.+. .+...|..+...+.+.|+.+.|.+.|....+-
T Consensus       731 ~G~~~la~~~~~L~dalr~dp-~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~qL  783 (799)
T KOG4162|consen  731 LGSPRLAEKRSLLSDALRLDP-LNHEAWYYLGEVFKKLGDSKQAAECFQAALQL  783 (799)
T ss_pred             hCCcchHHHHHHHHHHHhhCC-CCHHHHHHHHHHHHHccchHHHHHHHHHHHhh
Confidence            998888888  8999988763 47889999999999999999999999866543

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.42  E-value=0.00021  Score=62.63  Aligned_cols=230  Identities=10%  Similarity=-0.061  Sum_probs=139.7

Q ss_pred             hhhhcCChhHHHHHHHHHHhCCCCCCh----hhHHHHHHHHhhhchHHHHHHHHHHHHHc----CCC-CChhHHHHHHHH
Q 046446            5 GYCKNKEIEGALNLYSEMLSKGIKPDV----VIHNTLFIGLFEIHQVERAFKLFDEMQRD----GVA-ADTRTYTIFIDG   75 (244)
Q Consensus         5 ~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~-~~~~~~~~ll~~   75 (244)
                      .+...|+++.|...+++....-...+.    ...+.+...+...|++++|...+.+....    |.. +...++..+...
T Consensus       461 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~  540 (903)
T PRK04841        461 VAINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEI  540 (903)
T ss_pred             HHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHH
Confidence            355789999999999987763111111    23455556667789999999999887653    111 112345566777


Q ss_pred             HHhCCcHHHHHHHHHHHHHh----CCC--c-cHHhHHHHHHHHHcCCCHHHHHHHHHhcccC----CccccHHHHHHHHH
Q 046446           76 LCKNGYIVESVELFRTLRIL----KCE--L-DIQAYSCLIDGLCKSGRLEIALELFHSLPRG----VLVADVVTYSIMIH  144 (244)
Q Consensus        76 ~~~~~~~~~a~~~~~~~~~~----~~~--~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~li~  144 (244)
                      +...|+++.|...+++....    +..  + ....+..+...+...|++++|...+.+....    +.......+..+..
T Consensus       541 ~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~  620 (903)
T PRK04841        541 LFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAK  620 (903)
T ss_pred             HHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHH
Confidence            88899999999998876542    211  1 2233445566677789999999888876432    11112344555667


Q ss_pred             HHHccCChHHHHHHHHHHHHcC--CCCcHh--HH--HHHHHHHHhcCChhHHHHHHHHHHHCCCCCC---hhhHHHHHHH
Q 046446          145 GLYNDGQMDKAHDLFLDMEENA--VAPNVI--TF--GTLIHGFIRINEPSKVIELLHKMKEKNVMPD---ASIVSIVVDL  215 (244)
Q Consensus       145 ~~~~~~~~~~a~~~~~~~~~~~--~~p~~~--~~--~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~  215 (244)
                      .+...|++++|.+.+.......  ......  ..  ...+..+...|+.+.|..++...........   ......+..+
T Consensus       621 ~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~  700 (903)
T PRK04841        621 ISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARA  700 (903)
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHH
Confidence            7888999999999888775421  111110  00  0112334456778888777666443211111   1113456667


Q ss_pred             HHhccccccchhhhhhhhh
Q 046446          216 LAKNEISLNSLPSFTVHER  234 (244)
Q Consensus       216 ~~~~g~~~~a~~~~~~~~~  234 (244)
                      +...|+.++|...++....
T Consensus       701 ~~~~g~~~~A~~~l~~al~  719 (903)
T PRK04841        701 QILLGQFDEAEIILEELNE  719 (903)
T ss_pred             HHHcCCHHHHHHHHHHHHH
Confidence            7777888787777776544

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.42  E-value=0.0001  Score=64.53  Aligned_cols=231  Identities=12%  Similarity=0.034  Sum_probs=147.9

Q ss_pred             hhhhhcCChhHHHHHHHHHHhCCC---CCC--hhhHHHHHHHHhhhchHHHHHHHHHHHHHc----CCC--C-ChhHHHH
Q 046446            4 NGYCKNKEIEGALNLYSEMLSKGI---KPD--VVIHNTLFIGLFEIHQVERAFKLFDEMQRD----GVA--A-DTRTYTI   71 (244)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~~~~~~~---~~~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~--~-~~~~~~~   71 (244)
                      ..+...|+++.|...+++.....-   .+.  ...+..+...+...|+++.|...+++....    +..  + ....+..
T Consensus       499 ~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~  578 (903)
T PRK04841        499 EVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRI  578 (903)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHH
Confidence            345678999999999988765310   111  234455666778889999999998876553    221  1 2233445


Q ss_pred             HHHHHHhCCcHHHHHHHHHHHHHh----CCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccC----CccccHHHH--HH
Q 046446           72 FIDGLCKNGYIVESVELFRTLRIL----KCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRG----VLVADVVTY--SI  141 (244)
Q Consensus        72 ll~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~--~~  141 (244)
                      +...+...|++++|...+++....    +.......+..+...+...|++++|...+......    +........  ..
T Consensus       579 la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~  658 (903)
T PRK04841        579 RAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKV  658 (903)
T ss_pred             HHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHH
Confidence            566677789999999998887543    11112344555667788899999999988876432    111111011  11


Q ss_pred             HHHHHHccCChHHHHHHHHHHHHcCCCCc---HhHHHHHHHHHHhcCChhHHHHHHHHHHHC----CCCCC-hhhHHHHH
Q 046446          142 MIHGLYNDGQMDKAHDLFLDMEENAVAPN---VITFGTLIHGFIRINEPSKVIELLHKMKEK----NVMPD-ASIVSIVV  213 (244)
Q Consensus       142 li~~~~~~~~~~~a~~~~~~~~~~~~~p~---~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~~~~~-~~~~~~l~  213 (244)
                      .+..+...|+.+.|.+.+...........   ...+..+..++...|++++|...+.+....    |..++ ..+...+.
T Consensus       659 ~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la  738 (903)
T PRK04841        659 RLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNENARSLRLMSDLNRNLILLN  738 (903)
T ss_pred             HHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHH
Confidence            22445568899999998876543211111   111345667788889999999999887653    33222 34566777


Q ss_pred             HHHHhccccccchhhhhhhhh
Q 046446          214 DLLAKNEISLNSLPSFTVHER  234 (244)
Q Consensus       214 ~~~~~~g~~~~a~~~~~~~~~  234 (244)
                      .++.+.|+.++|...+.....
T Consensus       739 ~a~~~~G~~~~A~~~L~~Al~  759 (903)
T PRK04841        739 QLYWQQGRKSEAQRVLLEALK  759 (903)
T ss_pred             HHHHHcCCHHHHHHHHHHHHH
Confidence            788899999888888776654

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

Probab=98.40  E-value=0.00036  Score=55.31  Aligned_cols=218  Identities=11%  Similarity=0.106  Sum_probs=150.3

Q ss_pred             hHHHHHHHHHHhCCCCCChhhHHHHHHHHhhh---chHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHH
Q 046446           13 EGALNLYSEMLSKGIKPDVVIHNTLFIGLFEI---HQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELF   89 (244)
Q Consensus        13 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~---~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~   89 (244)
                      +++..++++....-...+..+|..+...--..   ...+.....++++...-..--+-+|...++.-.+..-++.|..+|
T Consensus       310 ~e~~~~yEr~I~~l~~~~~~Ly~~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF  389 (656)
T KOG1914|consen  310 DEAASIYERAIEGLLKENKLLYFALADYEESRYDDNKEKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIF  389 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHhcccchhhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHH
Confidence            44555565555432223333443333221111   236677777777766533323456778888888888899999999


Q ss_pred             HHHHHhCCCc-cHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCC
Q 046446           90 RTLRILKCEL-DIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVA  168 (244)
Q Consensus        90 ~~~~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~  168 (244)
                      .+..+.+..+ ++.+.++++..||. ++.+-|.++|+.-.+.- .-++.--+..+..+.+.++-..+..+|+.....++.
T Consensus       390 ~kaR~~~r~~hhVfVa~A~mEy~cs-kD~~~AfrIFeLGLkkf-~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~  467 (656)
T KOG1914|consen  390 KKAREDKRTRHHVFVAAALMEYYCS-KDKETAFRIFELGLKKF-GDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLS  467 (656)
T ss_pred             HHHhhccCCcchhhHHHHHHHHHhc-CChhHHHHHHHHHHHhc-CCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCC
Confidence            9999988766 77788899988875 78899999999754431 223445567788888999999999999999987666


Q ss_pred             Cc--HhHHHHHHHHHHhcCChhHHHHHHHHHHHC---CCCCChhhHHHHHHHHHhccccccchhhhhhh
Q 046446          169 PN--VITFGTLIHGFIRINEPSKVIELLHKMKEK---NVMPDASIVSIVVDLLAKNEISLNSLPSFTVH  232 (244)
Q Consensus       169 p~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  232 (244)
                      |+  ...|..++..=..-|+...+.++-+++...   ...+....-..+++-|.-.+...-...-++.+
T Consensus       468 ~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~af~~~qe~~~~~~~~~v~RY~~~d~~~c~~~elk~l  536 (656)
T KOG1914|consen  468 ADKSKEIWDRMLEYESNVGDLNSILKLEKRRFTAFPADQEYEGNETALFVDRYGILDLYPCSLDELKFL  536 (656)
T ss_pred             hhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHHhcchhhcCCCChHHHHHHHHhhcccccccHHHHHhh
Confidence            55  478999999989999999999988887653   12334445566777777666665444444443

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

Probab=98.39  E-value=0.00024  Score=57.27  Aligned_cols=204  Identities=15%  Similarity=0.110  Sum_probs=139.8

Q ss_pred             hhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHH
Q 046446            7 CKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESV   86 (244)
Q Consensus         7 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~   86 (244)
                      ...|+-++|.+....-...+ .-+.++|..+.-.+....++++|++.|......+. -|...+.-+.-.-++.++++...
T Consensus        52 ~~lg~~~ea~~~vr~glr~d-~~S~vCwHv~gl~~R~dK~Y~eaiKcy~nAl~~~~-dN~qilrDlslLQ~QmRd~~~~~  129 (700)
T KOG1156|consen   52 NCLGKKEEAYELVRLGLRND-LKSHVCWHVLGLLQRSDKKYDEAIKCYRNALKIEK-DNLQILRDLSLLQIQMRDYEGYL  129 (700)
T ss_pred             hcccchHHHHHHHHHHhccC-cccchhHHHHHHHHhhhhhHHHHHHHHHHHHhcCC-CcHHHHHHHHHHHHHHHhhhhHH
Confidence            34567777777776666543 34566777777777777888888888888877532 25667777766677778888888


Q ss_pred             HHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCC-ccccHHHHHHHH------HHHHccCChHHHHHHH
Q 046446           87 ELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGV-LVADVVTYSIMI------HGLYNDGQMDKAHDLF  159 (244)
Q Consensus        87 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~li------~~~~~~~~~~~a~~~~  159 (244)
                      ....+..+.. +.....|..+..++.-.|++..|..+++...+.. ..|+...+....      ......|..++|.+.+
T Consensus       130 ~tr~~LLql~-~~~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L  208 (700)
T KOG1156|consen  130 ETRNQLLQLR-PSQRASWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHL  208 (700)
T ss_pred             HHHHHHHHhh-hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHH
Confidence            7777777654 4566778888888888899999999998887654 246666654433      3345577778887777


Q ss_pred             HHHHHcCCCCcHhHH-HHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHH-HHHHHH
Q 046446          160 LDMEENAVAPNVITF-GTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSI-VVDLLA  217 (244)
Q Consensus       160 ~~~~~~~~~p~~~~~-~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~-l~~~~~  217 (244)
                      ..-... +. |...+ .+-...+.+.+++++|..++..+...+  ||..-|.. +..++.
T Consensus       209 ~~~e~~-i~-Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~rn--Pdn~~Yy~~l~~~lg  264 (700)
T KOG1156|consen  209 LDNEKQ-IV-DKLAFEETKADLLMKLGQLEEAVKVYRRLLERN--PDNLDYYEGLEKALG  264 (700)
T ss_pred             HhhhhH-HH-HHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhhC--chhHHHHHHHHHHHH
Confidence            654432 22 33333 344567778899999999999998875  66555544 444443

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.38  E-value=0.00061  Score=57.00  Aligned_cols=106  Identities=16%  Similarity=0.213  Sum_probs=62.0

Q ss_pred             hhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHH--HhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHH
Q 046446            7 CKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIG--LFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVE   84 (244)
Q Consensus         7 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~--~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~   84 (244)
                      ...+++..|......+.+.  -|+. .|..++.+  ..+.|+.++|..+++.....+.. |..|...+-.+|...+..++
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            4456666677666666554  2332 22233333  34556667777666665555444 66666666666777777777


Q ss_pred             HHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHH
Q 046446           85 SVELFRTLRILKCELDIQAYSCLIDGLCKSGRLE  118 (244)
Q Consensus        85 a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~  118 (244)
                      |..+|++....  .|+......+..+|.+.+++.
T Consensus        96 ~~~~Ye~~~~~--~P~eell~~lFmayvR~~~yk  127 (932)
T KOG2053|consen   96 AVHLYERANQK--YPSEELLYHLFMAYVREKSYK  127 (932)
T ss_pred             HHHHHHHHHhh--CCcHHHHHHHHHHHHHHHHHH
Confidence            77777766654  355555555666666655544

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

Probab=98.37  E-value=0.00052  Score=55.58  Aligned_cols=197  Identities=10%  Similarity=0.100  Sum_probs=121.6

Q ss_pred             ChhhhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhch----------------------HHHHHHHHHHHH
Q 046446            1 ILINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQ----------------------VERAFKLFDEMQ   58 (244)
Q Consensus         1 ~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~----------------------~~~a~~~~~~m~   58 (244)
                      +|.+-|.+.|.+++|.++|++..+.  ..+..-|..+.++|++-..                      ++-.+..|+.+.
T Consensus       253 SLAdYYIr~g~~ekarDvyeeai~~--v~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm  330 (835)
T KOG2047|consen  253 SLADYYIRSGLFEKARDVYEEAIQT--VMTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARFESLM  330 (835)
T ss_pred             HHHHHHHHhhhhHHHHHHHHHHHHh--heehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHH
Confidence            3667889999999999999998876  4455556666666654211                      122223333332


Q ss_pred             HcC-----------CCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCc------cHHhHHHHHHHHHcCCCHHHHH
Q 046446           59 RDG-----------VAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCEL------DIQAYSCLIDGLCKSGRLEIAL  121 (244)
Q Consensus        59 ~~~-----------~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~------~~~~~~~ll~~~~~~~~~~~a~  121 (244)
                      ..+           -+.+...|..-..  ...|+..+...+|.+..+. +.|      -...|..+...|-..|+++.|.
T Consensus       331 ~rr~~~lNsVlLRQn~~nV~eW~kRV~--l~e~~~~~~i~tyteAv~~-vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aR  407 (835)
T KOG2047|consen  331 NRRPLLLNSVLLRQNPHNVEEWHKRVK--LYEGNAAEQINTYTEAVKT-VDPKKAVGSPGTLWVEFAKLYENNGDLDDAR  407 (835)
T ss_pred             hccchHHHHHHHhcCCccHHHHHhhhh--hhcCChHHHHHHHHHHHHc-cCcccCCCChhhHHHHHHHHHHhcCcHHHHH
Confidence            221           1112222322222  2345667777777777653 122      2345788888999999999999


Q ss_pred             HHHHhcccCCcccc---HHHHHHHHHHHHccCChHHHHHHHHHHHHcCCC----------C-------cHhHHHHHHHHH
Q 046446          122 ELFHSLPRGVLVAD---VVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVA----------P-------NVITFGTLIHGF  181 (244)
Q Consensus       122 ~~~~~~~~~~~~~~---~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~----------p-------~~~~~~~l~~~~  181 (244)
                      .+|++..+...+.-   ..+|......=.++.+++.|.++.+......-.          |       +...|...+..-
T Consensus       408 vifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~Dle  487 (835)
T KOG2047|consen  408 VIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLE  487 (835)
T ss_pred             HHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHH
Confidence            99999887653322   456666667777788888898888766532111          1       234455555555


Q ss_pred             HhcCChhHHHHHHHHHHHCCC
Q 046446          182 IRINEPSKVIELLHKMKEKNV  202 (244)
Q Consensus       182 ~~~g~~~~a~~~~~~~~~~~~  202 (244)
                      -..|-++....+|+.+.+..+
T Consensus       488 Es~gtfestk~vYdriidLri  508 (835)
T KOG2047|consen  488 ESLGTFESTKAVYDRIIDLRI  508 (835)
T ss_pred             HHhccHHHHHHHHHHHHHHhc
Confidence            566777888888887776544

>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=98.36  E-value=1.2e-05  Score=49.08  Aligned_cols=17  Identities=6%  Similarity=0.481  Sum_probs=6.7

Q ss_pred             HhhhchHHHHHHHHHHH
Q 046446           41 LFEIHQVERAFKLFDEM   57 (244)
Q Consensus        41 ~~~~~~~~~a~~~~~~m   57 (244)
                      +...|++++|...+++.
T Consensus        10 ~~~~~~~~~A~~~~~~~   26 (100)
T cd00189          10 YYKLGDYDEALEYYEKA   26 (100)
T ss_pred             HHHHhcHHHHHHHHHHH
Confidence            33334444444444333

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.35  E-value=8.6e-06  Score=60.91  Aligned_cols=195  Identities=14%  Similarity=0.154  Sum_probs=105.9

Q ss_pred             HHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHH-----HHHHHhCCcHHHHHHHHHHHHHhCCCccH-HhHHHHHHH
Q 046446           37 LFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIF-----IDGLCKNGYIVESVELFRTLRILKCELDI-QAYSCLIDG  110 (244)
Q Consensus        37 li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l-----l~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~ll~~  110 (244)
                      ++-.|.+.++..+|..+.+++.-  ..|-......+     ..-........-|.+.|+-.-+++..-|+ .--.++..+
T Consensus       291 L~iYyL~q~dVqeA~~L~Kdl~P--ttP~EyilKgvv~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~  368 (557)
T KOG3785|consen  291 LIIYYLNQNDVQEAISLCKDLDP--TTPYEYILKGVVFAALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQSMASY  368 (557)
T ss_pred             heeeecccccHHHHHHHHhhcCC--CChHHHHHHHHHHHHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHHHHHH
Confidence            44456677778887777665431  12211111111     11111222344555555555444322221 112334444


Q ss_pred             HHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHH-HHHHHHhcCChhH
Q 046446          111 LCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGT-LIHGFIRINEPSK  189 (244)
Q Consensus       111 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~-l~~~~~~~g~~~~  189 (244)
                      +.-..++++++..+..+...-...|... -.+.++++..|++.+|+++|-.+....++ |..+|.+ +.++|.+++.++.
T Consensus       369 fFL~~qFddVl~YlnSi~sYF~NdD~Fn-~N~AQAk~atgny~eaEelf~~is~~~ik-n~~~Y~s~LArCyi~nkkP~l  446 (557)
T KOG3785|consen  369 FFLSFQFDDVLTYLNSIESYFTNDDDFN-LNLAQAKLATGNYVEAEELFIRISGPEIK-NKILYKSMLARCYIRNKKPQL  446 (557)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhcCcchhh-hHHHHHHHHhcChHHHHHHHhhhcChhhh-hhHHHHHHHHHHHHhcCCchH
Confidence            4455567777777777665432223333 34567777888888888888666554444 4555544 4567778888888


Q ss_pred             HHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchhhhhhhhhhhc
Q 046446          190 VIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFTVHERQEE  237 (244)
Q Consensus       190 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  237 (244)
                      |+.++-.+...+  -.......+..-|.+.+.+.-|.+.|+.+++.+.
T Consensus       447 AW~~~lk~~t~~--e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~lDP  492 (557)
T KOG3785|consen  447 AWDMMLKTNTPS--ERFSLLQLIANDCYKANEFYYAAKAFDELEILDP  492 (557)
T ss_pred             HHHHHHhcCCch--hHHHHHHHHHHHHHHHHHHHHHHHhhhHHHccCC
Confidence            877765443221  1223444556677777887777777777765543

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

Probab=98.35  E-value=2.4e-06  Score=51.58  Aligned_cols=18  Identities=22%  Similarity=0.377  Sum_probs=6.9

Q ss_pred             HHHHHhCCcHHHHHHHHH
Q 046446           73 IDGLCKNGYIVESVELFR   90 (244)
Q Consensus        73 l~~~~~~~~~~~a~~~~~   90 (244)
                      ..++.+.|++++|..+++
T Consensus        32 a~~~~~~~~y~~A~~~~~   49 (84)
T PF12895_consen   32 AQCYFQQGKYEEAIELLQ   49 (84)
T ss_dssp             HHHHHHTTHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHH
Confidence            333333333333333333

>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=98.34  E-value=1.6e-05  Score=48.49  Aligned_cols=92  Identities=20%  Similarity=0.153  Sum_probs=47.8

Q ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHcc
Q 046446           70 TIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYND  149 (244)
Q Consensus        70 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  149 (244)
                      ..+...+...|++++|...+++..+.. +.+...+..+...+...+++++|.+.++...... +.+..++..+...+...
T Consensus         4 ~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~   81 (100)
T cd00189           4 LNLGNLYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYKL   81 (100)
T ss_pred             HHHHHHHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHHH
Confidence            344445555555566666555555432 2233445555555555555666665555554432 22334555555555555


Q ss_pred             CChHHHHHHHHHHH
Q 046446          150 GQMDKAHDLFLDME  163 (244)
Q Consensus       150 ~~~~~a~~~~~~~~  163 (244)
                      |+++.|...+....
T Consensus        82 ~~~~~a~~~~~~~~   95 (100)
T cd00189          82 GKYEEALEAYEKAL   95 (100)
T ss_pred             HhHHHHHHHHHHHH
Confidence            55555555555544

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

Probab=98.32  E-value=0.0002  Score=57.71  Aligned_cols=225  Identities=13%  Similarity=0.072  Sum_probs=160.6

Q ss_pred             hhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHH
Q 046446            6 YCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVES   85 (244)
Q Consensus         6 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   85 (244)
                      |...+++...++..+.+.+. .+-...+.....-.+...|+-++|......-.+..+. +.+.|..+.-.+-...++++|
T Consensus        17 ~yE~kQYkkgLK~~~~iL~k-~~eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~d~~-S~vCwHv~gl~~R~dK~Y~ea   94 (700)
T KOG1156|consen   17 CYETKQYKKGLKLIKQILKK-FPEHGESLAMKGLTLNCLGKKEEAYELVRLGLRNDLK-SHVCWHVLGLLQRSDKKYDEA   94 (700)
T ss_pred             HHHHHHHHhHHHHHHHHHHh-CCccchhHHhccchhhcccchHHHHHHHHHHhccCcc-cchhHHHHHHHHhhhhhHHHH
Confidence            34567777777777777763 3344455555555566678899998888777665433 777888888888888899999


Q ss_pred             HHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHc
Q 046446           86 VELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEEN  165 (244)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  165 (244)
                      ++.|......+ +.|...|.-+.-.-+..|+++..........+.. +-....|..+..++.-.|+...|..++++..+.
T Consensus        95 iKcy~nAl~~~-~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~-~~~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t  172 (700)
T KOG1156|consen   95 IKCYRNALKIE-KDNLQILRDLSLLQIQMRDYEGYLETRNQLLQLR-PSQRASWIGFAVAQHLLGEYKMALEILEEFEKT  172 (700)
T ss_pred             HHHHHHHHhcC-CCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhh-hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            99999998876 5778888877777788888988888888777663 334667888888888899999999999998865


Q ss_pred             C-CCCcHhHHHHHHH------HHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchhhhhhhhhh
Q 046446          166 A-VAPNVITFGTLIH------GFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFTVHERQ  235 (244)
Q Consensus       166 ~-~~p~~~~~~~l~~------~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  235 (244)
                      . -.|+...|.....      .....|.++.|.+.+..-... +.-....-..-...+.+.++.++|..++..+...
T Consensus       173 ~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~-i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~r  248 (700)
T KOG1156|consen  173 QNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQ-IVDKLAFEETKADLLMKLGQLEEAVKVYRRLLER  248 (700)
T ss_pred             hccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhH-HHHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhh
Confidence            4 3566666554332      334567777777766554332 2212223335556778899999999998877654

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.31  E-value=4.3e-05  Score=49.18  Aligned_cols=98  Identities=10%  Similarity=-0.006  Sum_probs=53.1

Q ss_pred             hHHHHHHHHhhhchHHHHHHHHHHHHHcCCC--CChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCC--CccHHhHHHHH
Q 046446           33 IHNTLFIGLFEIHQVERAFKLFDEMQRDGVA--ADTRTYTIFIDGLCKNGYIVESVELFRTLRILKC--ELDIQAYSCLI  108 (244)
Q Consensus        33 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~--~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~ll  108 (244)
                      ++..+...+.+.|++++|.+.|..+.+....  .....+..+..++.+.|+++.|.+.++.+.....  +....++..+.
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~   83 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLG   83 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHH
Confidence            3444455555666666666666666553211  1123444556666666666666666666654321  11234455555


Q ss_pred             HHHHcCCCHHHHHHHHHhcccC
Q 046446          109 DGLCKSGRLEIALELFHSLPRG  130 (244)
Q Consensus       109 ~~~~~~~~~~~a~~~~~~~~~~  130 (244)
                      .++...|+.++|...++++.+.
T Consensus        84 ~~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        84 MSLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHHHhCChHHHHHHHHHHHHH
Confidence            6666666666666666666554

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.

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.31  E-value=3e-05  Score=56.79  Aligned_cols=55  Identities=18%  Similarity=0.167  Sum_probs=29.0

Q ss_pred             HHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCC
Q 046446           76 LCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGV  131 (244)
Q Consensus        76 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  131 (244)
                      ..+.|.++.|.+-|+...+.+--.....||..+ +..+.|+++.|++...++.+.|
T Consensus       154 lykegqyEaAvqkFqaAlqvsGyqpllAYniAL-aHy~~~qyasALk~iSEIieRG  208 (459)
T KOG4340|consen  154 LYKEGQYEAAVQKFQAALQVSGYQPLLAYNLAL-AHYSSRQYASALKHISEIIERG  208 (459)
T ss_pred             eeccccHHHHHHHHHHHHhhcCCCchhHHHHHH-HHHhhhhHHHHHHHHHHHHHhh
Confidence            345566666666666655543333445555443 3334466666666665554443

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

Probab=98.31  E-value=0.0004  Score=55.53  Aligned_cols=122  Identities=19%  Similarity=0.166  Sum_probs=78.3

Q ss_pred             hhhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcH
Q 046446            3 INGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYI   82 (244)
Q Consensus         3 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~   82 (244)
                      ++-+...|++++|.+....+...+ +-+...+..=+-+..+.+++++|+.+.+.-...  ..+..-+..=.-+..+.+..
T Consensus        19 ln~~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~--~~~~~~~fEKAYc~Yrlnk~   95 (652)
T KOG2376|consen   19 LNRHGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKKNGAL--LVINSFFFEKAYCEYRLNKL   95 (652)
T ss_pred             HHHhccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchh--hhcchhhHHHHHHHHHcccH
Confidence            345667788899998888888875 445555666666788888888888554432211  11111111223344567888


Q ss_pred             HHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCC
Q 046446           83 VESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGV  131 (244)
Q Consensus        83 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  131 (244)
                      ++|+..++-..    +.+..+...-...+.+.|++++|+++|+.+.+.+
T Consensus        96 Dealk~~~~~~----~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~  140 (652)
T KOG2376|consen   96 DEALKTLKGLD----RLDDKLLELRAQVLYRLERYDEALDIYQHLAKNN  140 (652)
T ss_pred             HHHHHHHhccc----ccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            88888887221    2233355555677788889999999998886654

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.31  E-value=5.5e-05  Score=48.69  Aligned_cols=98  Identities=13%  Similarity=0.049  Sum_probs=55.8

Q ss_pred             HHHHHHHHHHhCCcHHHHHHHHHHHHHhCC--CccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCC--ccccHHHHHHHH
Q 046446           68 TYTIFIDGLCKNGYIVESVELFRTLRILKC--ELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGV--LVADVVTYSIMI  143 (244)
Q Consensus        68 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~li  143 (244)
                      ++..+...+.+.|++++|.+.|+.+.+...  +.....+..+..++...|++++|...|+.+....  .+.....+..+.
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~   83 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLG   83 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHH
Confidence            344555566666666666666666655421  1113345556666666666666666666655432  011134455566


Q ss_pred             HHHHccCChHHHHHHHHHHHHc
Q 046446          144 HGLYNDGQMDKAHDLFLDMEEN  165 (244)
Q Consensus       144 ~~~~~~~~~~~a~~~~~~~~~~  165 (244)
                      .++...|+.++|...++++.+.
T Consensus        84 ~~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        84 MSLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHHHhCChHHHHHHHHHHHHH
Confidence            6666666666666666666654

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.

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

Probab=98.30  E-value=1.2e-06  Score=41.73  Aligned_cols=29  Identities=38%  Similarity=0.642  Sum_probs=15.5

Q ss_pred             hHHHHHHHHhhhchHHHHHHHHHHHHHcC
Q 046446           33 IHNTLFIGLFEIHQVERAFKLFDEMQRDG   61 (244)
Q Consensus        33 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~   61 (244)
                      +|+.+|++|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            45555555555555555555555555544

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

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

Probab=98.29  E-value=0.00017  Score=54.09  Aligned_cols=131  Identities=15%  Similarity=0.087  Sum_probs=97.7

Q ss_pred             hhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHh-CCcHHHHHHHHHHHHHhCCCccHHhHHHHHHH
Q 046446           32 VIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCK-NGYIVESVELFRTLRILKCELDIQAYSCLIDG  110 (244)
Q Consensus        32 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~  110 (244)
                      .+|..+++..-+.+..+.|..+|++.++.+ ..+..+|......-.. .++.+.|.++|+...+. ++.+...|...++.
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            468888888888888999999999998542 3345556555555333 56777799999988875 46778888999999


Q ss_pred             HHcCCCHHHHHHHHHhcccCCcccc---HHHHHHHHHHHHccCChHHHHHHHHHHHHc
Q 046446          111 LCKSGRLEIALELFHSLPRGVLVAD---VVTYSIMIHGLYNDGQMDKAHDLFLDMEEN  165 (244)
Q Consensus       111 ~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  165 (244)
                      +...++.+.|..+|++.... +.++   ...|...+..=.+.|+.+.+..+.+.+.+.
T Consensus        80 l~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~  136 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL  136 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            99999999999999998876 2222   248888888888899999999988888764

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.

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

Probab=98.27  E-value=1.5e-06  Score=41.39  Aligned_cols=29  Identities=34%  Similarity=0.627  Sum_probs=14.7

Q ss_pred             HHHHHHHHHHccCChHHHHHHHHHHHHcC
Q 046446          138 TYSIMIHGLYNDGQMDKAHDLFLDMEENA  166 (244)
Q Consensus       138 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~  166 (244)
                      +|+.++++|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            44555555555555555555555554443

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.

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=98.26  E-value=0.0007  Score=49.58  Aligned_cols=190  Identities=8%  Similarity=0.043  Sum_probs=104.5

Q ss_pred             HHHHHHhhhchHHHHHHHHHHHHHcCCCCChhH---HHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHH
Q 046446           36 TLFIGLFEIHQVERAFKLFDEMQRDGVAADTRT---YTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLC  112 (244)
Q Consensus        36 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~---~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~  112 (244)
                      .....+...|++++|.+.|+++...-..+ ...   .-.+..++.+.+++++|...+++..+....-...-+...+.+.+
T Consensus        37 ~~A~~~~~~g~y~~Ai~~f~~l~~~yP~s-~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y~~g~~  115 (243)
T PRK10866         37 ATAQQKLQDGNWKQAITQLEALDNRYPFG-PYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLYMRGLT  115 (243)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCCCC-hHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHHHHHHh
Confidence            33444556788888888888887753222 222   23456777788888888888888877642222223333333332


Q ss_pred             cCCCHHHHHHHHHhc---ccCCcccc-----HHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhc
Q 046446          113 KSGRLEIALELFHSL---PRGVLVAD-----VVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRI  184 (244)
Q Consensus       113 ~~~~~~~a~~~~~~~---~~~~~~~~-----~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  184 (244)
                      ....   ....|...   ......++     ...+..++.-|-...-..+|...+..+...   .-..- -.+...|.+.
T Consensus       116 ~~~~---~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~yP~S~ya~~A~~rl~~l~~~---la~~e-~~ia~~Y~~~  188 (243)
T PRK10866        116 NMAL---DDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRGYPNSQYTTDATKRLVFLKDR---LAKYE-LSVAEYYTKR  188 (243)
T ss_pred             hhhc---chhhhhhccCCCccccCHHHHHHHHHHHHHHHHHCcCChhHHHHHHHHHHHHHH---HHHHH-HHHHHHHHHc
Confidence            1000   00011110   00000000     123334444444444455555544444321   11111 2455668888


Q ss_pred             CChhHHHHHHHHHHHC--CCCCChhhHHHHHHHHHhccccccchhhhhhhh
Q 046446          185 NEPSKVIELLHKMKEK--NVMPDASIVSIVVDLLAKNEISLNSLPSFTVHE  233 (244)
Q Consensus       185 g~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  233 (244)
                      |.+..|..-++.+.+.  +.+........++.+|.+.|..++|.++...+.
T Consensus       189 ~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        189 GAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             CchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence            8898888888888875  444456677788889999998888877766553

>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=98.26  E-value=5.3e-05  Score=53.07  Aligned_cols=35  Identities=14%  Similarity=0.241  Sum_probs=25.5

Q ss_pred             HHHHHHHHHhcccCCccccHHHHHHHHHHHHccCC
Q 046446          117 LEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQ  151 (244)
Q Consensus       117 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~  151 (244)
                      -+-|++++++|...|+.||..++..+++.+++.+.
T Consensus       119 q~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  119 QECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             HHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence            45677777777777777777777777777766554

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

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

Probab=98.25  E-value=6.4e-05  Score=58.30  Aligned_cols=88  Identities=15%  Similarity=-0.009  Sum_probs=49.8

Q ss_pred             HhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHH
Q 046446           41 LFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIA  120 (244)
Q Consensus        41 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a  120 (244)
                      +...|+++.|+..|++..+... -+...|..+..+|.+.|++++|+..+++..+.. +.+...|..+..+|...|++++|
T Consensus        12 a~~~~~~~~Ai~~~~~Al~~~P-~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~~~eA   89 (356)
T PLN03088         12 AFVDDDFALAVDLYTQAIDLDP-NNAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEEYQTA   89 (356)
T ss_pred             HHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCCHHHH
Confidence            3445566666666666655422 244555555556666666666666666665544 33455555555566666666666


Q ss_pred             HHHHHhcccC
Q 046446          121 LELFHSLPRG  130 (244)
Q Consensus       121 ~~~~~~~~~~  130 (244)
                      ...|++..+.
T Consensus        90 ~~~~~~al~l   99 (356)
T PLN03088         90 KAALEKGASL   99 (356)
T ss_pred             HHHHHHHHHh
Confidence            6666655544

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.25  E-value=0.00014  Score=54.63  Aligned_cols=194  Identities=13%  Similarity=0.149  Sum_probs=124.1

Q ss_pred             hhhhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHH-Hh----hhchHHHHHHHHHHHHHcCCCCChhH-HHHHHHH
Q 046446            2 LINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIG-LF----EIHQVERAFKLFDEMQRDGVAADTRT-YTIFIDG   75 (244)
Q Consensus         2 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~-~~----~~~~~~~a~~~~~~m~~~~~~~~~~~-~~~ll~~   75 (244)
                      |+--|.+.+++.+|..+.+++...  .|-......+..+ +.    ......-|.+.|+-.-+++...|+.. -.++.+.
T Consensus       291 L~iYyL~q~dVqeA~~L~Kdl~Pt--tP~EyilKgvv~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~  368 (557)
T KOG3785|consen  291 LIIYYLNQNDVQEAISLCKDLDPT--TPYEYILKGVVFAALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQSMASY  368 (557)
T ss_pred             heeeecccccHHHHHHHHhhcCCC--ChHHHHHHHHHHHHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHHHHHH
Confidence            345578899999999988776543  3333333333222 11    12235566666665555555544432 3344555


Q ss_pred             HHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHH-HHHHHHHccCChHH
Q 046446           76 LCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYS-IMIHGLYNDGQMDK  154 (244)
Q Consensus        76 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~li~~~~~~~~~~~  154 (244)
                      +.-...+++++-.+..++..=.. |...--.+..+++..|.+.+|+++|-++....+. |..+|. .|.+.|.+++.++.
T Consensus       369 fFL~~qFddVl~YlnSi~sYF~N-dD~Fn~N~AQAk~atgny~eaEelf~~is~~~ik-n~~~Y~s~LArCyi~nkkP~l  446 (557)
T KOG3785|consen  369 FFLSFQFDDVLTYLNSIESYFTN-DDDFNLNLAQAKLATGNYVEAEELFIRISGPEIK-NKILYKSMLARCYIRNKKPQL  446 (557)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhcC-cchhhhHHHHHHHHhcChHHHHHHHhhhcChhhh-hhHHHHHHHHHHHHhcCCchH
Confidence            55566788888888888765433 3333345788999999999999999888766544 555555 45578889999999


Q ss_pred             HHHHHHHHHHcCCCCcHhHHHH-HHHHHHhcCChhHHHHHHHHHHHCCC
Q 046446          155 AHDLFLDMEENAVAPNVITFGT-LIHGFIRINEPSKVIELLHKMKEKNV  202 (244)
Q Consensus       155 a~~~~~~~~~~~~~p~~~~~~~-l~~~~~~~g~~~~a~~~~~~~~~~~~  202 (244)
                      |+.++-.+..   +.+..+.-. +..-|.+.+.+--|.+.|+.+...+.
T Consensus       447 AW~~~lk~~t---~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~lDP  492 (557)
T KOG3785|consen  447 AWDMMLKTNT---PSERFSLLQLIANDCYKANEFYYAAKAFDELEILDP  492 (557)
T ss_pred             HHHHHHhcCC---chhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHccCC
Confidence            9877754432   223333333 34678888888888888888776543

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=98.25  E-value=3.9e-05  Score=52.90  Aligned_cols=64  Identities=9%  Similarity=-0.104  Sum_probs=32.9

Q ss_pred             hhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCC--ChhHHHHHHHHHHhCCcHHHHHHHHHHHHHh
Q 046446           32 VIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAA--DTRTYTIFIDGLCKNGYIVESVELFRTLRIL   95 (244)
Q Consensus        32 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~--~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~   95 (244)
                      ..|..+...+...|++++|+..|++.......|  ...++..+...+...|++++|+..+++..+.
T Consensus        36 ~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~  101 (168)
T CHL00033         36 FTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALER  101 (168)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            344445555555566666666666555432111  1234555555555556666666655555543

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

Probab=98.23  E-value=5.5e-05  Score=56.63  Aligned_cols=146  Identities=12%  Similarity=0.111  Sum_probs=107.8

Q ss_pred             hHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHH-HHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHH
Q 046446           67 RTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDG-LCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHG  145 (244)
Q Consensus        67 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  145 (244)
                      .+|..+++..-+.+..+.|..+|.+..+.+ ..+..+|-..... |...++.+.|.++|+...+. ++.+...|...+..
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            468888999999999999999999998654 2344555554444 33356777799999998765 45678889999999


Q ss_pred             HHccCChHHHHHHHHHHHHcCCCCcH---hHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHH
Q 046446          146 LYNDGQMDKAHDLFLDMEENAVAPNV---ITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLA  217 (244)
Q Consensus       146 ~~~~~~~~~a~~~~~~~~~~~~~p~~---~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  217 (244)
                      +...|+.+.|..+|+..... +.++.   ..|...+..=.+.|+.+.+..+.+++.+.  -|+......+++-|.
T Consensus        80 l~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~--~~~~~~~~~f~~ry~  151 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL--FPEDNSLELFSDRYS  151 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH--TTTS-HHHHHHCCT-
T ss_pred             HHHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--hhhhhHHHHHHHHhh
Confidence            99999999999999998865 33222   48999999888999999999999998875  345555555555553

The Drosophila melanogaster suppressor of forked [Su(f)] protein shares homology with the Saccharomyces cerevisiae RNA14 protein and the 77 kDa subunit of Homo sapiens cleavage stimulation factor, which are proteins involved in mRNA 3' end formation. This suggests a role for Su(f) in mRNA 3' end formation in Drosophila. The su(f) gene produces three transcripts; two of them are polyadenylated at the end of the transcription unit, and one is a truncated transcript, polyadenylated in intron 4. It is thought that su(f) plays a role in the regulation of poly(A) site utilisation and the GU-rich sequence is important for this regulation to occur [].; GO: 0006397 mRNA processing, 0005634 nucleus; PDB: 2L9B_B 2OND_B 2OOE_A 4E85_B 4EBA_C 4E6H_A 2UY1_B.

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.23  E-value=0.0014  Score=55.05  Aligned_cols=203  Identities=13%  Similarity=0.093  Sum_probs=141.2

Q ss_pred             hhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHH
Q 046446            5 GYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVE   84 (244)
Q Consensus         5 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~   84 (244)
                      .+.+.|+.++|..+++.....+.. |..|...+-.+|.+.++.++|..+|++..+.  -|+......+..+|.+.+++.+
T Consensus        52 sl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~~~~~Ye~~~~~--~P~eell~~lFmayvR~~~yk~  128 (932)
T KOG2053|consen   52 SLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDEAVHLYERANQK--YPSEELLYHLFMAYVREKSYKK  128 (932)
T ss_pred             HHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhHHHHHHHHHHhh--CCcHHHHHHHHHHHHHHHHHHH
Confidence            356889999999999888776543 8889999999999999999999999998875  5678888888999999888766


Q ss_pred             HHHHHHHHHHhCCCccHHhHHHHHHHHHcCCC----------HHHHHHHHHhcccCC-ccccHHHHHHHHHHHHccCChH
Q 046446           85 SVELFRTLRILKCELDIQAYSCLIDGLCKSGR----------LEIALELFHSLPRGV-LVADVVTYSIMIHGLYNDGQMD  153 (244)
Q Consensus        85 a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~----------~~~a~~~~~~~~~~~-~~~~~~~~~~li~~~~~~~~~~  153 (244)
                      -.++--++-+ ..+-+...+-++++.+...-.          ..-|.+.++.+.+.+ ..-+..-...-...+...|+++
T Consensus       129 qQkaa~~LyK-~~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~  207 (932)
T KOG2053|consen  129 QQKAALQLYK-NFPKRAYYFWSVISLILQSIFSENELLDPILLALAEKMVQKLLEKKGKIESEAEIILYLLILELQGKYQ  207 (932)
T ss_pred             HHHHHHHHHH-hCCcccchHHHHHHHHHHhccCCcccccchhHHHHHHHHHHHhccCCccchHHHHHHHHHHHHhcccHH
Confidence            4444444433 335566666667666654321          234667777776554 2222223333345566788999


Q ss_pred             HHHHHHHH-HHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHH
Q 046446          154 KAHDLFLD-MEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDL  215 (244)
Q Consensus       154 ~a~~~~~~-~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  215 (244)
                      +|+.++.. ..+.-..-+...-+.-+..+...++|.+..++..++...|  +|.  |...++.
T Consensus       208 eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~Ll~k~--~Dd--y~~~~~s  266 (932)
T KOG2053|consen  208 EALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRLLEKG--NDD--YKIYTDS  266 (932)
T ss_pred             HHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHHHHhC--Ccc--hHHHHHH
Confidence            99999943 4443333344444566778888999999999999999886  343  5444444

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

Probab=98.23  E-value=8.8e-06  Score=49.06  Aligned_cols=81  Identities=15%  Similarity=0.155  Sum_probs=47.7

Q ss_pred             CCcHHHHHHHHHHHHHhCCC-ccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHH
Q 046446           79 NGYIVESVELFRTLRILKCE-LDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHD  157 (244)
Q Consensus        79 ~~~~~~a~~~~~~~~~~~~~-~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~  157 (244)
                      .|+++.|+.+++++.+.... ++...+-.+..+|.+.|++++|..+++. .+.+ +.+......+..++...|++++|.+
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~-~~~~~~~~l~a~~~~~l~~y~eAi~   79 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLD-PSNPDIHYLLARCLLKLGKYEEAIK   79 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHH-HCHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCC-CCCHHHHHHHHHHHHHhCCHHHHHH
Confidence            46677777777777665421 2344455567777777777777777776 2221 1123344445666777777777777


Q ss_pred             HHHH
Q 046446          158 LFLD  161 (244)
Q Consensus       158 ~~~~  161 (244)
                      .+++
T Consensus        80 ~l~~   83 (84)
T PF12895_consen   80 ALEK   83 (84)
T ss_dssp             HHHH
T ss_pred             HHhc
Confidence            7654

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=98.22  E-value=0.00017  Score=49.89  Aligned_cols=88  Identities=10%  Similarity=-0.037  Sum_probs=59.5

Q ss_pred             hhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCC--hhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHH
Q 046446           32 VIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAAD--TRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLID  109 (244)
Q Consensus        32 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  109 (244)
                      ..+..+...+...|++++|...|++..+....+.  ...+..+...+.+.|++++|...+++..+.. +.+...+..+..
T Consensus        36 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~  114 (172)
T PRK02603         36 FVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELN-PKQPSALNNIAV  114 (172)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHH
Confidence            3456666677777888888888887776533222  3567777777888888888888888777654 345556666666


Q ss_pred             HHHcCCCHHHH
Q 046446          110 GLCKSGRLEIA  120 (244)
Q Consensus       110 ~~~~~~~~~~a  120 (244)
                      ++...|+...+
T Consensus       115 ~~~~~g~~~~a  125 (172)
T PRK02603        115 IYHKRGEKAEE  125 (172)
T ss_pred             HHHHcCChHhH
Confidence            77666664443

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

Probab=98.21  E-value=0.0019  Score=52.44  Aligned_cols=194  Identities=10%  Similarity=0.073  Sum_probs=115.3

Q ss_pred             hhhhhhcCChhHHHHHHHHHHhCCCCCC---hhhHHHHHHHHhhhchHHHHHHHHHHHHHcC-----------CCC----
Q 046446            3 INGYCKNKEIEGALNLYSEMLSKGIKPD---VVIHNTLFIGLFEIHQVERAFKLFDEMQRDG-----------VAA----   64 (244)
Q Consensus         3 i~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-----------~~~----   64 (244)
                      .+.|-..|+.+.|..+|++..+-..+--   ..+|..-...=.++.+++.|+++.++...-.           .++    
T Consensus       394 aklYe~~~~l~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rl  473 (835)
T KOG2047|consen  394 AKLYENNGDLDDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARL  473 (835)
T ss_pred             HHHHHhcCcHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHH
Confidence            4567788999999999998887643221   3345555555556678888888877664321           111    


Q ss_pred             --ChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCcccc-HHHHHH
Q 046446           65 --DTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVAD-VVTYSI  141 (244)
Q Consensus        65 --~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~  141 (244)
                        +...|...++.--..|-++....+|+++.+..+ .++...-.....+-...-++++++++++-...-..|+ ...|+.
T Consensus       474 hrSlkiWs~y~DleEs~gtfestk~vYdriidLri-aTPqii~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~t  552 (835)
T KOG2047|consen  474 HRSLKIWSMYADLEESLGTFESTKAVYDRIIDLRI-ATPQIIINYAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNT  552 (835)
T ss_pred             HHhHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhc-CCHHHHHHHHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHH
Confidence              223444445555556778888888888887664 3333333333334455567888888887665533344 345666


Q ss_pred             HHHHHHc---cCChHHHHHHHHHHHHcCCCCcHhHHHHHHHH--HHhcCChhHHHHHHHHHH
Q 046446          142 MIHGLYN---DGQMDKAHDLFLDMEENAVAPNVITFGTLIHG--FIRINEPSKVIELLHKMK  198 (244)
Q Consensus       142 li~~~~~---~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~--~~~~g~~~~a~~~~~~~~  198 (244)
                      .+.-+.+   ....+.|..+|++..+ |.+|.-.-+-.++-+  =-+.|....|..++++..
T Consensus       553 YLtkfi~rygg~klEraRdLFEqaL~-~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat  613 (835)
T KOG2047|consen  553 YLTKFIKRYGGTKLERARDLFEQALD-GCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERAT  613 (835)
T ss_pred             HHHHHHHHhcCCCHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            6554443   2357888888888887 565543322222211  113466666777777654

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=98.20  E-value=6.6e-05  Score=51.77  Aligned_cols=81  Identities=12%  Similarity=-0.110  Sum_probs=45.4

Q ss_pred             hhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCc--cHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHH
Q 046446           66 TRTYTIFIDGLCKNGYIVESVELFRTLRILKCEL--DIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMI  143 (244)
Q Consensus        66 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li  143 (244)
                      ...+..+...+...|++++|+..|++.......+  ...++..+...+...|++++|...++...... +....++..+.
T Consensus        35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~-~~~~~~~~~la  113 (168)
T CHL00033         35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERN-PFLPQALNNMA  113 (168)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHH
Confidence            3445556666666677777777777665442111  22356666666666777777777666665442 22234444444


Q ss_pred             HHHH
Q 046446          144 HGLY  147 (244)
Q Consensus       144 ~~~~  147 (244)
                      ..+.
T Consensus       114 ~i~~  117 (168)
T CHL00033        114 VICH  117 (168)
T ss_pred             HHHH
Confidence            4444

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

Probab=98.20  E-value=0.00042  Score=52.08  Aligned_cols=201  Identities=9%  Similarity=0.083  Sum_probs=124.2

Q ss_pred             hHHHHHHHHhhhchHHHHHHHHHHHHHc----CCCC-ChhHHHHHHHHHHhCCcHHHHHHHHHHHHH----hCCCcc--H
Q 046446           33 IHNTLFIGLFEIHQVERAFKLFDEMQRD----GVAA-DTRTYTIFIDGLCKNGYIVESVELFRTLRI----LKCELD--I  101 (244)
Q Consensus        33 ~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~----~~~~~~--~  101 (244)
                      .|......|-..|++++|.+.|.+..+.    +-+. -...|.....+|.+. ++++|.+.+++..+    .| .|+  .
T Consensus        37 ~y~~Aa~~fk~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~Aa~~~k~~-~~~~Ai~~~~~A~~~y~~~G-~~~~aA  114 (282)
T PF14938_consen   37 LYEKAANCFKLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEEAANCYKKG-DPDEAIECYEKAIEIYREAG-RFSQAA  114 (282)
T ss_dssp             HHHHHHHHHHHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHT-THHHHHHHHHHHHHHHHHCT--HHHHH
T ss_pred             HHHHHHHHHHHHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhh-CHHHHHHHHHHHHHHHHhcC-cHHHHH
Confidence            4555566677778888888888776432    1111 123455555555554 88888888887754    33 233  3


Q ss_pred             HhHHHHHHHHHcC-CCHHHHHHHHHhccc----CCc-cccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCC-----c
Q 046446          102 QAYSCLIDGLCKS-GRLEIALELFHSLPR----GVL-VADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAP-----N  170 (244)
Q Consensus       102 ~~~~~ll~~~~~~-~~~~~a~~~~~~~~~----~~~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p-----~  170 (244)
                      ..+..+...|... |++++|.+.|++..+    .+. ..-...+..+...+.+.|++++|.++|++........     +
T Consensus       115 ~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~  194 (282)
T PF14938_consen  115 KCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYS  194 (282)
T ss_dssp             HHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchh
Confidence            3577788888888 999999999987643    221 1124456778889999999999999999987643221     2


Q ss_pred             Hh-HHHHHHHHHHhcCChhHHHHHHHHHHHC--CCCCC--hhhHHHHHHHHHhc--cccccchhhhhhhhhh
Q 046446          171 VI-TFGTLIHGFIRINEPSKVIELLHKMKEK--NVMPD--ASIVSIVVDLLAKN--EISLNSLPSFTVHERQ  235 (244)
Q Consensus       171 ~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~~--~~~~~--~~~~~~l~~~~~~~--g~~~~a~~~~~~~~~~  235 (244)
                      .. .|...+-++...|++..|...+++....  ++..+  ......|+.+|-..  ..+..++.-|+.+.+-
T Consensus       195 ~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~~~~D~e~f~~av~~~d~~~~l  266 (282)
T PF14938_consen  195 AKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAYEEGDVEAFTEAVAEYDSISRL  266 (282)
T ss_dssp             HHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHHHTT-CCCHHHHCHHHTTSS--
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHhCCHHHHHHHHHHHcccCcc
Confidence            21 2333444666789999999999998765  33333  34566777777643  2345556666555443

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

Probab=98.20  E-value=9e-05  Score=57.51  Aligned_cols=91  Identities=8%  Similarity=-0.016  Sum_probs=78.3

Q ss_pred             hhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHH
Q 046446            4 NGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIV   83 (244)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   83 (244)
                      ..+...|+++.|++.|++.++.. +.+...|..+..++...|++++|+..++++.+.. +.+...|..+..+|...|+++
T Consensus        10 ~~a~~~~~~~~Ai~~~~~Al~~~-P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~~~   87 (356)
T PLN03088         10 KEAFVDDDFALAVDLYTQAIDLD-PNNAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEEYQ   87 (356)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCCHH
Confidence            35678899999999999999874 4466778888889999999999999999998863 336778889999999999999


Q ss_pred             HHHHHHHHHHHhC
Q 046446           84 ESVELFRTLRILK   96 (244)
Q Consensus        84 ~a~~~~~~~~~~~   96 (244)
                      +|...|++..+..
T Consensus        88 eA~~~~~~al~l~  100 (356)
T PLN03088         88 TAKAALEKGASLA  100 (356)
T ss_pred             HHHHHHHHHHHhC
Confidence            9999999998865

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.18  E-value=0.00017  Score=59.34  Aligned_cols=165  Identities=17%  Similarity=0.110  Sum_probs=76.7

Q ss_pred             hhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHH
Q 046446            7 CKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESV   86 (244)
Q Consensus         7 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~   86 (244)
                      ...++|.+|+.+++.+...  +.-+.-|..+...|+..|+++.|.++|.+.         ..++-.|.+|.+.|+|++|.
T Consensus       743 i~akew~kai~ildniqdq--k~~s~yy~~iadhyan~~dfe~ae~lf~e~---------~~~~dai~my~k~~kw~da~  811 (1636)
T KOG3616|consen  743 IGAKEWKKAISILDNIQDQ--KTASGYYGEIADHYANKGDFEIAEELFTEA---------DLFKDAIDMYGKAGKWEDAF  811 (1636)
T ss_pred             hhhhhhhhhHhHHHHhhhh--ccccccchHHHHHhccchhHHHHHHHHHhc---------chhHHHHHHHhccccHHHHH
Confidence            3445555555555555544  223334455555555556666665555332         12334455566666666655


Q ss_pred             HHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcC
Q 046446           87 ELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENA  166 (244)
Q Consensus        87 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~  166 (244)
                      ++-++..  |...+...|-+-..-.-..|++.+|++++-...    .|+     ..|..|-+.|..+..+++.+.-.-. 
T Consensus       812 kla~e~~--~~e~t~~~yiakaedldehgkf~eaeqlyiti~----~p~-----~aiqmydk~~~~ddmirlv~k~h~d-  879 (1636)
T KOG3616|consen  812 KLAEECH--GPEATISLYIAKAEDLDEHGKFAEAEQLYITIG----EPD-----KAIQMYDKHGLDDDMIRLVEKHHGD-  879 (1636)
T ss_pred             HHHHHhc--CchhHHHHHHHhHHhHHhhcchhhhhheeEEcc----Cch-----HHHHHHHhhCcchHHHHHHHHhChh-
Confidence            5544432  223334444444444445555555554443322    122     2244555555555555554432211 


Q ss_pred             CCCcHhHHHHHHHHHHhcCChhHHHHHHHH
Q 046446          167 VAPNVITFGTLIHGFIRINEPSKVIELLHK  196 (244)
Q Consensus       167 ~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~  196 (244)
                        .-..|...+..-+-..|+...|.+-|-+
T Consensus       880 --~l~dt~~~f~~e~e~~g~lkaae~~fle  907 (1636)
T KOG3616|consen  880 --HLHDTHKHFAKELEAEGDLKAAEEHFLE  907 (1636)
T ss_pred             --hhhHHHHHHHHHHHhccChhHHHHHHHh
Confidence              1122333444445555555555554433

>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=98.16  E-value=8.7e-05  Score=52.00  Aligned_cols=51  Identities=12%  Similarity=0.168  Sum_probs=35.3

Q ss_pred             CccHHhHHHHHHHHHc-----CCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHc
Q 046446           98 ELDIQAYSCLIDGLCK-----SGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYN  148 (244)
Q Consensus        98 ~~~~~~~~~ll~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  148 (244)
                      ..+..+|..+++.|..     .|..+=....++.|.+.|+.-|..+|+.|++.+=+
T Consensus        44 ~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPK   99 (228)
T PF06239_consen   44 AKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPK   99 (228)
T ss_pred             cccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCC
Confidence            4577777777777763     35566666667777777777777777777777665

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

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=98.16  E-value=0.00079  Score=49.31  Aligned_cols=173  Identities=9%  Similarity=0.006  Sum_probs=107.4

Q ss_pred             hhhhcCChhHHHHHHHHHHhCCCCCChh-hH---HHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHh--
Q 046446            5 GYCKNKEIEGALNLYSEMLSKGIKPDVV-IH---NTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCK--   78 (244)
Q Consensus         5 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~---~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~--   78 (244)
                      .+.+.|++++|.+.|+.+...  .|+.. ..   -.+..++.+.+++++|...+++..+....-...-+...+.+.+.  
T Consensus        41 ~~~~~g~y~~Ai~~f~~l~~~--yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y~~g~~~~~  118 (243)
T PRK10866         41 QKLQDGNWKQAITQLEALDNR--YPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLYMRGLTNMA  118 (243)
T ss_pred             HHHHCCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHHHHHHhhhh
Confidence            456789999999999999986  34332 22   35667888999999999999999886333222333333333331  


Q ss_pred             CC---------------c---HHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHH
Q 046446           79 NG---------------Y---IVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYS  140 (244)
Q Consensus        79 ~~---------------~---~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  140 (244)
                      .+               |   ...|++.|+++.+.               |-...-..+|...+..+...    -...--
T Consensus       119 ~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~---------------yP~S~ya~~A~~rl~~l~~~----la~~e~  179 (243)
T PRK10866        119 LDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRG---------------YPNSQYTTDATKRLVFLKDR----LAKYEL  179 (243)
T ss_pred             cchhhhhhccCCCccccCHHHHHHHHHHHHHHHHH---------------CcCChhHHHHHHHHHHHHHH----HHHHHH
Confidence            11               1   12344444444443               33233344555444444332    111112


Q ss_pred             HHHHHHHccCChHHHHHHHHHHHHc--CCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHH
Q 046446          141 IMIHGLYNDGQMDKAHDLFLDMEEN--AVAPNVITFGTLIHGFIRINEPSKVIELLHKMK  198 (244)
Q Consensus       141 ~li~~~~~~~~~~~a~~~~~~~~~~--~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  198 (244)
                      .+...|.+.|.+..|..-++.+.+.  +.+........++.+|...|..++|..+...+.
T Consensus       180 ~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        180 SVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             HHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence            5566788888998898888888864  223345566677888888999998888776554

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=98.12  E-value=0.00032  Score=48.57  Aligned_cols=91  Identities=12%  Similarity=-0.012  Sum_probs=66.1

Q ss_pred             hhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCc--cHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHH
Q 046446           66 TRTYTIFIDGLCKNGYIVESVELFRTLRILKCEL--DIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMI  143 (244)
Q Consensus        66 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li  143 (244)
                      ...+..+...+...|++++|...|++..+....+  ....+..+...+.+.|++++|...+++..+.. +-+...+..+.
T Consensus        35 a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg  113 (172)
T PRK02603         35 AFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELN-PKQPSALNNIA  113 (172)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHH
Confidence            4467778888888899999999999887654222  24577888888888999999999888877653 23456666677


Q ss_pred             HHHHccCChHHHHH
Q 046446          144 HGLYNDGQMDKAHD  157 (244)
Q Consensus       144 ~~~~~~~~~~~a~~  157 (244)
                      ..+...|+...+..
T Consensus       114 ~~~~~~g~~~~a~~  127 (172)
T PRK02603        114 VIYHKRGEKAEEAG  127 (172)
T ss_pred             HHHHHcCChHhHhh
Confidence            77777776555443

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.12  E-value=0.00014  Score=48.65  Aligned_cols=98  Identities=11%  Similarity=0.004  Sum_probs=77.6

Q ss_pred             hhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHH
Q 046446           31 VVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDG  110 (244)
Q Consensus        31 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~  110 (244)
                      ......+...+...|++++|..+|+-+...... +..-|-.|..++-..|++++|+..|......+ +-++..+-.+..+
T Consensus        35 l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~-~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~-~ddp~~~~~ag~c  112 (157)
T PRK15363         35 LNTLYRYAMQLMEVKEFAGAARLFQLLTIYDAW-SFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK-IDAPQAPWAAAEC  112 (157)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHH
Confidence            334455556677889999999999888776332 66677788888888999999999999888877 4678888888889


Q ss_pred             HHcCCCHHHHHHHHHhcccC
Q 046446          111 LCKSGRLEIALELFHSLPRG  130 (244)
Q Consensus       111 ~~~~~~~~~a~~~~~~~~~~  130 (244)
                      +...|+.+.|.+.|+.....
T Consensus       113 ~L~lG~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        113 YLACDNVCYAIKALKAVVRI  132 (157)
T ss_pred             HHHcCCHHHHHHHHHHHHHH
Confidence            99999999999999877654

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=98.08  E-value=0.001  Score=54.10  Aligned_cols=144  Identities=10%  Similarity=-0.005  Sum_probs=91.4

Q ss_pred             CCCCChhHHHHHHHHHHhC-----CcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcC--------CCHHHHHHHHHhc
Q 046446           61 GVAADTRTYTIFIDGLCKN-----GYIVESVELFRTLRILKCELDIQAYSCLIDGLCKS--------GRLEIALELFHSL  127 (244)
Q Consensus        61 ~~~~~~~~~~~ll~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~--------~~~~~a~~~~~~~  127 (244)
                      +.+.|...|...+++....     ++...|..+|++..+.. |-....|..+..++...        .++..+.+...+.
T Consensus       332 ~~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~ld-P~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a  410 (517)
T PRK10153        332 GLPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKSE-PDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNI  410 (517)
T ss_pred             cCCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHh
Confidence            3455677787777775432     23667888888887765 33444555444433221        1233444444443


Q ss_pred             ccC-CccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCh
Q 046446          128 PRG-VLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDA  206 (244)
Q Consensus       128 ~~~-~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  206 (244)
                      ... ..+.+...|..+.-.....|++++|...+++..+..  |+...|..+...+...|+.++|.+.+++....+  |..
T Consensus       411 ~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~--P~~  486 (517)
T PRK10153        411 VALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTAFNLR--PGE  486 (517)
T ss_pred             hhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCC
Confidence            332 123345677777666667788888888888888754  677788888888888888888888888877653  444


Q ss_pred             hhH
Q 046446          207 SIV  209 (244)
Q Consensus       207 ~~~  209 (244)
                      .||
T Consensus       487 pt~  489 (517)
T PRK10153        487 NTL  489 (517)
T ss_pred             chH
Confidence            444

>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=98.07  E-value=5.1e-05  Score=43.58  Aligned_cols=52  Identities=25%  Similarity=0.220  Sum_probs=27.9

Q ss_pred             hCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccC
Q 046446           78 KNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRG  130 (244)
Q Consensus        78 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  130 (244)
                      +.|++++|++.|+++.+.. |-+...+..+..+|.+.|++++|..+++++...
T Consensus         3 ~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~   54 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQRN-PDNPEARLLLAQCYLKQGQYDEAEELLERLLKQ   54 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHHT-TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG
T ss_pred             hccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            3455555555555555543 334555555555555555555555555555554

...

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.07  E-value=0.00013  Score=48.78  Aligned_cols=98  Identities=9%  Similarity=-0.045  Sum_probs=83.7

Q ss_pred             hhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHH
Q 046446           66 TRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHG  145 (244)
Q Consensus        66 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  145 (244)
                      -.....+...+...|++++|.++|+.+.... +-+..-|-.|..++-..|++++|...|......+ +-|+..+-.+..+
T Consensus        35 l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~D-p~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~-~ddp~~~~~ag~c  112 (157)
T PRK15363         35 LNTLYRYAMQLMEVKEFAGAARLFQLLTIYD-AWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK-IDAPQAPWAAAEC  112 (157)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHH
Confidence            3445566667788999999999999998877 4677788889999999999999999999988776 4578888999999


Q ss_pred             HHccCChHHHHHHHHHHHHc
Q 046446          146 LYNDGQMDKAHDLFLDMEEN  165 (244)
Q Consensus       146 ~~~~~~~~~a~~~~~~~~~~  165 (244)
                      +...|+.+.|.+.|+.....
T Consensus       113 ~L~lG~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        113 YLACDNVCYAIKALKAVVRI  132 (157)
T ss_pred             HHHcCCHHHHHHHHHHHHHH
Confidence            99999999999999987754

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

Probab=98.03  E-value=0.00091  Score=50.30  Aligned_cols=192  Identities=13%  Similarity=0.103  Sum_probs=115.9

Q ss_pred             hhhhhcCChhHHHHHHHHHHhC----CCCCC-hhhHHHHHHHHhhhchHHHHHHHHHHHHHc---CCCCC--hhHHHHHH
Q 046446            4 NGYCKNKEIEGALNLYSEMLSK----GIKPD-VVIHNTLFIGLFEIHQVERAFKLFDEMQRD---GVAAD--TRTYTIFI   73 (244)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~---~~~~~--~~~~~~ll   73 (244)
                      ..|...|++++|.+.|.+....    +-+.+ ...|......| +..++++|...+++..+.   .-.|+  ...+..+.
T Consensus        43 ~~fk~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~Aa~~~-k~~~~~~Ai~~~~~A~~~y~~~G~~~~aA~~~~~lA  121 (282)
T PF14938_consen   43 NCFKLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEEAANCY-KKGDPDEAIECYEKAIEIYREAGRFSQAAKCLKELA  121 (282)
T ss_dssp             HHHHHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHH-HHTTHHHHHHHHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH-HhhCHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            3566678888888888776432    21111 23444444544 444888999888887653   12223  34677888


Q ss_pred             HHHHhC-CcHHHHHHHHHHHHHh----CCC-ccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCc-----cccHH-HHHH
Q 046446           74 DGLCKN-GYIVESVELFRTLRIL----KCE-LDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVL-----VADVV-TYSI  141 (244)
Q Consensus        74 ~~~~~~-~~~~~a~~~~~~~~~~----~~~-~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~-~~~~  141 (244)
                      ..|... |+++.|++.|++..+.    +.+ .-...+..+...+.+.|++++|.++|++......     .++.. .|-.
T Consensus       122 ~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~  201 (282)
T PF14938_consen  122 EIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLK  201 (282)
T ss_dssp             HHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHH
Confidence            888888 9999999999987653    311 1234567788899999999999999998754321     22222 2334


Q ss_pred             HHHHHHccCChHHHHHHHHHHHHcC--CCCc--HhHHHHHHHHHHhcCChhHHHHHHHHH
Q 046446          142 MIHGLYNDGQMDKAHDLFLDMEENA--VAPN--VITFGTLIHGFIRINEPSKVIELLHKM  197 (244)
Q Consensus       142 li~~~~~~~~~~~a~~~~~~~~~~~--~~p~--~~~~~~l~~~~~~~g~~~~a~~~~~~~  197 (244)
                      .+-.+...||...|.+.++......  +..+  ......|+.++ ..|+.+.......+.
T Consensus       202 a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~-~~~D~e~f~~av~~~  260 (282)
T PF14938_consen  202 AILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAY-EEGDVEAFTEAVAEY  260 (282)
T ss_dssp             HHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHH-HTT-CCCHHHHCHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHH-HhCCHHHHHHHHHHH
Confidence            4456677899999999999987542  2212  33445566665 455555544444443

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=98.02  E-value=0.0014  Score=53.39  Aligned_cols=144  Identities=12%  Similarity=0.061  Sum_probs=102.0

Q ss_pred             CCCCChhhHHHHHHHHhhh-----chHHHHHHHHHHHHHcCCCCC-hhHHHHHHHHHHhC--------CcHHHHHHHHHH
Q 046446           26 GIKPDVVIHNTLFIGLFEI-----HQVERAFKLFDEMQRDGVAAD-TRTYTIFIDGLCKN--------GYIVESVELFRT   91 (244)
Q Consensus        26 ~~~~~~~~~~~li~~~~~~-----~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~--------~~~~~a~~~~~~   91 (244)
                      +.+.+...|...+++....     +..+.|..+|++..+.  .|+ ...+..+..++...        .+...+.+..++
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            3456778888888875543     3478999999999986  444 44555444433322        122334444444


Q ss_pred             HHHh-CCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCc
Q 046446           92 LRIL-KCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPN  170 (244)
Q Consensus        92 ~~~~-~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~  170 (244)
                      .... ..+.+...|.++...+...|++++|...+++....+  |+...|..+...+...|+.++|.+.+++....  .|.
T Consensus       410 a~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L--~P~  485 (517)
T PRK10153        410 IVALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTAFNL--RPG  485 (517)
T ss_pred             hhhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCC
Confidence            3332 134556778888777778899999999999999885  68889999999999999999999999998764  455


Q ss_pred             HhHHH
Q 046446          171 VITFG  175 (244)
Q Consensus       171 ~~~~~  175 (244)
                      ..+|.
T Consensus       486 ~pt~~  490 (517)
T PRK10153        486 ENTLY  490 (517)
T ss_pred             CchHH
Confidence            55553

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.00  E-value=0.00088  Score=55.99  Aligned_cols=165  Identities=17%  Similarity=0.181  Sum_probs=98.6

Q ss_pred             HhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHH
Q 046446           41 LFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIA  120 (244)
Q Consensus        41 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a  120 (244)
                      ....|.+++|+.+|.+-++         |..|=+.|...|.|++|.++-+.=-+-   .=..||.....-+-..++.+.|
T Consensus       810 AieLgMlEeA~~lYr~ckR---------~DLlNKlyQs~g~w~eA~eiAE~~DRi---HLr~Tyy~yA~~Lear~Di~~A  877 (1416)
T KOG3617|consen  810 AIELGMLEEALILYRQCKR---------YDLLNKLYQSQGMWSEAFEIAETKDRI---HLRNTYYNYAKYLEARRDIEAA  877 (1416)
T ss_pred             HHHHhhHHHHHHHHHHHHH---------HHHHHHHHHhcccHHHHHHHHhhccce---ehhhhHHHHHHHHHhhccHHHH
Confidence            3466777888877776654         334445666778888887776542221   1234455555555566677777


Q ss_pred             HHHHHhcccCC-------------------ccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHH
Q 046446          121 LELFHSLPRGV-------------------LVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGF  181 (244)
Q Consensus       121 ~~~~~~~~~~~-------------------~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  181 (244)
                      ++.|++.....                   ...|...|.-....+-..|+.+.|+.+|....+         |-.+++..
T Consensus       878 leyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D---------~fs~VrI~  948 (1416)
T KOG3617|consen  878 LEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD---------YFSMVRIK  948 (1416)
T ss_pred             HHHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh---------hhhheeeE
Confidence            77776542210                   012334444455555567777777777776654         45555655


Q ss_pred             HhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchhhhhhh
Q 046446          182 IRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFTVH  232 (244)
Q Consensus       182 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  232 (244)
                      +-.|+.++|.++.++   .|   |......|.+.|...|++.+|..+|...
T Consensus       949 C~qGk~~kAa~iA~e---sg---d~AAcYhlaR~YEn~g~v~~Av~FfTrA  993 (1416)
T KOG3617|consen  949 CIQGKTDKAARIAEE---SG---DKAACYHLARMYENDGDVVKAVKFFTRA  993 (1416)
T ss_pred             eeccCchHHHHHHHh---cc---cHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            666777777666543   22   4455556777777777777777776544

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.99  E-value=0.001  Score=42.76  Aligned_cols=53  Identities=23%  Similarity=0.139  Sum_probs=22.0

Q ss_pred             HHhCCcHHHHHHHHHHHHHhCCCcc--HHhHHHHHHHHHcCCCHHHHHHHHHhcc
Q 046446           76 LCKNGYIVESVELFRTLRILKCELD--IQAYSCLIDGLCKSGRLEIALELFHSLP  128 (244)
Q Consensus        76 ~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~  128 (244)
                      +-..|+.++|+.+|++....|....  ...+-.+...+...|++++|..+|++..
T Consensus        11 ~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~   65 (120)
T PF12688_consen   11 HDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEAL   65 (120)
T ss_pred             HHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3344444444444444444433221  1223333344444444444444444433

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

Probab=97.99  E-value=0.0042  Score=49.55  Aligned_cols=148  Identities=9%  Similarity=0.039  Sum_probs=111.4

Q ss_pred             HHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccc-cHHHHHHHHHHHHccCChHHHHHHHH
Q 046446           82 IVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVA-DVVTYSIMIHGLYNDGQMDKAHDLFL  160 (244)
Q Consensus        82 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~  160 (244)
                      .+.....++++...-..--.-+|-.+++.-.+..-++.|..+|.++.+.+..+ ++...++++..||. ++.+-|.++|+
T Consensus       347 ~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~cs-kD~~~AfrIFe  425 (656)
T KOG1914|consen  347 EKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYCS-KDKETAFRIFE  425 (656)
T ss_pred             hhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHhc-CChhHHHHHHH
Confidence            45566666666554322334567778888888889999999999999887666 78888999988875 68889999998


Q ss_pred             HHHHcCCCCcHhH-HHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC--hhhHHHHHHHHHhccccccchhhhhhh
Q 046446          161 DMEENAVAPNVIT-FGTLIHGFIRINEPSKVIELLHKMKEKNVMPD--ASIVSIVVDLLAKNEISLNSLPSFTVH  232 (244)
Q Consensus       161 ~~~~~~~~p~~~~-~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~  232 (244)
                      .-.+. . +|... -...+..+...|+-..+..+|++....++.|+  ...|..++..=+.-|+....+++-+..
T Consensus       426 LGLkk-f-~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~  498 (656)
T KOG1914|consen  426 LGLKK-F-GDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRR  498 (656)
T ss_pred             HHHHh-c-CCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHH
Confidence            75443 2 33333 34567778889999999999999998866665  478999999888889987766655433

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.95  E-value=0.001  Score=56.80  Aligned_cols=196  Identities=15%  Similarity=0.130  Sum_probs=110.6

Q ss_pred             CChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHH
Q 046446           10 KEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELF   89 (244)
Q Consensus        10 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~   89 (244)
                      +..++|.+.-++.-      .+.+|..+..+-.+.|...+|++-|-+.      -|+..|..+++...+.|.|++..+++
T Consensus      1089 ~~ldRA~efAe~~n------~p~vWsqlakAQL~~~~v~dAieSyika------dDps~y~eVi~~a~~~~~~edLv~yL 1156 (1666)
T KOG0985|consen 1089 GSLDRAYEFAERCN------EPAVWSQLAKAQLQGGLVKDAIESYIKA------DDPSNYLEVIDVASRTGKYEDLVKYL 1156 (1666)
T ss_pred             hhHHHHHHHHHhhC------ChHHHHHHHHHHHhcCchHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHHHHHHHH
Confidence            45555555443332      3457777887777777777777766322      26667778888888888888888777


Q ss_pred             HHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhc-----cc-------CC-------ccccHHHHHHHHHHHHccC
Q 046446           90 RTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSL-----PR-------GV-------LVADVVTYSIMIHGLYNDG  150 (244)
Q Consensus        90 ~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~-----~~-------~~-------~~~~~~~~~~li~~~~~~~  150 (244)
                      ...++..-+|...  +.|+-+|++.+++.+-+++..--     ..       .+       +-.+...|..|...+...|
T Consensus      1157 ~MaRkk~~E~~id--~eLi~AyAkt~rl~elE~fi~gpN~A~i~~vGdrcf~~~~y~aAkl~y~~vSN~a~La~TLV~Lg 1234 (1666)
T KOG0985|consen 1157 LMARKKVREPYID--SELIFAYAKTNRLTELEEFIAGPNVANIQQVGDRCFEEKMYEAAKLLYSNVSNFAKLASTLVYLG 1234 (1666)
T ss_pred             HHHHHhhcCccch--HHHHHHHHHhchHHHHHHHhcCCCchhHHHHhHHHhhhhhhHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            7776655444433  46777777777776655544210     00       00       0112333455555555666


Q ss_pred             ChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchhhhh
Q 046446          151 QMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFT  230 (244)
Q Consensus       151 ~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  230 (244)
                      ++..|...-+..      .+..||..+-.+|...+.+..|     +|-..++.....-..-++..|...|-+++.+..++
T Consensus      1235 eyQ~AVD~aRKA------ns~ktWK~VcfaCvd~~EFrlA-----QiCGL~iivhadeLeeli~~Yq~rGyFeElIsl~E 1303 (1666)
T KOG0985|consen 1235 EYQGAVDAARKA------NSTKTWKEVCFACVDKEEFRLA-----QICGLNIIVHADELEELIEYYQDRGYFEELISLLE 1303 (1666)
T ss_pred             HHHHHHHHhhhc------cchhHHHHHHHHHhchhhhhHH-----HhcCceEEEehHhHHHHHHHHHhcCcHHHHHHHHH
Confidence            666554433221      3556676666666665554433     22233333344445556666666666655555554

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=97.94  E-value=0.00097  Score=55.15  Aligned_cols=53  Identities=19%  Similarity=0.142  Sum_probs=24.6

Q ss_pred             hhhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHH
Q 046446            3 INGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEM   57 (244)
Q Consensus         3 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m   57 (244)
                      |+.|.+.|.+.+|.+....=..  +..|......+..++.+..-+++|-++|+++
T Consensus       622 iqlyika~~p~~a~~~a~n~~~--l~~de~il~~ia~alik~elydkagdlfeki  674 (1636)
T KOG3616|consen  622 IQLYIKAGKPAKAARAALNDEE--LLADEEILEHIAAALIKGELYDKAGDLFEKI  674 (1636)
T ss_pred             HHHHHHcCCchHHHHhhcCHHH--hhccHHHHHHHHHHHHhhHHHHhhhhHHHHh
Confidence            5566777777666554322111  1234444444444444444444444444443

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

Probab=97.93  E-value=0.0019  Score=51.84  Aligned_cols=180  Identities=13%  Similarity=0.091  Sum_probs=113.5

Q ss_pred             HHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCH
Q 046446           38 FIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRL  117 (244)
Q Consensus        38 i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~  117 (244)
                      ++.+...+++++|.+...++...+ +-|...+..-+-+..+.+.+++|+.+.+.-...  ..+...+---.-+..+.+..
T Consensus        19 ln~~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~--~~~~~~~fEKAYc~Yrlnk~   95 (652)
T KOG2376|consen   19 LNRHGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKKNGAL--LVINSFFFEKAYCEYRLNKL   95 (652)
T ss_pred             HHHhccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchh--hhcchhhHHHHHHHHHcccH
Confidence            455677899999999999999876 446677888888899999999999666543211  11111111223345588999


Q ss_pred             HHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHH-HHhcCChhHHHHHHHH
Q 046446          118 EIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHG-FIRINEPSKVIELLHK  196 (244)
Q Consensus       118 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~-~~~~g~~~~a~~~~~~  196 (244)
                      ++|+..++.+...    +..+...-...+-+.|++++|..+|+.+.+++.. +   +...+.+ +...+---.+.    .
T Consensus        96 Dealk~~~~~~~~----~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~d-d---~d~~~r~nl~a~~a~l~~~----~  163 (652)
T KOG2376|consen   96 DEALKTLKGLDRL----DDKLLELRAQVLYRLERYDEALDIYQHLAKNNSD-D---QDEERRANLLAVAAALQVQ----L  163 (652)
T ss_pred             HHHHHHHhccccc----chHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCc-h---HHHHHHHHHHHHHHhhhHH----H
Confidence            9999999944432    3446666678888999999999999999876432 2   2222221 11111111111    1


Q ss_pred             HHHCCCCCChhhHHHHHH---HHHhccccccchhhhhhhh
Q 046446          197 MKEKNVMPDASIVSIVVD---LLAKNEISLNSLPSFTVHE  233 (244)
Q Consensus       197 ~~~~~~~~~~~~~~~l~~---~~~~~g~~~~a~~~~~~~~  233 (244)
                      +......| ..+|..+..   .+...|++.+|++.++...
T Consensus       164 ~q~v~~v~-e~syel~yN~Ac~~i~~gky~qA~elL~kA~  202 (652)
T KOG2376|consen  164 LQSVPEVP-EDSYELLYNTACILIENGKYNQAIELLEKAL  202 (652)
T ss_pred             HHhccCCC-cchHHHHHHHHHHHHhcccHHHHHHHHHHHH
Confidence            22223333 334444443   5567889999998888773

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=97.93  E-value=0.0033  Score=53.66  Aligned_cols=215  Identities=13%  Similarity=-0.023  Sum_probs=143.3

Q ss_pred             hhHHHHHHHHHHhCCCCCC-hhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHH
Q 046446           12 IEGALNLYSEMLSKGIKPD-VVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFR   90 (244)
Q Consensus        12 ~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~   90 (244)
                      ...|...|-+..+.  .|+ ...|..|...|....+...|.+.|....+... .+..........|++..+++.|..+.-
T Consensus       474 ~~~al~ali~alrl--d~~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLDa-tdaeaaaa~adtyae~~~we~a~~I~l  550 (1238)
T KOG1127|consen  474 SALALHALIRALRL--DVSLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELDA-TDAEAAAASADTYAEESTWEEAFEICL  550 (1238)
T ss_pred             HHHHHHHHHHHHhc--ccchhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCc-hhhhhHHHHHHHhhccccHHHHHHHHH
Confidence            55566666555554  333 34688888888888888899999988887633 367778888999999999999998844


Q ss_pred             HHHHhC-CCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCC
Q 046446           91 TLRILK-CELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAP  169 (244)
Q Consensus        91 ~~~~~~-~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p  169 (244)
                      ..-+.. ...-...|....-.|...++..+|..-|+...+.. +-|...|..+..+|.+.|++..|.++|......  .|
T Consensus       551 ~~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~d-PkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~L--rP  627 (1238)
T KOG1127|consen  551 RAAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTD-PKDYNLWLGLGEAYPESGRYSHALKVFTKASLL--RP  627 (1238)
T ss_pred             HHhhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcCC-chhHHHHHHHHHHHHhcCceehHHHhhhhhHhc--Cc
Confidence            433321 11112223334456778888889999898888775 557889999999999999999999999887763  33


Q ss_pred             cHhHHHHHHH--HHHhcCChhHHHHHHHHHHHC------CCCCChhhHHHHHHHHHhccccccchhhhhhhh
Q 046446          170 NVITFGTLIH--GFIRINEPSKVIELLHKMKEK------NVMPDASIVSIVVDLLAKNEISLNSLPSFTVHE  233 (244)
Q Consensus       170 ~~~~~~~l~~--~~~~~g~~~~a~~~~~~~~~~------~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  233 (244)
                      + .+|.....  .-+..|.+.++...+......      +-.--..++-.+...+...|-..++..+++...
T Consensus       628 ~-s~y~~fk~A~~ecd~GkYkeald~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksi  698 (1238)
T KOG1127|consen  628 L-SKYGRFKEAVMECDNGKYKEALDALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSI  698 (1238)
T ss_pred             H-hHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHH
Confidence            3 33433322  234578888888888776532      111123444444455555555555555555433

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.92  E-value=0.0017  Score=46.22  Aligned_cols=178  Identities=11%  Similarity=0.079  Sum_probs=94.8

Q ss_pred             HHHHHhhhchHHHHHHHHHHHHHcCCC--CChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcC
Q 046446           37 LFIGLFEIHQVERAFKLFDEMQRDGVA--ADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKS  114 (244)
Q Consensus        37 li~~~~~~~~~~~a~~~~~~m~~~~~~--~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~  114 (244)
                      ....+...|++.+|...|+.+......  --....-.++.++.+.|+++.|...++++.+.-..-...-+...+.+.+..
T Consensus        11 ~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~A~Y~~g~~~~   90 (203)
T PF13525_consen   11 KALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALYMLGLSYY   90 (203)
T ss_dssp             HHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHH
Confidence            334455778888888888888776221  123445567778888888888888888887753211122233333333221


Q ss_pred             CCHHHHHHHHHhcccCC---ccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHH
Q 046446          115 GRLEIALELFHSLPRGV---LVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVI  191 (244)
Q Consensus       115 ~~~~~a~~~~~~~~~~~---~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~  191 (244)
                      .......     ....+   ..--...+..++.-|-...-..+|...+..+.+.   .-..- -.+...|.+.|.+..|.
T Consensus        91 ~~~~~~~-----~~~~D~~~~~~A~~~~~~li~~yP~S~y~~~A~~~l~~l~~~---la~~e-~~ia~~Y~~~~~y~aA~  161 (203)
T PF13525_consen   91 KQIPGIL-----RSDRDQTSTRKAIEEFEELIKRYPNSEYAEEAKKRLAELRNR---LAEHE-LYIARFYYKRGKYKAAI  161 (203)
T ss_dssp             HHHHHHH------TT---HHHHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHH---HHHHH-HHHHHHHHCTT-HHHHH
T ss_pred             HhCccch-----hcccChHHHHHHHHHHHHHHHHCcCchHHHHHHHHHHHHHHH---HHHHH-HHHHHHHHHcccHHHHH
Confidence            1111111     00000   0001234556666666666667776666655432   11111 23456778888888888


Q ss_pred             HHHHHHHHC--CCCCChhhHHHHHHHHHhccccc
Q 046446          192 ELLHKMKEK--NVMPDASIVSIVVDLLAKNEISL  223 (244)
Q Consensus       192 ~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~  223 (244)
                      .-++.+.+.  +..........++.+|.+.|..+
T Consensus       162 ~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~  195 (203)
T PF13525_consen  162 IRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQ  195 (203)
T ss_dssp             HHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HH
T ss_pred             HHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChH
Confidence            888888775  21222345567777888777765

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.92  E-value=0.0034  Score=53.83  Aligned_cols=159  Identities=14%  Similarity=0.218  Sum_probs=94.2

Q ss_pred             hhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHH
Q 046446            7 CKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESV   86 (244)
Q Consensus         7 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~   86 (244)
                      ...+-+++|..+|+...     .+....+.+|.   ..+..++|.++-++..      .+..|..+.++-.+.|...+|+
T Consensus      1059 i~~~LyEEAF~ifkkf~-----~n~~A~~VLie---~i~~ldRA~efAe~~n------~p~vWsqlakAQL~~~~v~dAi 1124 (1666)
T KOG0985|consen 1059 IENQLYEEAFAIFKKFD-----MNVSAIQVLIE---NIGSLDRAYEFAERCN------EPAVWSQLAKAQLQGGLVKDAI 1124 (1666)
T ss_pred             hhhhHHHHHHHHHHHhc-----ccHHHHHHHHH---HhhhHHHHHHHHHhhC------ChHHHHHHHHHHHhcCchHHHH
Confidence            33444555555554322     23333344433   2244555555443322      4567888888888888888887


Q ss_pred             HHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcC
Q 046446           87 ELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENA  166 (244)
Q Consensus        87 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~  166 (244)
                      +-|-+.      -|+..|.-+++...+.|.+++-.+++.-..+....|..  =+.||-+|.+.++..+.++++.      
T Consensus      1125 eSyika------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~i--d~eLi~AyAkt~rl~elE~fi~------ 1190 (1666)
T KOG0985|consen 1125 ESYIKA------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYI--DSELIFAYAKTNRLTELEEFIA------ 1190 (1666)
T ss_pred             HHHHhc------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccc--hHHHHHHHHHhchHHHHHHHhc------
Confidence            766542      46677888888888888888888888777666545443  3567778888888777666542      


Q ss_pred             CCCcHhHHHHHHHHHHhcCChhHHHHHH
Q 046446          167 VAPNVITFGTLIHGFIRINEPSKVIELL  194 (244)
Q Consensus       167 ~~p~~~~~~~l~~~~~~~g~~~~a~~~~  194 (244)
                       -||......+..-|...|.++.|.-+|
T Consensus      1191 -gpN~A~i~~vGdrcf~~~~y~aAkl~y 1217 (1666)
T KOG0985|consen 1191 -GPNVANIQQVGDRCFEEKMYEAAKLLY 1217 (1666)
T ss_pred             -CCCchhHHHHhHHHhhhhhhHHHHHHH
Confidence             244444444444444444444444333

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.91  E-value=0.0038  Score=45.31  Aligned_cols=133  Identities=11%  Similarity=0.030  Sum_probs=97.9

Q ss_pred             hhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHH---
Q 046446           32 VIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLI---  108 (244)
Q Consensus        32 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll---  108 (244)
                      .+.+.++..+...|.+.-.++.+++..+...+.++.....|++.--+.||.+.|...|++..+..-..+..+++.++   
T Consensus       178 ~Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n  257 (366)
T KOG2796|consen  178 RVMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMN  257 (366)
T ss_pred             HHHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhh
Confidence            34556677777778888889999999888777788888889999899999999999999877654344544444443   


Q ss_pred             --HHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHc
Q 046446          109 --DGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEEN  165 (244)
Q Consensus       109 --~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  165 (244)
                        ..|.-.+++-.|...+.++...+ +.|+...|.-.-...-.|+..+|.+.++.|.+.
T Consensus       258 ~a~i~lg~nn~a~a~r~~~~i~~~D-~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~  315 (366)
T KOG2796|consen  258 SAFLHLGQNNFAEAHRFFTEILRMD-PRNAVANNNKALCLLYLGKLKDALKQLEAMVQQ  315 (366)
T ss_pred             hhhheecccchHHHHHHHhhccccC-CCchhhhchHHHHHHHHHHHHHHHHHHHHHhcc
Confidence              34556677888888888887764 335555555444445568889999999988875

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=97.91  E-value=0.0069  Score=48.15  Aligned_cols=194  Identities=14%  Similarity=0.098  Sum_probs=129.3

Q ss_pred             hhhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHH-------HHHH
Q 046446            3 INGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTI-------FIDG   75 (244)
Q Consensus         3 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~-------ll~~   75 (244)
                      .+...+..+++.|++.+.......  -+..-++....+|...|.+......-....+.|.. ...-|+.       +..+
T Consensus       231 gnaaykkk~f~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre-~rad~klIak~~~r~g~a  307 (539)
T KOG0548|consen  231 GNAAYKKKDFETAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRE-LRADYKLIAKALARLGNA  307 (539)
T ss_pred             HHHHHHhhhHHHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHH-HHHHHHHHHHHHHHhhhh
Confidence            345566778888888888888763  34555666777788888888887777776666543 2222333       3345


Q ss_pred             HHhCCcHHHHHHHHHHHHHhCCCccHHhH-------------------------HHHHHHHHcCCCHHHHHHHHHhcccC
Q 046446           76 LCKNGYIVESVELFRTLRILKCELDIQAY-------------------------SCLIDGLCKSGRLEIALELFHSLPRG  130 (244)
Q Consensus        76 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-------------------------~~ll~~~~~~~~~~~a~~~~~~~~~~  130 (244)
                      |.+.++++.+...|++.......|+...-                         ..-...+.+.|++..|...|.+++..
T Consensus       308 ~~k~~~~~~ai~~~~kaLte~Rt~~~ls~lk~~Ek~~k~~e~~a~~~pe~A~e~r~kGne~Fk~gdy~~Av~~YteAIkr  387 (539)
T KOG0548|consen  308 YTKREDYEGAIKYYQKALTEHRTPDLLSKLKEAEKALKEAERKAYINPEKAEEEREKGNEAFKKGDYPEAVKHYTEAIKR  387 (539)
T ss_pred             hhhHHhHHHHHHHHHHHhhhhcCHHHHHHHHHHHHHHHHHHHHHhhChhHHHHHHHHHHHHHhccCHHHHHHHHHHHHhc
Confidence            66677888888888876543323322211                         11134566778888888888888877


Q ss_pred             CccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCC
Q 046446          131 VLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKN  201 (244)
Q Consensus       131 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  201 (244)
                      . +-|...|..-.-+|.+.|.+..|++-.+...+.. ++....|..=..++....+++.|.+.|.+..+.+
T Consensus       388 ~-P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~-p~~~kgy~RKg~al~~mk~ydkAleay~eale~d  456 (539)
T KOG0548|consen  388 D-PEDARLYSNRAACYLKLGEYPEALKDAKKCIELD-PNFIKAYLRKGAALRAMKEYDKALEAYQEALELD  456 (539)
T ss_pred             C-CchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            5 5578888888888888888888888777766642 2233444444455555677888888888877764

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.91  E-value=0.0012  Score=42.46  Aligned_cols=54  Identities=20%  Similarity=0.183  Sum_probs=23.6

Q ss_pred             hhhcCChhHHHHHHHHHHhCCCCCC--hhhHHHHHHHHhhhchHHHHHHHHHHHHH
Q 046446            6 YCKNKEIEGALNLYSEMLSKGIKPD--VVIHNTLFIGLFEIHQVERAFKLFDEMQR   59 (244)
Q Consensus         6 ~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~   59 (244)
                      +-..|+.++|+.+|++....|...+  ...+-.+...+...|++++|+.++++...
T Consensus        11 ~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~   66 (120)
T PF12688_consen   11 HDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALE   66 (120)
T ss_pred             HHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3344455555555555544443322  11233333444444555555555544443

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=97.88  E-value=0.0058  Score=46.16  Aligned_cols=192  Identities=10%  Similarity=0.062  Sum_probs=134.6

Q ss_pred             HHHhhhchHHHHHHHHHHHHHcCCCC------------Chh--HHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhH
Q 046446           39 IGLFEIHQVERAFKLFDEMQRDGVAA------------DTR--TYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAY  104 (244)
Q Consensus        39 ~~~~~~~~~~~a~~~~~~m~~~~~~~------------~~~--~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  104 (244)
                      ..+.+.|.+++|..=|+...+....-            ...  .....+..+...||...|++....+.+-. +-+...+
T Consensus       114 ~vllK~Gele~A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~-~Wda~l~  192 (504)
T KOG0624|consen  114 VVLLKQGELEQAEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQ-PWDASLR  192 (504)
T ss_pred             hhhhhcccHHHHHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcC-cchhHHH
Confidence            34567889999999999988763211            111  12234455667899999999999998865 5688888


Q ss_pred             HHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhH----HH-----
Q 046446          105 SCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVIT----FG-----  175 (244)
Q Consensus       105 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~----~~-----  175 (244)
                      ..-..+|...|++..|..=++...+.. ..+..++.-+-..+...|+.+.++...++..+.  .||-..    |.     
T Consensus       193 ~~Rakc~i~~~e~k~AI~Dlk~askLs-~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKl--dpdHK~Cf~~YKklkKv  269 (504)
T KOG0624|consen  193 QARAKCYIAEGEPKKAIHDLKQASKLS-QDNTEGHYKISQLLYTVGDAENSLKEIRECLKL--DPDHKLCFPFYKKLKKV  269 (504)
T ss_pred             HHHHHHHHhcCcHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHhhhhHHHHHHHHHHHHcc--CcchhhHHHHHHHHHHH
Confidence            888999999999999988777665543 336777777788888899999999999888764  455322    11     


Q ss_pred             --HH--HHHHHhcCChhHHHHHHHHHHHCCCC---CChhhHHHHHHHHHhccccccchhhhhhhhh
Q 046446          176 --TL--IHGFIRINEPSKVIELLHKMKEKNVM---PDASIVSIVVDLLAKNEISLNSLPSFTVHER  234 (244)
Q Consensus       176 --~l--~~~~~~~g~~~~a~~~~~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  234 (244)
                        .+  +......++|.++.+-.+...+....   .....+..+-.++...|++-+|++...+...
T Consensus       270 ~K~les~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~  335 (504)
T KOG0624|consen  270 VKSLESAEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLD  335 (504)
T ss_pred             HHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHHHHHHHHh
Confidence              11  12234567888888888777765433   1234555677788888888888887765543

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=97.86  E-value=0.01  Score=49.33  Aligned_cols=207  Identities=11%  Similarity=0.003  Sum_probs=126.7

Q ss_pred             CCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCc-cHHhH
Q 046446           26 GIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCEL-DIQAY  104 (244)
Q Consensus        26 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~  104 (244)
                      .+.-+...|..+--+....|+++.+.+.|++....-+ -....|+.+...|...|.-..|..+++.-....-.| ++..+
T Consensus       318 ~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~~-~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s~~  396 (799)
T KOG4162|consen  318 KFQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFSF-GEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDISVL  396 (799)
T ss_pred             hhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhh-hhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcchHH
Confidence            4456778888888888888999999888888766422 356778888888888888888888887654432123 33333


Q ss_pred             HHHHHHH-HcCCCHHHHHHHHHhcccC--C--ccccHHHHHHHHHHHHcc-----------CChHHHHHHHHHHHHcCCC
Q 046446          105 SCLIDGL-CKSGRLEIALELFHSLPRG--V--LVADVVTYSIMIHGLYND-----------GQMDKAHDLFLDMEENAVA  168 (244)
Q Consensus       105 ~~ll~~~-~~~~~~~~a~~~~~~~~~~--~--~~~~~~~~~~li~~~~~~-----------~~~~~a~~~~~~~~~~~~~  168 (244)
                      -..-..| -+.+..++++++-.+....  +  -......|..+.-+|...           ....++.+.+++..+.+..
T Consensus       397 Lmasklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d~~  476 (799)
T KOG4162|consen  397 LMASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFDPT  476 (799)
T ss_pred             HHHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcCCC
Confidence            3333333 3445566666655554431  1  011233344443333321           1234566666666654332


Q ss_pred             CcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchhhhhhhhh
Q 046446          169 PNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFTVHER  234 (244)
Q Consensus       169 p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  234 (244)
                       |+.....+.--|+..++.+.|.+..++..+.+-.-+...|..|.-.+...+++.+|+.+.+....
T Consensus       477 -dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~  541 (799)
T KOG4162|consen  477 -DPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALE  541 (799)
T ss_pred             -CchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHH
Confidence             22222233334556778888888888888775566777777777788888888777777665433

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

Probab=97.86  E-value=0.00054  Score=50.34  Aligned_cols=102  Identities=16%  Similarity=0.093  Sum_probs=77.2

Q ss_pred             HHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHH
Q 046446           40 GLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEI  119 (244)
Q Consensus        40 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~  119 (244)
                      -+.+.+++.+|+..|.+.++.. +-|++-|..=..+|++.|.++.|++-.+.....+ +....+|..|..+|...|++++
T Consensus        90 ~~m~~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iD-p~yskay~RLG~A~~~~gk~~~  167 (304)
T KOG0553|consen   90 KLMKNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALSID-PHYSKAYGRLGLAYLALGKYEE  167 (304)
T ss_pred             HHHHhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcC-hHHHHHHHHHHHHHHccCcHHH
Confidence            3456678888888888888862 3366667777888889998888888888877765 4567788888889999999999


Q ss_pred             HHHHHHhcccCCccccHHHHHHHHHH
Q 046446          120 ALELFHSLPRGVLVADVVTYSIMIHG  145 (244)
Q Consensus       120 a~~~~~~~~~~~~~~~~~~~~~li~~  145 (244)
                      |.+.|++..+.  .|+-.+|-.=+..
T Consensus       168 A~~aykKaLel--dP~Ne~~K~nL~~  191 (304)
T KOG0553|consen  168 AIEAYKKALEL--DPDNESYKSNLKI  191 (304)
T ss_pred             HHHHHHhhhcc--CCCcHHHHHHHHH
Confidence            99888888776  5666565444433

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

Probab=97.84  E-value=0.0004  Score=50.99  Aligned_cols=97  Identities=18%  Similarity=0.184  Sum_probs=79.8

Q ss_pred             hhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHH
Q 046446            6 YCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVES   85 (244)
Q Consensus         6 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   85 (244)
                      +.+.++|++|+..|.+.++.. +-|...|..=..+|++.|.++.|++-.+...... +--..+|..|..+|...|++++|
T Consensus        91 ~m~~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iD-p~yskay~RLG~A~~~~gk~~~A  168 (304)
T KOG0553|consen   91 LMKNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALSID-PHYSKAYGRLGLAYLALGKYEEA  168 (304)
T ss_pred             HHHhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcC-hHHHHHHHHHHHHHHccCcHHHH
Confidence            567899999999999999983 4466667778889999999999999988887752 22467899999999999999999


Q ss_pred             HHHHHHHHHhCCCccHHhHHH
Q 046446           86 VELFRTLRILKCELDIQAYSC  106 (244)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~  106 (244)
                      ++.|++..+.  .|+-.+|-.
T Consensus       169 ~~aykKaLel--dP~Ne~~K~  187 (304)
T KOG0553|consen  169 IEAYKKALEL--DPDNESYKS  187 (304)
T ss_pred             HHHHHhhhcc--CCCcHHHHH
Confidence            9999998875  466555543

>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A

Probab=97.83  E-value=0.00023  Score=40.78  Aligned_cols=52  Identities=15%  Similarity=0.194  Sum_probs=31.0

Q ss_pred             hhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHh
Q 046446           43 EIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRIL   95 (244)
Q Consensus        43 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~   95 (244)
                      ..|++++|+.+|+++.+... -+...+..+..+|.+.|++++|.++++++...
T Consensus         3 ~~~~~~~A~~~~~~~l~~~p-~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~   54 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQRNP-DNPEARLLLAQCYLKQGQYDEAEELLERLLKQ   54 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHHTT-TSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG
T ss_pred             hccCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            45666666666666665522 25555556666666666666666666666654

...

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=97.81  E-value=0.0002  Score=41.23  Aligned_cols=61  Identities=18%  Similarity=0.109  Sum_probs=26.9

Q ss_pred             hhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCC-cHHHHHHHHHHHH
Q 046446           32 VIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNG-YIVESVELFRTLR   93 (244)
Q Consensus        32 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~-~~~~a~~~~~~~~   93 (244)
                      ..|..+...+...|++++|+..|++..+.. +-+...|..+..++.+.| ++++|++.+++..
T Consensus         4 ~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~-p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al   65 (69)
T PF13414_consen    4 EAWYNLGQIYFQQGDYEEAIEYFEKAIELD-PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKAL   65 (69)
T ss_dssp             HHHHHHHHHHHHTTHHHHHHHHHHHHHHHS-TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHH
Confidence            344444444444444444444444444432 113334444444444444 3444444444443

...

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

Probab=97.77  E-value=0.00014  Score=41.33  Aligned_cols=52  Identities=12%  Similarity=0.266  Sum_probs=20.7

Q ss_pred             HhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHH
Q 046446           41 LFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLR   93 (244)
Q Consensus        41 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~   93 (244)
                      +.+.|++++|...|+++.+.. +-+...+..+..++...|++++|...|+++.
T Consensus         7 ~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~   58 (65)
T PF13432_consen    7 LYQQGDYDEAIAAFEQALKQD-PDNPEAWYLLGRILYQQGRYDEALAYYERAL   58 (65)
T ss_dssp             HHHCTHHHHHHHHHHHHHCCS-TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            333444444444444444332 1133334444444444444444444444443

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.76  E-value=0.0052  Score=42.27  Aligned_cols=132  Identities=11%  Similarity=0.008  Sum_probs=85.8

Q ss_pred             CCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCC---ccccHHH
Q 046446           62 VAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGV---LVADVVT  138 (244)
Q Consensus        62 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~  138 (244)
                      +.|+...-..|..+..+.|+..+|...|++...--+--|......+.++....+++..|...++.+.+.+   ..||  +
T Consensus        85 ~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd--~  162 (251)
T COG4700          85 IAPTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPD--G  162 (251)
T ss_pred             hchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCC--c
Confidence            4566666667777888888888888888887765455667777777777778888888888877766542   2233  3


Q ss_pred             HHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHH
Q 046446          139 YSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKM  197 (244)
Q Consensus       139 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~  197 (244)
                      .-.+.+.+...|.+.+|+.-|+.....-  |+...-......+.++|+..++..-+..+
T Consensus       163 ~Ll~aR~laa~g~~a~Aesafe~a~~~y--pg~~ar~~Y~e~La~qgr~~ea~aq~~~v  219 (251)
T COG4700         163 HLLFARTLAAQGKYADAESAFEVAISYY--PGPQARIYYAEMLAKQGRLREANAQYVAV  219 (251)
T ss_pred             hHHHHHHHHhcCCchhHHHHHHHHHHhC--CCHHHHHHHHHHHHHhcchhHHHHHHHHH
Confidence            4455677777788888888888777643  44333333333445666555554443333

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=97.75  E-value=0.00049  Score=39.53  Aligned_cols=65  Identities=22%  Similarity=0.173  Sum_probs=55.9

Q ss_pred             ChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCC-CHHHHHHHHHhcccC
Q 046446           65 DTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSG-RLEIALELFHSLPRG  130 (244)
Q Consensus        65 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~-~~~~a~~~~~~~~~~  130 (244)
                      ++.+|..+...+...|++++|+..|++..+.. +.+...|..+..+|...| ++++|.+.+++..+.
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~-p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l   67 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELD-PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKL   67 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHS-TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHc
Confidence            56788889999999999999999999999886 567888999999999999 799999999887653

...

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

Probab=97.74  E-value=0.00041  Score=39.35  Aligned_cols=54  Identities=9%  Similarity=0.167  Sum_probs=25.0

Q ss_pred             hhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHH
Q 046446            5 GYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQR   59 (244)
Q Consensus         5 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   59 (244)
                      .+.+.|++++|...|+.+.+.. +-+...+..+..++...|++++|...|+++.+
T Consensus         6 ~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~   59 (65)
T PF13432_consen    6 ALYQQGDYDEAIAAFEQALKQD-PDNPEAWYLLGRILYQQGRYDEALAYYERALE   59 (65)
T ss_dssp             HHHHCTHHHHHHHHHHHHHCCS-TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3444455555555555554442 22333444444444555555555555554443

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.74  E-value=0.011  Score=45.16  Aligned_cols=110  Identities=13%  Similarity=0.105  Sum_probs=85.6

Q ss_pred             HHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHH
Q 046446          101 IQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHG  180 (244)
Q Consensus       101 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~  180 (244)
                      ..+.+..+.-+...|+...|.++-.+..    .|+..-|-..+.+++..++|++..++...      +-++..|..++.+
T Consensus       177 ~~Sl~~Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~  246 (319)
T PF04840_consen  177 GLSLNDTIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEA  246 (319)
T ss_pred             cCCHHHHHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHH
Confidence            3455666777888899999998888775    47899999999999999999988876532      1245779999999


Q ss_pred             HHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchhhhh
Q 046446          181 FIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFT  230 (244)
Q Consensus       181 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  230 (244)
                      |.+.|...+|..+...     ++     +..-+..|.++|++.+|.+.--
T Consensus       247 ~~~~~~~~eA~~yI~k-----~~-----~~~rv~~y~~~~~~~~A~~~A~  286 (319)
T PF04840_consen  247 CLKYGNKKEASKYIPK-----IP-----DEERVEMYLKCGDYKEAAQEAF  286 (319)
T ss_pred             HHHCCCHHHHHHHHHh-----CC-----hHHHHHHHHHCCCHHHHHHHHH
Confidence            9999999999888776     22     2456788889999888866643

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

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=97.74  E-value=0.0067  Score=48.22  Aligned_cols=164  Identities=19%  Similarity=0.128  Sum_probs=109.8

Q ss_pred             hhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHH
Q 046446            5 GYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVE   84 (244)
Q Consensus         5 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~   84 (244)
                      +|.+.++++.|+..|.+.......|+.         ..+....++++...+...-.+... ..-...-...+.+.|++..
T Consensus       307 a~~k~~~~~~ai~~~~kaLte~Rt~~~---------ls~lk~~Ek~~k~~e~~a~~~pe~-A~e~r~kGne~Fk~gdy~~  376 (539)
T KOG0548|consen  307 AYTKREDYEGAIKYYQKALTEHRTPDL---------LSKLKEAEKALKEAERKAYINPEK-AEEEREKGNEAFKKGDYPE  376 (539)
T ss_pred             hhhhHHhHHHHHHHHHHHhhhhcCHHH---------HHHHHHHHHHHHHHHHHHhhChhH-HHHHHHHHHHHHhccCHHH
Confidence            566667777777777776554333221         233445555555555544332221 1222333667888999999


Q ss_pred             HHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHH
Q 046446           85 SVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEE  164 (244)
Q Consensus        85 a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  164 (244)
                      |+..|.+++... |-|...|..-..+|.+.|.+..|++--+...+.+ ++....|.-=..++....++++|.+.|++..+
T Consensus       377 Av~~YteAIkr~-P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~-p~~~kgy~RKg~al~~mk~ydkAleay~eale  454 (539)
T KOG0548|consen  377 AVKHYTEAIKRD-PEDARLYSNRAACYLKLGEYPEALKDAKKCIELD-PNFIKAYLRKGAALRAMKEYDKALEAYQEALE  454 (539)
T ss_pred             HHHHHHHHHhcC-CchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            999999999887 6788999999999999999999998888777763 33455555555666667789999999998887


Q ss_pred             cCCCCcHhHHHHHHHHHH
Q 046446          165 NAVAPNVITFGTLIHGFI  182 (244)
Q Consensus       165 ~~~~p~~~~~~~l~~~~~  182 (244)
                      ..  |+..-+.--+.-|.
T Consensus       455 ~d--p~~~e~~~~~~rc~  470 (539)
T KOG0548|consen  455 LD--PSNAEAIDGYRRCV  470 (539)
T ss_pred             cC--chhHHHHHHHHHHH
Confidence            53  55444443333333

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.72  E-value=0.0012  Score=47.84  Aligned_cols=138  Identities=14%  Similarity=0.054  Sum_probs=104.1

Q ss_pred             hhhhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHH-----HHHH
Q 046446            2 LINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIF-----IDGL   76 (244)
Q Consensus         2 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l-----l~~~   76 (244)
                      ++..+.-.|.+.-..+++.+.++...+.++.....+++.-.+.|+.+.|...|++..+..-..|..+.+.+     ...|
T Consensus       183 ~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a~i~  262 (366)
T KOG2796|consen  183 MANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSAFLH  262 (366)
T ss_pred             HHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhhhhe
Confidence            34555667788888899999988765667888888999999999999999999988765444444444433     3455


Q ss_pred             HhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHH
Q 046446           77 CKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIM  142 (244)
Q Consensus        77 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  142 (244)
                      ...+++..|...+.+....+ +.++...|.-.-+..-.|+..+|.+.++.+.+.  .|...+-+++
T Consensus       263 lg~nn~a~a~r~~~~i~~~D-~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~--~P~~~l~es~  325 (366)
T KOG2796|consen  263 LGQNNFAEAHRFFTEILRMD-PRNAVANNNKALCLLYLGKLKDALKQLEAMVQQ--DPRHYLHESV  325 (366)
T ss_pred             ecccchHHHHHHHhhccccC-CCchhhhchHHHHHHHHHHHHHHHHHHHHHhcc--CCccchhhhH
Confidence            66778889999998888776 467777777666777789999999999999987  4555444433

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.70  E-value=0.0034  Score=44.74  Aligned_cols=177  Identities=14%  Similarity=0.118  Sum_probs=99.8

Q ss_pred             hhhhhcCChhHHHHHHHHHHhCC--CCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCc
Q 046446            4 NGYCKNKEIEGALNLYSEMLSKG--IKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGY   81 (244)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~   81 (244)
                      ..+.+.|++.+|.+.|+.+...-  -+-.....-.++.++.+.|+++.|...+++..+.-..-....+...+.+.+....
T Consensus        13 ~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~A~Y~~g~~~~~~   92 (203)
T PF13525_consen   13 LEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALYMLGLSYYKQ   92 (203)
T ss_dssp             HHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHHHh
Confidence            35678999999999999998862  1222345567788899999999999999998876322222223323333221111


Q ss_pred             HHHHHHHHHHHHHhCC---CccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHH
Q 046446           82 IVESVELFRTLRILKC---ELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDL  158 (244)
Q Consensus        82 ~~~a~~~~~~~~~~~~---~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~  158 (244)
                      .....     ......   .--...+..++.-|-...-..+|...+..+...    =...--.+...|.+.|.+..|..-
T Consensus        93 ~~~~~-----~~~~D~~~~~~A~~~~~~li~~yP~S~y~~~A~~~l~~l~~~----la~~e~~ia~~Y~~~~~y~aA~~r  163 (203)
T PF13525_consen   93 IPGIL-----RSDRDQTSTRKAIEEFEELIKRYPNSEYAEEAKKRLAELRNR----LAEHELYIARFYYKRGKYKAAIIR  163 (203)
T ss_dssp             HHHHH------TT---HHHHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHH----HHHHHHHHHHHHHCTT-HHHHHHH
T ss_pred             Cccch-----hcccChHHHHHHHHHHHHHHHHCcCchHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHcccHHHHHHH
Confidence            11110     000000   001223445555555556666666666555432    111223356778899999999999


Q ss_pred             HHHHHHcCCCCcH----hHHHHHHHHHHhcCChhHHH
Q 046446          159 FLDMEENAVAPNV----ITFGTLIHGFIRINEPSKVI  191 (244)
Q Consensus       159 ~~~~~~~~~~p~~----~~~~~l~~~~~~~g~~~~a~  191 (244)
                      ++.+.+.=  |++    .....++.++.+.|..+.+.
T Consensus       164 ~~~v~~~y--p~t~~~~~al~~l~~~y~~l~~~~~a~  198 (203)
T PF13525_consen  164 FQYVIENY--PDTPAAEEALARLAEAYYKLGLKQAAD  198 (203)
T ss_dssp             HHHHHHHS--TTSHHHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             HHHHHHHC--CCCchHHHHHHHHHHHHHHhCChHHHH
Confidence            99988752  332    34566778888888877443

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

Probab=97.64  E-value=0.009  Score=44.23  Aligned_cols=102  Identities=14%  Similarity=0.065  Sum_probs=75.3

Q ss_pred             CccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHcc---CChHHHHHHHHHHHHcCCCCcHhHH
Q 046446           98 ELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYND---GQMDKAHDLFLDMEENAVAPNVITF  174 (244)
Q Consensus        98 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~---~~~~~a~~~~~~~~~~~~~p~~~~~  174 (244)
                      |-|...|-.|...|...|+++.|..-|.+..+.. +++...+..+..++...   ..-.++..+|+++..... -|..+.
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-GDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDP-ANIRAL  230 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCC-ccHHHH
Confidence            5678888888888888888888888888877653 44666666666665543   235578888888877543 266666


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHCC
Q 046446          175 GTLIHGFIRINEPSKVIELLHKMKEKN  201 (244)
Q Consensus       175 ~~l~~~~~~~g~~~~a~~~~~~~~~~~  201 (244)
                      ..+...+...|++.+|...|+.|.+..
T Consensus       231 ~lLA~~afe~g~~~~A~~~Wq~lL~~l  257 (287)
T COG4235         231 SLLAFAAFEQGDYAEAAAAWQMLLDLL  257 (287)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhcC
Confidence            777778888888888888888888764

>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=97.62  E-value=0.00031  Score=47.19  Aligned_cols=73  Identities=19%  Similarity=0.253  Sum_probs=54.2

Q ss_pred             hhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHH-----HhCCCccHHhHH
Q 046446           32 VIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLR-----ILKCELDIQAYS  105 (244)
Q Consensus        32 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~-----~~~~~~~~~~~~  105 (244)
                      .....++..+...|+++.|..+.+.+... -+.|...|..+|.++...|+...|.++|+++.     +.|+.|+..+-.
T Consensus        63 ~~~~~l~~~~~~~~~~~~a~~~~~~~l~~-dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~~  140 (146)
T PF03704_consen   63 DALERLAEALLEAGDYEEALRLLQRALAL-DPYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETRA  140 (146)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHH-STT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHHH
T ss_pred             HHHHHHHHHHHhccCHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHHH
Confidence            35667777888899999999999999887 34478899999999999999999999998874     358888877643

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

>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=97.62  E-value=0.0011  Score=43.16  Aligned_cols=48  Identities=13%  Similarity=0.100  Sum_probs=26.7

Q ss_pred             ccccHHHHHHHHHHHHccCChHHHHHHHHHHH-HcCCCCcHhHHHHHHH
Q 046446          132 LVADVVTYSIMIHGLYNDGQMDKAHDLFLDME-ENAVAPNVITFGTLIH  179 (244)
Q Consensus       132 ~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~-~~~~~p~~~~~~~l~~  179 (244)
                      ..|+..+..+++.+|+..|++..|.++++... ..+++.+..+|..|+.
T Consensus        48 l~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~   96 (126)
T PF12921_consen   48 LYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLE   96 (126)
T ss_pred             CCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            45555666666666666666666666655544 2344445555555554

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

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=97.61  E-value=0.0077  Score=51.58  Aligned_cols=183  Identities=10%  Similarity=-0.005  Sum_probs=129.5

Q ss_pred             HHHHHHHHHHHHHcCCCCC-hhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHH
Q 046446           47 VERAFKLFDEMQRDGVAAD-TRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFH  125 (244)
Q Consensus        47 ~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~  125 (244)
                      ...++..|-+..+.  .|+ ...|..|...|....|...|.+.|+..-+.+ ..+...+..+.+.|+...+++.|..+.-
T Consensus       474 ~~~al~ali~alrl--d~~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLD-atdaeaaaa~adtyae~~~we~a~~I~l  550 (1238)
T KOG1127|consen  474 SALALHALIRALRL--DVSLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELD-ATDAEAAAASADTYAEESTWEEAFEICL  550 (1238)
T ss_pred             HHHHHHHHHHHHhc--ccchhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC-chhhhhHHHHHHHhhccccHHHHHHHHH
Confidence            45555555444443  222 4568888888888888889999999888766 4577788889999999999999999844


Q ss_pred             hcccCC-ccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCC
Q 046446          126 SLPRGV-LVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMP  204 (244)
Q Consensus       126 ~~~~~~-~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  204 (244)
                      ..-+.. ...-...|....-.|...++...|..-|+......+. |...|..+..+|.++|++..|.++|.+....  +|
T Consensus       551 ~~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~dPk-D~n~W~gLGeAY~~sGry~~AlKvF~kAs~L--rP  627 (1238)
T KOG1127|consen  551 RAAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTDPK-DYNLWLGLGEAYPESGRYSHALKVFTKASLL--RP  627 (1238)
T ss_pred             HHhhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcCCch-hHHHHHHHHHHHHhcCceehHHHhhhhhHhc--Cc
Confidence            333321 1111223344445677888999999999888775433 7788999999999999999999999988764  45


Q ss_pred             ChhhHHHHHH--HHHhccccccchhhhhhhhhhh
Q 046446          205 DASIVSIVVD--LLAKNEISLNSLPSFTVHERQE  236 (244)
Q Consensus       205 ~~~~~~~l~~--~~~~~g~~~~a~~~~~~~~~~~  236 (244)
                      +. +|...-.  .-+..|++.+++..++.+....
T Consensus       628 ~s-~y~~fk~A~~ecd~GkYkeald~l~~ii~~~  660 (1238)
T KOG1127|consen  628 LS-KYGRFKEAVMECDNGKYKEALDALGLIIYAF  660 (1238)
T ss_pred             Hh-HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHH
Confidence            43 3333333  3355788899988888766543

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

Probab=97.60  E-value=0.008  Score=44.48  Aligned_cols=114  Identities=13%  Similarity=0.113  Sum_probs=85.7

Q ss_pred             CCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCC---CHHHHHHHHHhcccCCccccHHHH
Q 046446           63 AADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSG---RLEIALELFHSLPRGVLVADVVTY  139 (244)
Q Consensus        63 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~  139 (244)
                      +-|...|..|...|...|+.+.|..-|.+..+.. +++...+..+..++....   .-.++..+|+++...+ +-|+.+.
T Consensus       153 P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~-g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D-~~~iral  230 (287)
T COG4235         153 PGDAEGWDLLGRAYMALGRASDALLAYRNALRLA-GDNPEILLGLAEALYYQAGQQMTAKARALLRQALALD-PANIRAL  230 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcC-CccHHHH
Confidence            4478889999999999999999999999888765 567777777776665433   3567888999888775 4467777


Q ss_pred             HHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHH
Q 046446          140 SIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHG  180 (244)
Q Consensus       140 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~  180 (244)
                      ..|...+...|++.+|...|+.|.+..  |....+..++..
T Consensus       231 ~lLA~~afe~g~~~~A~~~Wq~lL~~l--p~~~~rr~~ie~  269 (287)
T COG4235         231 SLLAFAAFEQGDYAEAAAAWQMLLDLL--PADDPRRSLIER  269 (287)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhcC--CCCCchHHHHHH
Confidence            777788888999999999999988753  333345555543

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=97.58  E-value=0.003  Score=53.04  Aligned_cols=199  Identities=11%  Similarity=0.027  Sum_probs=120.7

Q ss_pred             hhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHc-C--------CCCChhHHHHHHHH
Q 046446            5 GYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRD-G--------VAADTRTYTIFIDG   75 (244)
Q Consensus         5 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~--------~~~~~~~~~~ll~~   75 (244)
                      .|..-|+.+.|.+-.+.++      +..+|..+.+.|.+..+++-|.-.+..|... |        -.|+ .+-..+.-.
T Consensus       737 fyvtiG~MD~AfksI~~Ik------S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~-e~eakvAvL  809 (1416)
T KOG3617|consen  737 FYVTIGSMDAAFKSIQFIK------SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGE-EDEAKVAVL  809 (1416)
T ss_pred             EEEEeccHHHHHHHHHHHh------hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCc-chhhHHHHH
Confidence            4556688888877766555      4467888888888887777666655555321 0        1121 222222233


Q ss_pred             HHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHH
Q 046446           76 LCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKA  155 (244)
Q Consensus        76 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a  155 (244)
                      ....|..++|+.+|.+-++.+         .|=..|-..|.+++|+++-+.-.+..   -..||......+-..++.+.|
T Consensus       810 AieLgMlEeA~~lYr~ckR~D---------LlNKlyQs~g~w~eA~eiAE~~DRiH---Lr~Tyy~yA~~Lear~Di~~A  877 (1416)
T KOG3617|consen  810 AIELGMLEEALILYRQCKRYD---------LLNKLYQSQGMWSEAFEIAETKDRIH---LRNTYYNYAKYLEARRDIEAA  877 (1416)
T ss_pred             HHHHhhHHHHHHHHHHHHHHH---------HHHHHHHhcccHHHHHHHHhhcccee---hhhhHHHHHHHHHhhccHHHH
Confidence            446788889999988877543         24456777889999988876544332   345677777777777888888


Q ss_pred             HHHHHHHHH----------cC---------CCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHH
Q 046446          156 HDLFLDMEE----------NA---------VAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLL  216 (244)
Q Consensus       156 ~~~~~~~~~----------~~---------~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  216 (244)
                      ++.|+....          ..         -..|...|..-...+-..|+.+.|+.+|....+         |-.+++..
T Consensus       878 leyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D---------~fs~VrI~  948 (1416)
T KOG3617|consen  878 LEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD---------YFSMVRIK  948 (1416)
T ss_pred             HHHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh---------hhhheeeE
Confidence            888764321          10         012344444444555556666666666665443         33455555


Q ss_pred             Hhccccccchhhhhh
Q 046446          217 AKNEISLNSLPSFTV  231 (244)
Q Consensus       217 ~~~g~~~~a~~~~~~  231 (244)
                      +-.|+.++|.++-++
T Consensus       949 C~qGk~~kAa~iA~e  963 (1416)
T KOG3617|consen  949 CIQGKTDKAARIAEE  963 (1416)
T ss_pred             eeccCchHHHHHHHh
Confidence            666777666665543

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.56  E-value=0.0021  Score=47.61  Aligned_cols=97  Identities=9%  Similarity=-0.015  Sum_probs=74.7

Q ss_pred             hhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCC----hhHHHHHHHHHHhCCcHHHHHHHHHHHHHhC--CCccHHhHH
Q 046446           32 VIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAAD----TRTYTIFIDGLCKNGYIVESVELFRTLRILK--CELDIQAYS  105 (244)
Q Consensus        32 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~  105 (244)
                      ..|...+....+.|++++|...|+.+.+..  |+    ...+..+..+|...|++++|...|+.+.+.-  -+....++-
T Consensus       144 ~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~y--P~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~  221 (263)
T PRK10803        144 TDYNAAIALVQDKSRQDDAIVAFQNFVKKY--PDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMF  221 (263)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHC--cCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHH
Confidence            446666655566789999999999998863  33    3577788899999999999999999998652  122355566


Q ss_pred             HHHHHHHcCCCHHHHHHHHHhcccC
Q 046446          106 CLIDGLCKSGRLEIALELFHSLPRG  130 (244)
Q Consensus       106 ~ll~~~~~~~~~~~a~~~~~~~~~~  130 (244)
                      .+...+...|+.++|..+|+.+.+.
T Consensus       222 klg~~~~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        222 KVGVIMQDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            6677788899999999999988876

>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=97.55  E-value=0.0035  Score=40.75  Aligned_cols=52  Identities=10%  Similarity=0.105  Sum_probs=31.1

Q ss_pred             CCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHC-CCCCChhhHHHHHHHHH
Q 046446          166 AVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEK-NVMPDASIVSIVVDLLA  217 (244)
Q Consensus       166 ~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~  217 (244)
                      ...|+..+..+++.+|+..|++..|.++.+...+. +++.+..+|..|++...
T Consensus        47 pl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~   99 (126)
T PF12921_consen   47 PLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWAY   99 (126)
T ss_pred             CCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            34566666666666666666666666666665543 55555666666665443

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

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

Probab=97.53  E-value=0.0021  Score=43.14  Aligned_cols=71  Identities=8%  Similarity=0.179  Sum_probs=37.6

Q ss_pred             HHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHH-----CCCCCChhhH
Q 046446          138 TYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKE-----KNVMPDASIV  209 (244)
Q Consensus       138 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-----~~~~~~~~~~  209 (244)
                      +...++..+...|++++|.++.+.+.... +.+...|..++.++...|+...|.+.|+++..     .|+.|+..+-
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~  139 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETR  139 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHH
Confidence            34445555566666666666666666542 23555666666666666666666666666542     3666665543

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

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.52  E-value=0.0041  Score=46.08  Aligned_cols=98  Identities=13%  Similarity=0.053  Sum_probs=76.9

Q ss_pred             hhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCcc----HHhHHHHHHHHHcCCCHHHHHHHHHhcccCC--ccccHHHH
Q 046446           66 TRTYTIFIDGLCKNGYIVESVELFRTLRILKCELD----IQAYSCLIDGLCKSGRLEIALELFHSLPRGV--LVADVVTY  139 (244)
Q Consensus        66 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~  139 (244)
                      ...|...+..+.+.|++++|...|+.+.+..  |+    ..++--+..+|...|++++|...|+.+....  -+.....+
T Consensus       143 ~~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~y--P~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl  220 (263)
T PRK10803        143 NTDYNAAIALVQDKSRQDDAIVAFQNFVKKY--PDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAM  220 (263)
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC--cCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHH
Confidence            3456666666677799999999999999864  33    3567788899999999999999999987542  12235566


Q ss_pred             HHHHHHHHccCChHHHHHHHHHHHHc
Q 046446          140 SIMIHGLYNDGQMDKAHDLFLDMEEN  165 (244)
Q Consensus       140 ~~li~~~~~~~~~~~a~~~~~~~~~~  165 (244)
                      ..+...+...|+.++|..+|+.+.+.
T Consensus       221 ~klg~~~~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        221 FKVGVIMQDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            66777888999999999999998875

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.50  E-value=0.0014  Score=38.03  Aligned_cols=56  Identities=18%  Similarity=0.186  Sum_probs=31.4

Q ss_pred             hhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHc
Q 046446            4 NGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRD   60 (244)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~   60 (244)
                      ..|.+.++++.|.++++.+...+ +.+...|.....++.+.|++++|...|++..+.
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~   58 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELD-PDDPELWLQRARCLFQLGRYEEALEDLERALEL   58 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhC-cccchhhHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence            34555666666666666665553 334444555555555666666666666655553

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.45  E-value=0.0012  Score=38.41  Aligned_cols=50  Identities=14%  Similarity=0.122  Sum_probs=18.9

Q ss_pred             hhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHH
Q 046446           43 EIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLR   93 (244)
Q Consensus        43 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~   93 (244)
                      +.++++.|.++++.+...+ +.+...+.....++.+.|++++|.+.+++..
T Consensus         7 ~~~~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l   56 (73)
T PF13371_consen    7 QQEDYEEALEVLERALELD-PDDPELWLQRARCLFQLGRYEEALEDLERAL   56 (73)
T ss_pred             hCCCHHHHHHHHHHHHHhC-cccchhhHHHHHHHHHhccHHHHHHHHHHHH
Confidence            3334444444444443331 1133333333333444444444444444433

>PRK15331 chaperone protein SicA; Provisional

Probab=97.44  E-value=0.0035  Score=42.29  Aligned_cols=91  Identities=8%  Similarity=-0.061  Sum_probs=64.4

Q ss_pred             HHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCH
Q 046446           38 FIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRL  117 (244)
Q Consensus        38 i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~  117 (244)
                      ...+...|++++|..+|.-+...+.- +..-|..|..++-..+.+++|...|...-..+. -|+..+-....+|...|+.
T Consensus        44 Ay~~y~~Gk~~eA~~~F~~L~~~d~~-n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~-~dp~p~f~agqC~l~l~~~  121 (165)
T PRK15331         44 AYEFYNQGRLDEAETFFRFLCIYDFY-NPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLK-NDYRPVFFTGQCQLLMRKA  121 (165)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc-CCCCccchHHHHHHHhCCH
Confidence            34455678888888888877665433 556666777777778888888888877665542 4444455567788888888


Q ss_pred             HHHHHHHHhcccC
Q 046446          118 EIALELFHSLPRG  130 (244)
Q Consensus       118 ~~a~~~~~~~~~~  130 (244)
                      +.|...|+.....
T Consensus       122 ~~A~~~f~~a~~~  134 (165)
T PRK15331        122 AKARQCFELVNER  134 (165)
T ss_pred             HHHHHHHHHHHhC
Confidence            8888888877764

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.41  E-value=0.034  Score=42.54  Aligned_cols=110  Identities=11%  Similarity=0.110  Sum_probs=86.7

Q ss_pred             hHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHH
Q 046446           67 RTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGL  146 (244)
Q Consensus        67 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  146 (244)
                      .+.+.-+.-+...|....|.++-.+..    .|+...|...+.+++..++|++-.++-.. .     -++.-|...+.+|
T Consensus       178 ~Sl~~Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s-k-----KsPIGyepFv~~~  247 (319)
T PF04840_consen  178 LSLNDTIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS-K-----KSPIGYEPFVEAC  247 (319)
T ss_pred             CCHHHHHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC-C-----CCCCChHHHHHHH
Confidence            355556677788899888888877663    48999999999999999999988776543 1     1357899999999


Q ss_pred             HccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHH
Q 046446          147 YNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHK  196 (244)
Q Consensus       147 ~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~  196 (244)
                      ...|+..+|..++..+          .+..-+..|.+.|++.+|.+...+
T Consensus       248 ~~~~~~~eA~~yI~k~----------~~~~rv~~y~~~~~~~~A~~~A~~  287 (319)
T PF04840_consen  248 LKYGNKKEASKYIPKI----------PDEERVEMYLKCGDYKEAAQEAFK  287 (319)
T ss_pred             HHCCCHHHHHHHHHhC----------ChHHHHHHHHHCCCHHHHHHHHHH
Confidence            9999999999888761          135567888999999999876544

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

>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=97.37  E-value=0.001  Score=39.25  Aligned_cols=61  Identities=16%  Similarity=0.175  Sum_probs=32.4

Q ss_pred             hHHHHHHHHhhhchHHHHHHHHHHHHHc----CCC-CC-hhHHHHHHHHHHhCCcHHHHHHHHHHHH
Q 046446           33 IHNTLFIGLFEIHQVERAFKLFDEMQRD----GVA-AD-TRTYTIFIDGLCKNGYIVESVELFRTLR   93 (244)
Q Consensus        33 ~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~-~~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~   93 (244)
                      +|+.+...|...|++++|+..|++..+.    |.. |+ ..+++.+..++...|++++|++.+++..
T Consensus         7 ~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al   73 (78)
T PF13424_consen    7 AYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKAL   73 (78)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4555566666666666666666655432    110 11 3345555566666666666666665543

...

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=97.21  E-value=0.066  Score=41.64  Aligned_cols=166  Identities=12%  Similarity=-0.006  Sum_probs=83.8

Q ss_pred             HHHHHHHHHHhCCcHHHHHHHHHHHHHhC---CCccHHhHHHHHHHHHc---CCCHHHHHHHHHhcccCCccccHHHHHH
Q 046446           68 TYTIFIDGLCKNGYIVESVELFRTLRILK---CELDIQAYSCLIDGLCK---SGRLEIALELFHSLPRGVLVADVVTYSI  141 (244)
Q Consensus        68 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~ll~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~  141 (244)
                      +...++-+|-...+++...++++.+....   +.-+...--...-++.+   .|+.++|++++..+......++..+|..
T Consensus       143 iv~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL  222 (374)
T PF13281_consen  143 IVINLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGL  222 (374)
T ss_pred             HHHHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHH
Confidence            33445556777777777777777776542   11122222233445555   6777777777777444444566677776


Q ss_pred             HHHHHHc---------cCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCC-hh---HHHHHH---H-HHHHCC---
Q 046446          142 MIHGLYN---------DGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINE-PS---KVIELL---H-KMKEKN---  201 (244)
Q Consensus       142 li~~~~~---------~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~-~~---~a~~~~---~-~~~~~~---  201 (244)
                      +...|-.         ....++|...|.+.-+.  .||..+=-.++..+...|. ++   +..++-   . .+.++|   
T Consensus       223 ~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~--~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~  300 (374)
T PF13281_consen  223 LGRIYKDLFLESNFTDRESLDKAIEWYRKGFEI--EPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLE  300 (374)
T ss_pred             HHHHHHHHHHHcCccchHHHHHHHHHHHHHHcC--CccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhcccc
Confidence            6665543         11245555555544332  2333222222222222222 11   112221   1 111222   


Q ss_pred             CCCChhhHHHHHHHHHhccccccchhhhhhhhhh
Q 046446          202 VMPDASIVSIVVDLLAKNEISLNSLPSFTVHERQ  235 (244)
Q Consensus       202 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  235 (244)
                      -..+-..+..++.+..-.|+.++|.+..+.+.+.
T Consensus       301 ~~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l  334 (374)
T PF13281_consen  301 KMQDYWDVATLLEASVLAGDYEKAIQAAEKAFKL  334 (374)
T ss_pred             ccccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc
Confidence            2334555666777777777777777777766543

>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=97.20  E-value=0.0013  Score=38.81  Aligned_cols=61  Identities=15%  Similarity=0.153  Sum_probs=38.1

Q ss_pred             hHHHHHHHHHHhCCcHHHHHHHHHHHHHh----CC-Cc-cHHhHHHHHHHHHcCCCHHHHHHHHHhc
Q 046446           67 RTYTIFIDGLCKNGYIVESVELFRTLRIL----KC-EL-DIQAYSCLIDGLCKSGRLEIALELFHSL  127 (244)
Q Consensus        67 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~-~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~  127 (244)
                      .+++.+...|...|++++|+..|++..+.    |- .| ...++..+..+|...|++++|++.+++.
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~a   72 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKA   72 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            45667777777777777777777766542    10 11 1445666666777777777777766654

...

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=97.20  E-value=0.041  Score=44.13  Aligned_cols=130  Identities=15%  Similarity=0.143  Sum_probs=60.7

Q ss_pred             hHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHH
Q 046446           33 IHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLC  112 (244)
Q Consensus        33 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~  112 (244)
                      ..+.++..+-+.|..+.|+.+-.+-..            -.....+.|+.+.|.++.++      ..+...|..|.....
T Consensus       297 ~~~~i~~fL~~~G~~e~AL~~~~D~~~------------rFeLAl~lg~L~~A~~~a~~------~~~~~~W~~Lg~~AL  358 (443)
T PF04053_consen  297 QGQSIARFLEKKGYPELALQFVTDPDH------------RFELALQLGNLDIALEIAKE------LDDPEKWKQLGDEAL  358 (443)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHSS-HHH------------HHHHHHHCT-HHHHHHHCCC------CSTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHhhcCChHH------------HhHHHHhcCCHHHHHHHHHh------cCcHHHHHHHHHHHH
Confidence            345555555555555555544322211            12233345555555544332      234556666666666


Q ss_pred             cCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHH
Q 046446          113 KSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIE  192 (244)
Q Consensus       113 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~  192 (244)
                      +.|+++-|++.|++...         |..|+-.|.-.|+.+...++.+.....|-      ++..+.++.-.|+.++..+
T Consensus       359 ~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~~~~~------~n~af~~~~~lgd~~~cv~  423 (443)
T PF04053_consen  359 RQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAEERGD------INIAFQAALLLGDVEECVD  423 (443)
T ss_dssp             HTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHTT-------HHHHHHHHHHHT-HHHHHH
T ss_pred             HcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHHHccC------HHHHHHHHHHcCCHHHHHH
Confidence            66666666666655543         33444455555555555555554444321      3334444444555555554


Q ss_pred             HHH
Q 046446          193 LLH  195 (244)
Q Consensus       193 ~~~  195 (244)
                      ++.
T Consensus       424 lL~  426 (443)
T PF04053_consen  424 LLI  426 (443)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            443

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.

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.17  E-value=0.064  Score=40.67  Aligned_cols=152  Identities=11%  Similarity=0.019  Sum_probs=100.2

Q ss_pred             hcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHc---CCCCChhHHHHHHHHHHhCCcHHH
Q 046446            8 KNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRD---GVAADTRTYTIFIDGLCKNGYIVE   84 (244)
Q Consensus         8 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~---~~~~~~~~~~~ll~~~~~~~~~~~   84 (244)
                      -.|++.+|-..|+++.+. .|.|...++..=.+|.-.|+-+.....++++...   +++..+.+-....-++...|-+++
T Consensus       115 ~~g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~wn~dlp~~sYv~GmyaFgL~E~g~y~d  193 (491)
T KOG2610|consen  115 GRGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGIYDD  193 (491)
T ss_pred             ccccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhccchh
Confidence            457777777778887775 3556667777777888888888887777777654   222222222333344456788888


Q ss_pred             HHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCcc---ccHHHHHHHHHHHHccCChHHHHHHHHH
Q 046446           85 SVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLV---ADVVTYSIMIHGLYNDGQMDKAHDLFLD  161 (244)
Q Consensus        85 a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~  161 (244)
                      |++.-++..+.+ +.|..+..++...+-..|+.+++.+++.+-...-..   .-...|=...-.+...+.++.|+++|+.
T Consensus       194 AEk~A~ralqiN-~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIyD~  272 (491)
T KOG2610|consen  194 AEKQADRALQIN-RFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYDR  272 (491)
T ss_pred             HHHHHHhhccCC-CcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHHH
Confidence            888888887766 567777788888888888888888887765543111   1112222333345556888888888875

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.09  E-value=0.033  Score=45.87  Aligned_cols=90  Identities=12%  Similarity=0.087  Sum_probs=60.2

Q ss_pred             cHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCh--------
Q 046446          135 DVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDA--------  206 (244)
Q Consensus       135 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~--------  206 (244)
                      +..+...+...+.+...+.-|-++|..|-+         ...++......++|.+|..+.+...+.  .||.        
T Consensus       746 ere~l~~~a~ylk~l~~~gLAaeIF~k~gD---------~ksiVqlHve~~~W~eAFalAe~hPe~--~~dVy~pyaqwL  814 (1081)
T KOG1538|consen  746 EREPLLLCATYLKKLDSPGLAAEIFLKMGD---------LKSLVQLHVETQRWDEAFALAEKHPEF--KDDVYMPYAQWL  814 (1081)
T ss_pred             hhhHHHHHHHHHhhccccchHHHHHHHhcc---------HHHHhhheeecccchHhHhhhhhCccc--cccccchHHHHh
Confidence            344555555556667777788888877754         245677778889999999888776542  3332        


Q ss_pred             ---hhHHHHHHHHHhccccccchhhhhhhhhh
Q 046446          207 ---SIVSIVVDLLAKNEISLNSLPSFTVHERQ  235 (244)
Q Consensus       207 ---~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  235 (244)
                         .-|.---++|.++|+..+|.++++++...
T Consensus       815 AE~DrFeEAqkAfhkAGr~~EA~~vLeQLtnn  846 (1081)
T KOG1538|consen  815 AENDRFEEAQKAFHKAGRQREAVQVLEQLTNN  846 (1081)
T ss_pred             hhhhhHHHHHHHHHHhcchHHHHHHHHHhhhh
Confidence               12333445788888888888888776543

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.07  E-value=0.0074  Score=46.74  Aligned_cols=231  Identities=15%  Similarity=0.090  Sum_probs=139.5

Q ss_pred             hhhcCChhHHHHHHHHHHhCCCCCC----hhhHHHHHHHHhhhchHHHHHHHHHHH--HHc------CCCC---------
Q 046446            6 YCKNKEIEGALNLYSEMLSKGIKPD----VVIHNTLFIGLFEIHQVERAFKLFDEM--QRD------GVAA---------   64 (244)
Q Consensus         6 ~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~li~~~~~~~~~~~a~~~~~~m--~~~------~~~~---------   64 (244)
                      +++.|+....+..|+...+.| .-|    ...|..|.++|.-.+++++|+++...=  ..+      |-.-         
T Consensus        27 Lck~gdcraGv~ff~aA~qvG-TeDl~tLSAIYsQLGNAyfyL~DY~kAl~yH~hDltlar~lgdklGEAKssgNLGNtl  105 (639)
T KOG1130|consen   27 LCKMGDCRAGVDFFKAALQVG-TEDLSTLSAIYSQLGNAYFYLKDYEKALKYHTHDLTLARLLGDKLGEAKSSGNLGNTL  105 (639)
T ss_pred             HHhccchhhhHHHHHHHHHhc-chHHHHHHHHHHHhcchhhhHhhHHHHHhhhhhhHHHHHHhcchhccccccccccchh
Confidence            678999999999999999987 233    345677778888888999998875431  110      1000         


Q ss_pred             ----------------------------ChhHHHHHHHHHHhCCc--------------------HHHHHHHHHHHHH--
Q 046446           65 ----------------------------DTRTYTIFIDGLCKNGY--------------------IVESVELFRTLRI--   94 (244)
Q Consensus        65 ----------------------------~~~~~~~ll~~~~~~~~--------------------~~~a~~~~~~~~~--   94 (244)
                                                  ....+..+...|...|+                    ++.|.++|.+-.+  
T Consensus       106 Kv~G~fdeA~~cc~rhLd~areLgDrv~e~RAlYNlgnvYhakGk~~g~~~pee~g~f~~ev~~al~~Av~fy~eNL~l~  185 (639)
T KOG1130|consen  106 KVKGAFDEALTCCFRHLDFARELGDRVLESRALYNLGNVYHAKGKCTGLEAPEEKGAFNAEVTSALENAVKFYMENLELS  185 (639)
T ss_pred             hhhcccchHHHHHHHHhHHHHHHhHHHhhhHHHhhhhhhhhhcccccCCCChhhcccccHHHHHHHHHHHHHHHHHHHHH
Confidence                                        01112222222222221                    1222223222111  


Q ss_pred             --hCC-CccHHhHHHHHHHHHcCCCHHHHHHHHHhc----ccCCc-cccHHHHHHHHHHHHccCChHHHHHHHHHHH---
Q 046446           95 --LKC-ELDIQAYSCLIDGLCKSGRLEIALELFHSL----PRGVL-VADVVTYSIMIHGLYNDGQMDKAHDLFLDME---  163 (244)
Q Consensus        95 --~~~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~---  163 (244)
                        .|- -.-...|..|.+.|.-.|+++.|...-+.-    .+.|- ......+..+.+++.-.|+++.|.+.|+...   
T Consensus       186 ~~lgDr~aqGRa~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LA  265 (639)
T KOG1130|consen  186 EKLGDRLAQGRAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLA  265 (639)
T ss_pred             HHhhhHHhhcchhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHH
Confidence              110 012233455555555667888887665432    22221 1234567788888888999999999887643   


Q ss_pred             -HcCC-CCcHhHHHHHHHHHHhcCChhHHHHHHHHHHH----C-CCCCChhhHHHHHHHHHhccccccchhhhhhhhhhh
Q 046446          164 -ENAV-APNVITFGTLIHGFIRINEPSKVIELLHKMKE----K-NVMPDASIVSIVVDLLAKNEISLNSLPSFTVHERQE  236 (244)
Q Consensus       164 -~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~----~-~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  236 (244)
                       +.|- .....+..+|...|.-..++++|+.++.+-..    . ...-....+.+|..+|...|..++|+.+.+...+..
T Consensus       266 ielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~~s  345 (639)
T KOG1130|consen  266 IELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLRSS  345 (639)
T ss_pred             HHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHH
Confidence             2221 12344566677777777888999888776432    1 122356788899999999999999999988877654


Q ss_pred             c
Q 046446          237 E  237 (244)
Q Consensus       237 ~  237 (244)
                      .
T Consensus       346 ~  346 (639)
T KOG1130|consen  346 L  346 (639)
T ss_pred             H
Confidence            3

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=97.04  E-value=0.043  Score=43.39  Aligned_cols=64  Identities=14%  Similarity=0.037  Sum_probs=38.9

Q ss_pred             ChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccH----HhHHHHHHHHHcCCCHHHHHHHHHhcccC
Q 046446           65 DTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDI----QAYSCLIDGLCKSGRLEIALELFHSLPRG  130 (244)
Q Consensus        65 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  130 (244)
                      +...++.+..+|.+.|++++|+..|++..+.+  |+.    .+|..+..+|...|+.++|...+++..+.
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~--Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALELN--PNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            34556666666666666666666666665543  332    24666666666666666666666666553

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=97.03  E-value=0.05  Score=43.63  Aligned_cols=157  Identities=13%  Similarity=0.159  Sum_probs=104.9

Q ss_pred             HhhhchHHHHHHHHH--HHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHH
Q 046446           41 LFEIHQVERAFKLFD--EMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLE  118 (244)
Q Consensus        41 ~~~~~~~~~a~~~~~--~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~  118 (244)
                      ..-.++++.+.+..+  ++.. .+  +..-.+.++..+.+.|..+.|+++...-.            .-.....+.|+++
T Consensus       271 av~~~d~~~v~~~i~~~~ll~-~i--~~~~~~~i~~fL~~~G~~e~AL~~~~D~~------------~rFeLAl~lg~L~  335 (443)
T PF04053_consen  271 AVLRGDFEEVLRMIAASNLLP-NI--PKDQGQSIARFLEKKGYPELALQFVTDPD------------HRFELALQLGNLD  335 (443)
T ss_dssp             HHHTT-HHH-----HHHHTGG-G----HHHHHHHHHHHHHTT-HHHHHHHSS-HH------------HHHHHHHHCT-HH
T ss_pred             HHHcCChhhhhhhhhhhhhcc-cC--ChhHHHHHHHHHHHCCCHHHHHhhcCChH------------HHhHHHHhcCCHH
Confidence            334578888777664  1121 12  24557788888999999999998765422            2245667889999


Q ss_pred             HHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHH
Q 046446          119 IALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMK  198 (244)
Q Consensus       119 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  198 (244)
                      .|.++.++..      +...|..|.....+.|+++-|++.|....+         |..|+-.|.-.|+.+...++.+...
T Consensus       336 ~A~~~a~~~~------~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~  400 (443)
T PF04053_consen  336 IALEIAKELD------DPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAE  400 (443)
T ss_dssp             HHHHHCCCCS------THHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHhcC------cHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHH
Confidence            9988765554      677999999999999999999999987654         6777778888899888888888777


Q ss_pred             HCCCCCChhhHHHHHHHHHhccccccchhhhhhhh
Q 046446          199 EKNVMPDASIVSIVVDLLAKNEISLNSLPSFTVHE  233 (244)
Q Consensus       199 ~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  233 (244)
                      ..|-      ++....++.-.|+.++..+++....
T Consensus       401 ~~~~------~n~af~~~~~lgd~~~cv~lL~~~~  429 (443)
T PF04053_consen  401 ERGD------INIAFQAALLLGDVEECVDLLIETG  429 (443)
T ss_dssp             HTT-------HHHHHHHHHHHT-HHHHHHHHHHTT
T ss_pred             HccC------HHHHHHHHHHcCCHHHHHHHHHHcC
Confidence            7652      4455556666777777777765443

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.

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.01  E-value=0.042  Score=41.62  Aligned_cols=152  Identities=13%  Similarity=0.027  Sum_probs=100.5

Q ss_pred             hchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHh---CCCccHHhHHHHHHHHHcCCCHHHH
Q 046446           44 IHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRIL---KCELDIQAYSCLIDGLCKSGRLEIA  120 (244)
Q Consensus        44 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~ll~~~~~~~~~~~a  120 (244)
                      .|+..+|-..++++.+. .+.|...+...=++|.-.|+...-...++++...   +.|-.......+.-++..+|-+++|
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            45566666667777665 4556777777778888888888888888877654   2222233334445556678889999


Q ss_pred             HHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHc---CCCCcHhHHHHHHHHHHhcCChhHHHHHHHHH
Q 046446          121 LELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEEN---AVAPNVITFGTLIHGFIRINEPSKVIELLHKM  197 (244)
Q Consensus       121 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~---~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~  197 (244)
                      ++.-++..+.+ +.|.-.-.+....+-..|++.++.++..+-...   +...-.+.|-...-.+...+.++.|+++|+.-
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 EKQADRALQIN-RFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYDRE  273 (491)
T ss_pred             HHHHHhhccCC-CcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHHHH
Confidence            98888888776 446666677777777888888888877654321   11112233434444556678889999988753

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=96.98  E-value=0.05  Score=36.15  Aligned_cols=43  Identities=9%  Similarity=0.023  Sum_probs=21.8

Q ss_pred             HHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhC
Q 046446           36 TLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKN   79 (244)
Q Consensus        36 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~   79 (244)
                      .++..+.+.+.......+++.+...+. .+....+.++..|++.
T Consensus        12 ~vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~~   54 (140)
T smart00299       12 EVVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAKY   54 (140)
T ss_pred             HHHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHHH
Confidence            444445444555555555555554442 3444555555555543

>PRK15331 chaperone protein SicA; Provisional

Probab=96.95  E-value=0.059  Score=36.53  Aligned_cols=86  Identities=15%  Similarity=-0.021  Sum_probs=45.3

Q ss_pred             HcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHH
Q 046446          112 CKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVI  191 (244)
Q Consensus       112 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~  191 (244)
                      ...|++++|..+|.-+.-.+ +-+..-|..|...+-..+++++|...|......+. -|+..+-....++...|+.+.|.
T Consensus        48 y~~Gk~~eA~~~F~~L~~~d-~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~-~dp~p~f~agqC~l~l~~~~~A~  125 (165)
T PRK15331         48 YNQGRLDEAETFFRFLCIYD-FYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLK-NDYRPVFFTGQCQLLMRKAAKAR  125 (165)
T ss_pred             HHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc-CCCCccchHHHHHHHhCCHHHHH
Confidence            34566666666666554433 22344455555555556666666666655443322 23333444455556666666666


Q ss_pred             HHHHHHHH
Q 046446          192 ELLHKMKE  199 (244)
Q Consensus       192 ~~~~~~~~  199 (244)
                      ..|....+
T Consensus       126 ~~f~~a~~  133 (165)
T PRK15331        126 QCFELVNE  133 (165)
T ss_pred             HHHHHHHh
Confidence            66655554

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=96.95  E-value=0.011  Score=43.55  Aligned_cols=87  Identities=10%  Similarity=0.145  Sum_probs=51.3

Q ss_pred             ChhHHHHHHHHHHh-----CCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCC----------------CHHHHHHH
Q 046446           65 DTRTYTIFIDGLCK-----NGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSG----------------RLEIALEL  123 (244)
Q Consensus        65 ~~~~~~~ll~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~----------------~~~~a~~~  123 (244)
                      |..+|-..+..+..     .+.++-....++.|.+.|+..|..+|+.|++.+-+-.                +-+-+.++
T Consensus        66 dK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~I~v  145 (406)
T KOG3941|consen   66 DKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAIKV  145 (406)
T ss_pred             cHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHHHH
Confidence            44455555444432     2445555555666666666666666666666554321                12345666


Q ss_pred             HHhcccCCccccHHHHHHHHHHHHccCC
Q 046446          124 FHSLPRGVLVADVVTYSIMIHGLYNDGQ  151 (244)
Q Consensus       124 ~~~~~~~~~~~~~~~~~~li~~~~~~~~  151 (244)
                      +++|...|+.||..+-..+++++++.+-
T Consensus       146 LeqME~hGVmPdkE~e~~lvn~FGr~~~  173 (406)
T KOG3941|consen  146 LEQMEWHGVMPDKEIEDILVNAFGRWNF  173 (406)
T ss_pred             HHHHHHcCCCCchHHHHHHHHHhccccc
Confidence            7777777777777777777777766554

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.93  E-value=0.053  Score=41.99  Aligned_cols=62  Identities=15%  Similarity=0.033  Sum_probs=38.6

Q ss_pred             HHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccC
Q 046446           68 TYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRG  130 (244)
Q Consensus        68 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  130 (244)
                      ++..+..++.+.+++..|++........+ ++|.-..-.-..+|...|+++.|...|+.+.+.
T Consensus       259 ~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~-~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~  320 (397)
T KOG0543|consen  259 CHLNLAACYLKLKEYKEAIESCNKVLELD-PNNVKALYRRGQALLALGEYDLARDDFQKALKL  320 (397)
T ss_pred             HhhHHHHHHHhhhhHHHHHHHHHHHHhcC-CCchhHHHHHHHHHHhhccHHHHHHHHHHHHHh
Confidence            45555666666666666666666666655 455555555566666666666666666666655

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.89  E-value=0.031  Score=44.19  Aligned_cols=66  Identities=17%  Similarity=0.020  Sum_probs=57.9

Q ss_pred             CccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccH----HHHHHHHHHHHccCChHHHHHHHHHHHHc
Q 046446           98 ELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADV----VTYSIMIHGLYNDGQMDKAHDLFLDMEEN  165 (244)
Q Consensus        98 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~li~~~~~~~~~~~a~~~~~~~~~~  165 (244)
                      +.+...++.+..+|...|++++|...|++..+.+  |+.    .+|..+..+|...|+.++|...++...+.
T Consensus        72 P~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~--Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         72 VKTAEDAVNLGLSLFSKGRVKDALAQFETALELN--PNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            4567889999999999999999999999988774  553    45999999999999999999999998874

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=96.87  E-value=0.14  Score=39.71  Aligned_cols=81  Identities=19%  Similarity=0.092  Sum_probs=48.7

Q ss_pred             hchHHHHHHHHHHHHHcCCCCChhH--HHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHH
Q 046446           44 IHQVERAFKLFDEMQRDGVAADTRT--YTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIAL  121 (244)
Q Consensus        44 ~~~~~~a~~~~~~m~~~~~~~~~~~--~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~  121 (244)
                      .|+++.|.+-|+.|...   |....  ...|.-.-.+.|+.+.|.++-++.-..- +.-...+.+.+...+..|+++.|+
T Consensus       133 eG~~~~Ar~kfeAMl~d---PEtRllGLRgLyleAqr~GareaAr~yAe~Aa~~A-p~l~WA~~AtLe~r~~~gdWd~Al  208 (531)
T COG3898         133 EGDYEDARKKFEAMLDD---PETRLLGLRGLYLEAQRLGAREAARHYAERAAEKA-PQLPWAARATLEARCAAGDWDGAL  208 (531)
T ss_pred             cCchHHHHHHHHHHhcC---hHHHHHhHHHHHHHHHhcccHHHHHHHHHHHHhhc-cCCchHHHHHHHHHHhcCChHHHH
Confidence            47777777777777653   22221  2233333445677777776666655443 334556677777777777777777


Q ss_pred             HHHHhcc
Q 046446          122 ELFHSLP  128 (244)
Q Consensus       122 ~~~~~~~  128 (244)
                      ++++.-.
T Consensus       209 kLvd~~~  215 (531)
T COG3898         209 KLVDAQR  215 (531)
T ss_pred             HHHHHHH
Confidence            7776543

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=96.86  E-value=0.08  Score=36.71  Aligned_cols=151  Identities=11%  Similarity=0.036  Sum_probs=103.7

Q ss_pred             HHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccC
Q 046446           71 IFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDG  150 (244)
Q Consensus        71 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~  150 (244)
                      .+..+..+.-|++...+-..+-.  ..-|+...--.|..+....|+..+|...|++....-.-.|....-.+.++....+
T Consensus        61 ~~~~a~~q~ldP~R~~Rea~~~~--~~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~  138 (251)
T COG4700          61 TLLMALQQKLDPERHLREATEEL--AIAPTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQ  138 (251)
T ss_pred             HHHHHHHHhcChhHHHHHHHHHH--hhchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhc
Confidence            34444555555555443333222  2357777777788888899999999999988887666667888888888888889


Q ss_pred             ChHHHHHHHHHHHHcCC-CCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccc
Q 046446          151 QMDKAHDLFLDMEENAV-APNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNS  225 (244)
Q Consensus       151 ~~~~a~~~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  225 (244)
                      ++..|...++.+-+... .-++.+.-.+.+.+...|++.+|+.-|+.....  -|+......-...+.+.|+..++
T Consensus       139 ~~A~a~~tLe~l~e~~pa~r~pd~~Ll~aR~laa~g~~a~Aesafe~a~~~--ypg~~ar~~Y~e~La~qgr~~ea  212 (251)
T COG4700         139 EFAAAQQTLEDLMEYNPAFRSPDGHLLFARTLAAQGKYADAESAFEVAISY--YPGPQARIYYAEMLAKQGRLREA  212 (251)
T ss_pred             cHHHHHHHHHHHhhcCCccCCCCchHHHHHHHHhcCCchhHHHHHHHHHHh--CCCHHHHHHHHHHHHHhcchhHH
Confidence            99999998888776431 112334455677888889988888888888775  35555444455566777766544

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.85  E-value=0.15  Score=39.70  Aligned_cols=168  Identities=13%  Similarity=0.058  Sum_probs=106.4

Q ss_pred             hhHHHHHHHHhhhchHHHHHHHHHHHHHcC---CCCChhHHHHHHHHHHh---CCcHHHHHHHHHHHHHhCCCccHHhHH
Q 046446           32 VIHNTLFIGLFEIHQVERAFKLFDEMQRDG---VAADTRTYTIFIDGLCK---NGYIVESVELFRTLRILKCELDIQAYS  105 (244)
Q Consensus        32 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~---~~~~~~~~~~ll~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~  105 (244)
                      .+...++-+|....+++..+++.+.+....   +.-...+-....-++.+   .|+.++|++++..+....-.+++.+|.
T Consensus       142 div~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~g  221 (374)
T PF13281_consen  142 DIVINLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLG  221 (374)
T ss_pred             hHHHHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHH
Confidence            334455567889999999999999998752   11122222234445556   899999999999966656678899998


Q ss_pred             HHHHHHHc---------CCCHHHHHHHHHhcccCCccccHH---HHHHHHHHHHccC-ChHHHHHHH---H-HHHHcCC-
Q 046446          106 CLIDGLCK---------SGRLEIALELFHSLPRGVLVADVV---TYSIMIHGLYNDG-QMDKAHDLF---L-DMEENAV-  167 (244)
Q Consensus       106 ~ll~~~~~---------~~~~~~a~~~~~~~~~~~~~~~~~---~~~~li~~~~~~~-~~~~a~~~~---~-~~~~~~~-  167 (244)
                      .+.+.|-.         ...+++|...|.+.-+..  |+..   -+-+|+....... .-.+..++-   . ...+.|. 
T Consensus       222 L~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~~--~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~  299 (374)
T PF13281_consen  222 LLGRIYKDLFLESNFTDRESLDKAIEWYRKGFEIE--PDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSL  299 (374)
T ss_pred             HHHHHHHHHHHHcCccchHHHHHHHHHHHHHHcCC--ccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhccc
Confidence            88877642         224778888888765442  3322   2233333322211 111222222   1 1223332 


Q ss_pred             --CCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCC
Q 046446          168 --APNVITFGTLIHGFIRINEPSKVIELLHKMKEKN  201 (244)
Q Consensus       168 --~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  201 (244)
                        ..+--.+.+++.++.-.|+.++|.+..++|....
T Consensus       300 ~~~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~  335 (374)
T PF13281_consen  300 EKMQDYWDVATLLEASVLAGDYEKAIQAAEKAFKLK  335 (374)
T ss_pred             cccccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcC
Confidence              2344456788899999999999999999999764

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=96.84  E-value=0.021  Score=42.12  Aligned_cols=100  Identities=13%  Similarity=0.089  Sum_probs=76.2

Q ss_pred             CCChhhHHHHHHHHhhh-----chHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCC----------------cHHHHH
Q 046446           28 KPDVVIHNTLFIGLFEI-----HQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNG----------------YIVESV   86 (244)
Q Consensus        28 ~~~~~~~~~li~~~~~~-----~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~----------------~~~~a~   86 (244)
                      +.|..+|-..+..+...     +.++-....++.|.+-|+.-|..+|+.|++.+-+..                .-+-++
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            45667777777666543     567777888889999999999999999998875532                234578


Q ss_pred             HHHHHHHHhCCCccHHhHHHHHHHHHcCCCH-HHHHHHHHhc
Q 046446           87 ELFRTLRILKCELDIQAYSCLIDGLCKSGRL-EIALELFHSL  127 (244)
Q Consensus        87 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~-~~a~~~~~~~  127 (244)
                      .++++|...|+.||..+-..|++++.+.+-. .+..++.-.|
T Consensus       144 ~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p~~K~~Rm~yWm  185 (406)
T KOG3941|consen  144 KVLEQMEWHGVMPDKEIEDILVNAFGRWNFPTKKVKRMLYWM  185 (406)
T ss_pred             HHHHHHHHcCCCCchHHHHHHHHHhccccccHHHHHHHHHhh
Confidence            8999999999999999999999999987753 3344444433

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.83  E-value=0.11  Score=37.68  Aligned_cols=189  Identities=10%  Similarity=0.097  Sum_probs=112.2

Q ss_pred             hhhhhcCChhHHHHHHHHHHhCCCCCCh------hhHHHHHHHHhhhchHHHHHHHHHHHHH---cCCCCChhHHH--HH
Q 046446            4 NGYCKNKEIEGALNLYSEMLSKGIKPDV------VIHNTLFIGLFEIHQVERAFKLFDEMQR---DGVAADTRTYT--IF   72 (244)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~~~~--~l   72 (244)
                      .+|....++++|...+.+..+- ...+.      -.|...+...-....+.++..++++...   ..-.|++....  --
T Consensus        39 vafRnAk~feKakdcLlkA~~~-yEnnrslfhAAKayEqaamLake~~klsEvvdl~eKAs~lY~E~GspdtAAmaleKA  117 (308)
T KOG1585|consen   39 VAFRNAKKFEKAKDCLLKASKG-YENNRSLFHAAKAYEQAAMLAKELSKLSEVVDLYEKASELYVECGSPDTAAMALEKA  117 (308)
T ss_pred             HHHHhhccHHHHHHHHHHHHHH-HHhcccHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhCCcchHHHHHHHH
Confidence            3566678888888877766532 12222      2344444444555677888888877543   22344554331  11


Q ss_pred             HHHHHhCCcHHHHHHHHHHHHHh---C--CCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCC-----ccccHHHHHHH
Q 046446           73 IDGLCKNGYIVESVELFRTLRIL---K--CELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGV-----LVADVVTYSIM  142 (244)
Q Consensus        73 l~~~~~~~~~~~a~~~~~~~~~~---~--~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~l  142 (244)
                      .+ .....++++|+++|++....   +  ...-...+..+-+.+.+...+++|-..+.+-....     ...--..|...
T Consensus       118 ak-~lenv~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~lVrl~kf~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~  196 (308)
T KOG1585|consen  118 AK-ALENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVLVRLEKFTEAATAFLKEGVAADKCDAYNSQCKAYVAA  196 (308)
T ss_pred             HH-HhhcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHhhhhHHhhHHHHHHHHhhhHHHHHhhcccHHHHHHHH
Confidence            11 23456788899998876432   1  11223345666677788888887776665432211     11112345666


Q ss_pred             HHHHHccCChHHHHHHHHHHHHcC---CCCcHhHHHHHHHHHHhcCChhHHHHHHH
Q 046446          143 IHGLYNDGQMDKAHDLFLDMEENA---VAPNVITFGTLIHGFIRINEPSKVIELLH  195 (244)
Q Consensus       143 i~~~~~~~~~~~a~~~~~~~~~~~---~~p~~~~~~~l~~~~~~~g~~~~a~~~~~  195 (244)
                      |-.+....++..|...++.-.+.+   -.-+..+...|+.+|- .|+.+++..++.
T Consensus       197 ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ayd-~gD~E~~~kvl~  251 (308)
T KOG1585|consen  197 ILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAYD-EGDIEEIKKVLS  251 (308)
T ss_pred             HHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHhc-cCCHHHHHHHHc
Confidence            777777889999999998754432   2235677888888874 688887776653

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=96.81  E-value=0.14  Score=40.47  Aligned_cols=130  Identities=18%  Similarity=0.140  Sum_probs=71.0

Q ss_pred             hhHHHHHHHHhhhchHHHHHHHHHHHHHcC-CCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHH
Q 046446           32 VIHNTLFIGLFEIHQVERAFKLFDEMQRDG-VAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDG  110 (244)
Q Consensus        32 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~  110 (244)
                      .+|...|+...+..-++.|..+|-+..+.| ..++...+++++..++. |+...|..+|+--... .+.++.--+..+..
T Consensus       398 ~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~~-~d~~ta~~ifelGl~~-f~d~~~y~~kyl~f  475 (660)
T COG5107         398 FVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYAT-GDRATAYNIFELGLLK-FPDSTLYKEKYLLF  475 (660)
T ss_pred             hHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHhc-CCcchHHHHHHHHHHh-CCCchHHHHHHHHH
Confidence            344555555555566666666666666666 44555666666665543 4556666666543332 12222223445555


Q ss_pred             HHcCCCHHHHHHHHHhcccCCcccc--HHHHHHHHHHHHccCChHHHHHHHHHHHH
Q 046446          111 LCKSGRLEIALELFHSLPRGVLVAD--VVTYSIMIHGLYNDGQMDKAHDLFLDMEE  164 (244)
Q Consensus       111 ~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~li~~~~~~~~~~~a~~~~~~~~~  164 (244)
                      +.+.++-+.|..+|+..... +..+  ...|..+|..=..-|+...+..+=+.|.+
T Consensus       476 Li~inde~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e  530 (660)
T COG5107         476 LIRINDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRE  530 (660)
T ss_pred             HHHhCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHH
Confidence            56666666666666643322 0111  34566666666666666666665555554

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=96.72  E-value=0.14  Score=40.48  Aligned_cols=146  Identities=14%  Similarity=0.174  Sum_probs=105.7

Q ss_pred             hHHHHHHHHHHhCCcHHHHHHHHHHHHHhC-CCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHH-HHHHHH
Q 046446           67 RTYTIFIDGLCKNGYIVESVELFRTLRILK-CELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVT-YSIMIH  144 (244)
Q Consensus        67 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~li~  144 (244)
                      .+|...++...+..-.+.|..+|-+..+.+ +.+++.++++++..++. |+...|.++|+.-...  -||... -+-.+.
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 FVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYAT-GDRATAYNIFELGLLK--FPDSTLYKEKYLL  474 (660)
T ss_pred             hHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHhc-CCcchHHHHHHHHHHh--CCCchHHHHHHHH
Confidence            456677777778778899999999999888 56788888999987775 7888899999875443  234433 356677


Q ss_pred             HHHccCChHHHHHHHHHHHHcCCCCc--HhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHh
Q 046446          145 GLYNDGQMDKAHDLFLDMEENAVAPN--VITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAK  218 (244)
Q Consensus       145 ~~~~~~~~~~a~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  218 (244)
                      .+.+.++-+.|..+|+..... +..+  ...|..+|..-..-|+...+..+=++|.+.  -|-..+...+.+-|.-
T Consensus       475 fLi~inde~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~--~pQen~~evF~Sry~i  547 (660)
T COG5107         475 FLIRINDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFREL--VPQENLIEVFTSRYAI  547 (660)
T ss_pred             HHHHhCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHH--cCcHhHHHHHHHHHhh
Confidence            778889999999999865432 1122  467888888888889988888777777664  3555555555555543

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=96.69  E-value=0.26  Score=40.13  Aligned_cols=157  Identities=13%  Similarity=0.084  Sum_probs=96.9

Q ss_pred             HHHhhhchHHHHHHHHHHHHHcC-CCCC-----hhHHHHHHHHHHh----CCcHHHHHHHHHHHHHhCCCccHHhHHHH-
Q 046446           39 IGLFEIHQVERAFKLFDEMQRDG-VAAD-----TRTYTIFIDGLCK----NGYIVESVELFRTLRILKCELDIQAYSCL-  107 (244)
Q Consensus        39 ~~~~~~~~~~~a~~~~~~m~~~~-~~~~-----~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-  107 (244)
                      ....-.|+-+.+++.+.+..+.+ +.-.     .-.|+..+..++.    ..+.+.|.++++.+.+.  -|+...|... 
T Consensus       196 ~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~--yP~s~lfl~~~  273 (468)
T PF10300_consen  196 SFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR--YPNSALFLFFE  273 (468)
T ss_pred             hhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh--CCCcHHHHHHH
Confidence            44445577788888877765532 2211     1234444444443    34677888899888875  4666665443 


Q ss_pred             HHHHHcCCCHHHHHHHHHhcccCC---ccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHH-HHHh
Q 046446          108 IDGLCKSGRLEIALELFHSLPRGV---LVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIH-GFIR  183 (244)
Q Consensus       108 l~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~-~~~~  183 (244)
                      .+.+...|++++|.+.|+......   .+.....+--+.-.+....+|++|...|..+.+..-. +..+|..+.. ++..
T Consensus       274 gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s~W-Ska~Y~Y~~a~c~~~  352 (468)
T PF10300_consen  274 GRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKESKW-SKAFYAYLAAACLLM  352 (468)
T ss_pred             HHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcccc-HHHHHHHHHHHHHHh
Confidence            456677889999999999765321   1122333444555677788999999999988865322 3444544443 3345


Q ss_pred             cCCh-------hHHHHHHHHHH
Q 046446          184 INEP-------SKVIELLHKMK  198 (244)
Q Consensus       184 ~g~~-------~~a~~~~~~~~  198 (244)
                      .|+.       ++|.++|.+..
T Consensus       353 l~~~~~~~~~~~~a~~l~~~vp  374 (468)
T PF10300_consen  353 LGREEEAKEHKKEAEELFRKVP  374 (468)
T ss_pred             hccchhhhhhHHHHHHHHHHHH
Confidence            6777       77888887765

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.

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=96.68  E-value=0.16  Score=41.32  Aligned_cols=158  Identities=10%  Similarity=0.018  Sum_probs=102.9

Q ss_pred             HHHHhCCcHHHHHHHHHHHHHhCCCccH------HhHHHHHHHHHc----CCCHHHHHHHHHhcccCCccccHHHHHHHH
Q 046446           74 DGLCKNGYIVESVELFRTLRILKCELDI------QAYSCLIDGLCK----SGRLEIALELFHSLPRGVLVADVVTYSIMI  143 (244)
Q Consensus        74 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li  143 (244)
                      ....=.||-+.+++.+.+..+.+--..+      -.|...+..++.    ....+.|.++++.+.+.  -|+...|...-
T Consensus       196 ~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~--yP~s~lfl~~~  273 (468)
T PF10300_consen  196 SFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR--YPNSALFLFFE  273 (468)
T ss_pred             hhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh--CCCcHHHHHHH
Confidence            3344568999999999887654311222      234444444443    45678999999999987  57776665543


Q ss_pred             -HHHHccCChHHHHHHHHHHHHcC---CCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHH-HHHh
Q 046446          144 -HGLYNDGQMDKAHDLFLDMEENA---VAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVD-LLAK  218 (244)
Q Consensus       144 -~~~~~~~~~~~a~~~~~~~~~~~---~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~-~~~~  218 (244)
                       +.+...|+.++|.+.|+......   .+.....+--+...+.-.++|++|.+.|..+.+.. ..+..+|.-+.- ++..
T Consensus       274 gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s-~WSka~Y~Y~~a~c~~~  352 (468)
T PF10300_consen  274 GRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKES-KWSKAFYAYLAAACLLM  352 (468)
T ss_pred             HHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcc-ccHHHHHHHHHHHHHHh
Confidence             56667899999999999755311   11223344455666778899999999999999763 224445544333 3445


Q ss_pred             cccc-------ccchhhhhhhhh
Q 046446          219 NEIS-------LNSLPSFTVHER  234 (244)
Q Consensus       219 ~g~~-------~~a~~~~~~~~~  234 (244)
                      .|+.       ++|.+.|...+.
T Consensus       353 l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  353 LGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             hccchhhhhhHHHHHHHHHHHHH
Confidence            6777       677777766554

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.

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.68  E-value=0.071  Score=39.14  Aligned_cols=99  Identities=12%  Similarity=0.036  Sum_probs=75.0

Q ss_pred             hhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCC--CChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhC--CCccHHhHHH
Q 046446           31 VVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVA--ADTRTYTIFIDGLCKNGYIVESVELFRTLRILK--CELDIQAYSC  106 (244)
Q Consensus        31 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~--~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~  106 (244)
                      ...|+..+..+ +.|++..|...|....+....  -....+..|..++...|++++|..+|..+.+.-  .+--+..+-.
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            44677777655 667899999999988886321  234456678999999999999999999887753  1223466777


Q ss_pred             HHHHHHcCCCHHHHHHHHHhcccC
Q 046446          107 LIDGLCKSGRLEIALELFHSLPRG  130 (244)
Q Consensus       107 ll~~~~~~~~~~~a~~~~~~~~~~  130 (244)
                      |..+..+.|+.++|..+|+++.+.
T Consensus       221 lg~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         221 LGVSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHH
Confidence            888888999999999999998876

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.66  E-value=0.061  Score=41.66  Aligned_cols=99  Identities=18%  Similarity=0.076  Sum_probs=74.2

Q ss_pred             ccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHH
Q 046446           99 LDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLI  178 (244)
Q Consensus        99 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~  178 (244)
                      .-..+++.+..+|.+.+++.+|+..-......+ ++|......=..++...|+++.|...|+.+.+.  .|+...-..-+
T Consensus       255 ~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~-~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~--~P~Nka~~~el  331 (397)
T KOG0543|consen  255 LKLACHLNLAACYLKLKEYKEAIESCNKVLELD-PNNVKALYRRGQALLALGEYDLARDDFQKALKL--EPSNKAARAEL  331 (397)
T ss_pred             HHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcC-CCchhHHHHHHHHHHhhccHHHHHHHHHHHHHh--CCCcHHHHHHH
Confidence            345567788889999999999999998888775 667888888889999999999999999999884  46555554444


Q ss_pred             HHH-HhcCCh-hHHHHHHHHHHHC
Q 046446          179 HGF-IRINEP-SKVIELLHKMKEK  200 (244)
Q Consensus       179 ~~~-~~~g~~-~~a~~~~~~~~~~  200 (244)
                      ..| .+..+. +...++|..|...
T Consensus       332 ~~l~~k~~~~~~kekk~y~~mF~k  355 (397)
T KOG0543|consen  332 IKLKQKIREYEEKEKKMYANMFAK  355 (397)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhc
Confidence            444 333333 4457788888754

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=96.59  E-value=0.046  Score=45.46  Aligned_cols=52  Identities=19%  Similarity=0.323  Sum_probs=24.4

Q ss_pred             HHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHH
Q 046446          136 VVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHK  196 (244)
Q Consensus       136 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~  196 (244)
                      ....-.+..++.+.|.-++|.+.+-....    |     ...+..|...++|.+|.++.++
T Consensus       852 s~llp~~a~mf~svGMC~qAV~a~Lr~s~----p-----kaAv~tCv~LnQW~~avelaq~  903 (1189)
T KOG2041|consen  852 SELLPVMADMFTSVGMCDQAVEAYLRRSL----P-----KAAVHTCVELNQWGEAVELAQR  903 (1189)
T ss_pred             cchHHHHHHHHHhhchHHHHHHHHHhccC----c-----HHHHHHHHHHHHHHHHHHHHHh
Confidence            33444555555666665555554432211    1     2234445555555555554443

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=96.55  E-value=0.18  Score=36.76  Aligned_cols=169  Identities=14%  Similarity=0.124  Sum_probs=99.6

Q ss_pred             CChhhHHHHHHHHhhhchHHHHHHHHHHHHHcC--CCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHH
Q 046446           29 PDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDG--VAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSC  106 (244)
Q Consensus        29 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~--~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  106 (244)
                      |-...|+..+.. .+.|++++|.+.|+.+..+-  -+-...+.-.++.++.+.++++.|....++....-.......|..
T Consensus        33 p~~~LY~~g~~~-L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~  111 (254)
T COG4105          33 PASELYNEGLTE-LQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAY  111 (254)
T ss_pred             CHHHHHHHHHHH-HhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHH
Confidence            334455555554 47899999999999998651  122345666777888899999999999999887643333344555


Q ss_pred             HHHHHHcC-------CCHH---HHHHHHHhccc----CCccccHHHH------------HHHHHHHHccCChHHHHHHHH
Q 046446          107 LIDGLCKS-------GRLE---IALELFHSLPR----GVLVADVVTY------------SIMIHGLYNDGQMDKAHDLFL  160 (244)
Q Consensus       107 ll~~~~~~-------~~~~---~a~~~~~~~~~----~~~~~~~~~~------------~~li~~~~~~~~~~~a~~~~~  160 (244)
                      .|.+.+..       .+..   .|..-|+++.+    ....||...-            ..+.+.|.+.|.+-.|..-++
T Consensus       112 YlkgLs~~~~i~~~~rDq~~~~~A~~~f~~~i~ryPnS~Ya~dA~~~i~~~~d~LA~~Em~IaryY~kr~~~~AA~nR~~  191 (254)
T COG4105         112 YLKGLSYFFQIDDVTRDQSAARAAFAAFKELVQRYPNSRYAPDAKARIVKLNDALAGHEMAIARYYLKRGAYVAAINRFE  191 (254)
T ss_pred             HHHHHHHhccCCccccCHHHHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHHHHH
Confidence            55555422       2222   33333333332    2333333221            233456677777777777777


Q ss_pred             HHHHcCCCCcH---hHHHHHHHHHHhcCChhHHHHHHHHHHH
Q 046446          161 DMEENAVAPNV---ITFGTLIHGFIRINEPSKVIELLHKMKE  199 (244)
Q Consensus       161 ~~~~~~~~p~~---~~~~~l~~~~~~~g~~~~a~~~~~~~~~  199 (244)
                      +|.+. .+-+.   ..+-.+..+|...|-.++|...-.-+..
T Consensus       192 ~v~e~-y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~  232 (254)
T COG4105         192 EVLEN-YPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGA  232 (254)
T ss_pred             HHHhc-cccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHh
Confidence            77765 22222   2344455667777777776665554443

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.53  E-value=0.13  Score=37.87  Aligned_cols=98  Identities=19%  Similarity=0.145  Sum_probs=73.5

Q ss_pred             hhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCc---cHHhHHHHHHHHHcCCCHHHHHHHHHhcccCC-c-cccHHHHH
Q 046446           66 TRTYTIFIDGLCKNGYIVESVELFRTLRILKCEL---DIQAYSCLIDGLCKSGRLEIALELFHSLPRGV-L-VADVVTYS  140 (244)
Q Consensus        66 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~-~~~~~~~~  140 (244)
                      ...|+.-+..+ +.|++..|...|....+.. |-   ....+--|..++...|++++|..+|..+.+.- - +--+..+-
T Consensus       142 ~~~Y~~A~~~~-ksgdy~~A~~~F~~fi~~Y-P~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdall  219 (262)
T COG1729         142 TKLYNAALDLY-KSGDYAEAEQAFQAFIKKY-PNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALL  219 (262)
T ss_pred             hHHHHHHHHHH-HcCCHHHHHHHHHHHHHcC-CCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHH
Confidence            34677666654 6678999999999998753 22   23334448899999999999999998887542 1 11246777


Q ss_pred             HHHHHHHccCChHHHHHHHHHHHHc
Q 046446          141 IMIHGLYNDGQMDKAHDLFLDMEEN  165 (244)
Q Consensus       141 ~li~~~~~~~~~~~a~~~~~~~~~~  165 (244)
                      -|.....+.|+.++|..+|+++.+.
T Consensus       220 Klg~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         220 KLGVSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            7888888999999999999998875

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=96.48  E-value=0.13  Score=34.15  Aligned_cols=127  Identities=14%  Similarity=0.118  Sum_probs=73.0

Q ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHc
Q 046446           69 YTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYN  148 (244)
Q Consensus        69 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  148 (244)
                      ...++..+.+.+.......+++.+...+ +.+...++.++..|++.+ .++....++.  .    .+......+++.|.+
T Consensus        10 ~~~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~~-~~~ll~~l~~--~----~~~yd~~~~~~~c~~   81 (140)
T smart00299       10 VSEVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKYD-PQKEIERLDN--K----SNHYDIEKVGKLCEK   81 (140)
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHHC-HHHHHHHHHh--c----cccCCHHHHHHHHHH
Confidence            3456666666677777777777777665 356667777777777653 3344444442  1    122333446666677


Q ss_pred             cCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhc-CChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHh
Q 046446          149 DGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRI-NEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAK  218 (244)
Q Consensus       149 ~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~-g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  218 (244)
                      .+-++++..++..+..         +...+..+... ++++.|.+.+.+-      -+...|..++..+..
T Consensus        82 ~~l~~~~~~l~~k~~~---------~~~Al~~~l~~~~d~~~a~~~~~~~------~~~~lw~~~~~~~l~  137 (140)
T smart00299       82 AKLYEEAVELYKKDGN---------FKDAIVTLIEHLGNYEKAIEYFVKQ------NNPELWAEVLKALLD  137 (140)
T ss_pred             cCcHHHHHHHHHhhcC---------HHHHHHHHHHcccCHHHHHHHHHhC------CCHHHHHHHHHHHHc
Confidence            7777777777665532         22233333333 6677777666541      145566666665543

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=96.44  E-value=0.17  Score=35.15  Aligned_cols=61  Identities=11%  Similarity=0.005  Sum_probs=31.9

Q ss_pred             hHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCCh--hHHHHHHHHHHhCCcHHHHHHHHHHHH
Q 046446           33 IHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADT--RTYTIFIDGLCKNGYIVESVELFRTLR   93 (244)
Q Consensus        33 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~--~~~~~ll~~~~~~~~~~~a~~~~~~~~   93 (244)
                      .+..+...|++.|+.+.|++.|.++.+....|..  ..+-.+++.....+++..+...+.+..
T Consensus        38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~  100 (177)
T PF10602_consen   38 ALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAE  100 (177)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            3455555566666666666666665554333222  234445555555555555555555543

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.

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=96.43  E-value=0.23  Score=38.81  Aligned_cols=115  Identities=13%  Similarity=0.088  Sum_probs=68.9

Q ss_pred             CCCHHHHHHHHHhcccCCccccHHHH-------------HHHHHHHHccCChHHHHHHHHHHHH---cCCCCcHhHHHHH
Q 046446          114 SGRLEIALELFHSLPRGVLVADVVTY-------------SIMIHGLYNDGQMDKAHDLFLDMEE---NAVAPNVITFGTL  177 (244)
Q Consensus       114 ~~~~~~a~~~~~~~~~~~~~~~~~~~-------------~~li~~~~~~~~~~~a~~~~~~~~~---~~~~p~~~~~~~l  177 (244)
                      .++.+.|...|++....+  |+...-             ..=.+-..+.|++..|.+.+.+.+.   ....|+...|...
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            445566666666655543  333221             1112334567888888888888764   2345566677777


Q ss_pred             HHHHHhcCChhHHHHHHHHHHHCCCCCChhhH---HHHHHHHHhccccccchhhhhhhhh
Q 046446          178 IHGFIRINEPSKVIELLHKMKEKNVMPDASIV---SIVVDLLAKNEISLNSLPSFTVHER  234 (244)
Q Consensus       178 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~---~~l~~~~~~~g~~~~a~~~~~~~~~  234 (244)
                      ..+..+.|+..+|+.-.++....    |..-.   -.-..++...+++++|.+.|+...+
T Consensus       294 a~v~~rLgrl~eaisdc~~Al~i----D~syikall~ra~c~l~le~~e~AV~d~~~a~q  349 (486)
T KOG0550|consen  294 ALVNIRLGRLREAISDCNEALKI----DSSYIKALLRRANCHLALEKWEEAVEDYEKAMQ  349 (486)
T ss_pred             HhhhcccCCchhhhhhhhhhhhc----CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            77778888888888887776653    32221   1222244445667777777765544

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=96.40  E-value=0.11  Score=39.85  Aligned_cols=227  Identities=11%  Similarity=0.026  Sum_probs=136.2

Q ss_pred             hhcCChhHHHHHHHHHHhC--CCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcC--CC---CChhHHHHHHHHHHhC
Q 046446            7 CKNKEIEGALNLYSEMLSK--GIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDG--VA---ADTRTYTIFIDGLCKN   79 (244)
Q Consensus         7 ~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~--~~---~~~~~~~~ll~~~~~~   79 (244)
                      ....+.++|+..|.....+  ...--..++..+..+.++.|.+++++..--.-.+--  ..   .--..|-.+.+++-+.
T Consensus        17 y~s~~~~~al~~w~~~L~~l~~~~~Rf~~lG~l~~a~s~~g~y~~mL~~a~sqi~~a~~~~ds~~~~ea~lnlar~~e~l   96 (518)
T KOG1941|consen   17 YQSNQTEKALQVWTKVLEKLSDLMGRFRVLGCLVTAHSEMGRYKEMLKFAVSQIDTARELEDSDFLLEAYLNLARSNEKL   96 (518)
T ss_pred             hcCchHHHHHHHHHHHHHHHHHHHHHHHHhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4567788888888876654  111123466677788888888887765532211110  01   1123455555555555


Q ss_pred             CcHHHHHHHHHHHHHh-CCCc---cHHhHHHHHHHHHcCCCHHHHHHHHHhcccC-----CccccHHHHHHHHHHHHccC
Q 046446           80 GYIVESVELFRTLRIL-KCEL---DIQAYSCLIDGLCKSGRLEIALELFHSLPRG-----VLVADVVTYSIMIHGLYNDG  150 (244)
Q Consensus        80 ~~~~~a~~~~~~~~~~-~~~~---~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-----~~~~~~~~~~~li~~~~~~~  150 (244)
                      .++.+++.+-+.-... |..|   ......++..++...+.++++++.|+...+.     +......++..|-+.|.+..
T Consensus        97 ~~f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~  176 (518)
T KOG1941|consen   97 CEFHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLK  176 (518)
T ss_pred             HHhhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHH
Confidence            5556666555443321 1112   2234455777888888899999988876432     11223567888999999999


Q ss_pred             ChHHHHHHHHHHHH----cCCCCcHh-----HHHHHHHHHHhcCChhHHHHHHHHHHH----CCCCC-ChhhHHHHHHHH
Q 046446          151 QMDKAHDLFLDMEE----NAVAPNVI-----TFGTLIHGFIRINEPSKVIELLHKMKE----KNVMP-DASIVSIVVDLL  216 (244)
Q Consensus       151 ~~~~a~~~~~~~~~----~~~~p~~~-----~~~~l~~~~~~~g~~~~a~~~~~~~~~----~~~~~-~~~~~~~l~~~~  216 (244)
                      |+++|.-+.....+    .++..-..     ....|.-++...|+...|.+..++..+    .|-++ -......+.+.|
T Consensus       177 D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIy  256 (518)
T KOG1941|consen  177 DYEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIY  256 (518)
T ss_pred             hhhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHH
Confidence            99998877665443    22221111     223344566678888888888777553    34332 234455677888


Q ss_pred             Hhccccccchhhhhhhh
Q 046446          217 AKNEISLNSLPSFTVHE  233 (244)
Q Consensus       217 ~~~g~~~~a~~~~~~~~  233 (244)
                      ...|+.+.|..-|+..-
T Consensus       257 R~~gd~e~af~rYe~Am  273 (518)
T KOG1941|consen  257 RSRGDLERAFRRYEQAM  273 (518)
T ss_pred             HhcccHhHHHHHHHHHH
Confidence            88999988877776543

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=96.33  E-value=0.027  Score=28.96  Aligned_cols=27  Identities=19%  Similarity=0.172  Sum_probs=13.6

Q ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHHh
Q 046446           69 YTIFIDGLCKNGYIVESVELFRTLRIL   95 (244)
Q Consensus        69 ~~~ll~~~~~~~~~~~a~~~~~~~~~~   95 (244)
                      +..+...|.+.|++++|.++|++..+.
T Consensus         4 ~~~la~~~~~~G~~~~A~~~~~~~l~~   30 (44)
T PF13428_consen    4 WLALARAYRRLGQPDEAERLLRRALAL   30 (44)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            344445555555555555555555444

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=96.22  E-value=0.35  Score=36.43  Aligned_cols=225  Identities=14%  Similarity=0.078  Sum_probs=131.3

Q ss_pred             hhhcCChhHHHHHHHHHHhCC--CCCCh------hhHHHHHHHHhhhc-hHHHHHHHHHHHHHc--------CCCCCh--
Q 046446            6 YCKNKEIEGALNLYSEMLSKG--IKPDV------VIHNTLFIGLFEIH-QVERAFKLFDEMQRD--------GVAADT--   66 (244)
Q Consensus         6 ~~~~~~~~~a~~~~~~~~~~~--~~~~~------~~~~~li~~~~~~~-~~~~a~~~~~~m~~~--------~~~~~~--   66 (244)
                      ..+.|+++.|..++.+.....  ..|+.      ..|+.-.. ....+ +++.|..++++..+.        ...|+.  
T Consensus         3 A~~~~~~~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn~G~~-l~~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~e   81 (278)
T PF08631_consen    3 AWKQGDLDLAEHMYSKAKDLLNSLDPDMAEELARVCYNIGKS-LLSKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSE   81 (278)
T ss_pred             chhhCCHHHHHHHHHHhhhHHhcCCcHHHHHHHHHHHHHHHH-HHHcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHH
Confidence            457899999999999987742  23332      22333333 33445 888888887776443        223332  


Q ss_pred             ---hHHHHHHHHHHhCCcHH---HHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHH
Q 046446           67 ---RTYTIFIDGLCKNGYIV---ESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYS  140 (244)
Q Consensus        67 ---~~~~~ll~~~~~~~~~~---~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  140 (244)
                         .++..++.+|...+..+   +|.++++.+.... +-.+..+..-+..+.+.++.+++.+++.+|...- ......+.
T Consensus        82 lr~~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~-~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~-~~~e~~~~  159 (278)
T PF08631_consen   82 LRLSILRLLANAYLEWDTYESVEKALNALRLLESEY-GNKPEVFLLKLEILLKSFDEEEYEEILMRMIRSV-DHSESNFD  159 (278)
T ss_pred             HHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhC-CCCcHHHHHHHHHHhccCChhHHHHHHHHHHHhc-ccccchHH
Confidence               46777888888877655   4555666664432 3345666667788888899999999999998762 22344555


Q ss_pred             HHHHHHHc--cCChHHHHHHHHHHHHcCCCCcHh-HHHHH-HH-HH--HhcCC------hhHHHHHHHHHHH-CCCCCCh
Q 046446          141 IMIHGLYN--DGQMDKAHDLFLDMEENAVAPNVI-TFGTL-IH-GF--IRINE------PSKVIELLHKMKE-KNVMPDA  206 (244)
Q Consensus       141 ~li~~~~~--~~~~~~a~~~~~~~~~~~~~p~~~-~~~~l-~~-~~--~~~g~------~~~a~~~~~~~~~-~~~~~~~  206 (244)
                      .++..+..  ......+...++.+....+.|... ....+ +. .+  .+.++      .+...+++....+ .+.+.+.
T Consensus       160 ~~l~~i~~l~~~~~~~a~~~ld~~l~~r~~~~~~~~~e~~vl~~~~~~~~~~~~~~~~~i~~l~~~~~~v~~~~~~~ls~  239 (278)
T PF08631_consen  160 SILHHIKQLAEKSPELAAFCLDYLLLNRFKSSEDQWLEKLVLTRVLLTTQSKDLSSSEKIESLEELLSIVEHSLGKQLSA  239 (278)
T ss_pred             HHHHHHHHHHhhCcHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHcCCccccchhHHHHHHHHHHHHHHHhcCCCCH
Confidence            55555522  233456667777766555555553 22111 11 11  12222      3444444553333 2344455


Q ss_pred             hhHHHHHH-------HHHhccccccchhhhhhhh
Q 046446          207 SIVSIVVD-------LLAKNEISLNSLPSFTVHE  233 (244)
Q Consensus       207 ~~~~~l~~-------~~~~~g~~~~a~~~~~~~~  233 (244)
                      .+...+.-       ...+.++++.|.+.|+...
T Consensus       240 ~~~~a~~~LLW~~~~~~~~~k~y~~A~~w~~~al  273 (278)
T PF08631_consen  240 EAASAIHTLLWNKGKKHYKAKNYDEAIEWYELAL  273 (278)
T ss_pred             HHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHH
Confidence            55444433       3455778888888887543

It is also involved in sporulation [].

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=96.20  E-value=0.37  Score=36.58  Aligned_cols=128  Identities=13%  Similarity=0.210  Sum_probs=57.4

Q ss_pred             hHHHHHHHHHHhCCCCCChhhHHHHHHHHhh--h----chHHHHHHHHHHHHHcCC---CCChhHHHHHHHHHHhCCc--
Q 046446           13 EGALNLYSEMLSKGIKPDVVIHNTLFIGLFE--I----HQVERAFKLFDEMQRDGV---AADTRTYTIFIDGLCKNGY--   81 (244)
Q Consensus        13 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~--~----~~~~~a~~~~~~m~~~~~---~~~~~~~~~ll~~~~~~~~--   81 (244)
                      ++..++++.|.+.|++.+..+|-+.......  .    ....+|..+|+.|++.-.   .++..++..++..  ..++  
T Consensus        79 ~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~~e  156 (297)
T PF13170_consen   79 KEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSEDVE  156 (297)
T ss_pred             HHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--ccccHH
Confidence            4455566666666666665555432222211  1    234566666666666421   1233344444333  2222  


Q ss_pred             --HHHHHHHHHHHHHhCCCccHH--hHHHHHHHHHcCCC--HHHHHHHHHhcccCCccccHHHHHHH
Q 046446           82 --IVESVELFRTLRILKCELDIQ--AYSCLIDGLCKSGR--LEIALELFHSLPRGVLVADVVTYSIM  142 (244)
Q Consensus        82 --~~~a~~~~~~~~~~~~~~~~~--~~~~ll~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~l  142 (244)
                        .+.++.+|+.+.+.|+..+-.  ..+.++..+.....  ...+.++++.+.+.|+++....|..+
T Consensus       157 ~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~l  223 (297)
T PF13170_consen  157 ELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTL  223 (297)
T ss_pred             HHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHH
Confidence              234455555555555433222  22222222222111  22455555666666655555444443

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=96.20  E-value=0.18  Score=32.85  Aligned_cols=92  Identities=18%  Similarity=0.048  Sum_probs=63.6

Q ss_pred             HHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHH---HHHHHHHHHHccCC
Q 046446           75 GLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVV---TYSIMIHGLYNDGQ  151 (244)
Q Consensus        75 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~li~~~~~~~~  151 (244)
                      +.+..|+.+.|++.|.+....- |-....||.-..++.-.|+.++|++=+++..+..-..+..   .|..-...|...|+
T Consensus        52 alaE~g~Ld~AlE~F~qal~l~-P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g~  130 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALCLA-PERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGN  130 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHhc-ccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCc
Confidence            4567788888888888877653 5677788888888888888888888777766542122222   23333445667788


Q ss_pred             hHHHHHHHHHHHHcCC
Q 046446          152 MDKAHDLFLDMEENAV  167 (244)
Q Consensus       152 ~~~a~~~~~~~~~~~~  167 (244)
                      -+.|..-|+..-+.|.
T Consensus       131 dd~AR~DFe~AA~LGS  146 (175)
T KOG4555|consen  131 DDAARADFEAAAQLGS  146 (175)
T ss_pred             hHHHHHhHHHHHHhCC
Confidence            8888888877776653

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=96.14  E-value=0.33  Score=35.47  Aligned_cols=159  Identities=14%  Similarity=0.134  Sum_probs=104.4

Q ss_pred             hhhcCChhHHHHHHHHHHhCC--CCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHh-----
Q 046446            6 YCKNKEIEGALNLYSEMLSKG--IKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCK-----   78 (244)
Q Consensus         6 ~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~-----   78 (244)
                      -.+.|++++|.+.|+.+....  -+-...+--.++.++.+.++++.|+...++..+.-......-|..-|.+.+.     
T Consensus        44 ~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~YlkgLs~~~~i~  123 (254)
T COG4105          44 ELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAYYLKGLSYFFQID  123 (254)
T ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhccCC
Confidence            357899999999999998762  2234455666778888999999999999998876333233344444444432     


Q ss_pred             --CCcHHHHHHHH---HHHHHh----CCCccHHhH------------HHHHHHHHcCCCHHHHHHHHHhcccCCcccc--
Q 046446           79 --NGYIVESVELF---RTLRIL----KCELDIQAY------------SCLIDGLCKSGRLEIALELFHSLPRGVLVAD--  135 (244)
Q Consensus        79 --~~~~~~a~~~~---~~~~~~----~~~~~~~~~------------~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--  135 (244)
                        ..|...+.+.+   +.+.+.    ...+|...-            ..+.+.|.+.|.+..|..-+++|.+. .+-+  
T Consensus       124 ~~~rDq~~~~~A~~~f~~~i~ryPnS~Ya~dA~~~i~~~~d~LA~~Em~IaryY~kr~~~~AA~nR~~~v~e~-y~~t~~  202 (254)
T COG4105         124 DVTRDQSAARAAFAAFKELVQRYPNSRYAPDAKARIVKLNDALAGHEMAIARYYLKRGAYVAAINRFEEVLEN-YPDTSA  202 (254)
T ss_pred             ccccCHHHHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHhc-cccccc
Confidence              23444444444   444432    112222211            33556788999999999999998876 2222  


Q ss_pred             -HHHHHHHHHHHHccCChHHHHHHHHHHHHc
Q 046446          136 -VVTYSIMIHGLYNDGQMDKAHDLFLDMEEN  165 (244)
Q Consensus       136 -~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  165 (244)
                       ....-.+..+|...|-.++|...-.-+...
T Consensus       203 ~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~N  233 (254)
T COG4105         203 VREALARLEEAYYALGLTDEAKKTAKVLGAN  233 (254)
T ss_pred             hHHHHHHHHHHHHHhCChHHHHHHHHHHHhc
Confidence             334556678888999999998877666553

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.13  E-value=0.2  Score=42.65  Aligned_cols=116  Identities=15%  Similarity=0.087  Sum_probs=55.6

Q ss_pred             hhhhhhcCChhHHHHHHHHHHhCCCCCC--hhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCC
Q 046446            3 INGYCKNKEIEGALNLYSEMLSKGIKPD--VVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNG   80 (244)
Q Consensus         3 i~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~   80 (244)
                      |+.+.+...++-|+.+-+.   .+..++  ..........+.+.|++++|...|-+-... +.|+     .++.-|....
T Consensus       341 L~iL~kK~ly~~Ai~LAk~---~~~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~s-----~Vi~kfLdaq  411 (933)
T KOG2114|consen  341 LDILFKKNLYKVAINLAKS---QHLDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEPS-----EVIKKFLDAQ  411 (933)
T ss_pred             HHHHHHhhhHHHHHHHHHh---cCCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CChH-----HHHHHhcCHH
Confidence            3445555556666554322   221121  112222333344556666666666544432 2221     2334444444


Q ss_pred             cHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcc
Q 046446           81 YIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLP  128 (244)
Q Consensus        81 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  128 (244)
                      +......+++.+.+.|. .+...-..|+.+|.+.++.++-.++.+...
T Consensus       412 ~IknLt~YLe~L~~~gl-a~~dhttlLLncYiKlkd~~kL~efI~~~~  458 (933)
T KOG2114|consen  412 RIKNLTSYLEALHKKGL-ANSDHTTLLLNCYIKLKDVEKLTEFISKCD  458 (933)
T ss_pred             HHHHHHHHHHHHHHccc-ccchhHHHHHHHHHHhcchHHHHHHHhcCC
Confidence            55555555666665554 344444556666666666555555444444

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=96.11  E-value=0.22  Score=33.04  Aligned_cols=80  Identities=13%  Similarity=0.096  Sum_probs=48.5

Q ss_pred             hHHHHHHHHhhhchHHHHHHHHHHHHHcCC--CCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHH
Q 046446           33 IHNTLFIGLFEIHQVERAFKLFDEMQRDGV--AADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDG  110 (244)
Q Consensus        33 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~--~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~  110 (244)
                      .|..-.. ..+.|++++|.+.|+.+..+-.  +-...+--.++.+|.+.+++++|...+++.++....-...-|...+.+
T Consensus        13 ly~~a~~-~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~g   91 (142)
T PF13512_consen   13 LYQEAQE-ALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRG   91 (142)
T ss_pred             HHHHHHH-HHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHH
Confidence            3444333 4467788888888888777621  112344556777788888888888888888776533223345545555


Q ss_pred             HHc
Q 046446          111 LCK  113 (244)
Q Consensus       111 ~~~  113 (244)
                      ++.
T Consensus        92 L~~   94 (142)
T PF13512_consen   92 LSY   94 (142)
T ss_pred             HHH
Confidence            443

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=96.09  E-value=0.15  Score=38.06  Aligned_cols=79  Identities=13%  Similarity=0.202  Sum_probs=59.0

Q ss_pred             HHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHH-----CCCCCChhhHHH
Q 046446          137 VTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKE-----KNVMPDASIVSI  211 (244)
Q Consensus       137 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-----~~~~~~~~~~~~  211 (244)
                      .++..++..+...|+++.+.+.++++..... -+...|..++.+|.+.|+...|+..|+++.+     .|+.|...+...
T Consensus       154 ~~l~~lae~~~~~~~~~~~~~~l~~Li~~dp-~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~  232 (280)
T COG3629         154 KALTKLAEALIACGRADAVIEHLERLIELDP-YDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRAL  232 (280)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHhcCc-cchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHH
Confidence            3556677777778888888888888776543 3777888888888888888888888887764     478888777766


Q ss_pred             HHHHH
Q 046446          212 VVDLL  216 (244)
Q Consensus       212 l~~~~  216 (244)
                      ..+..
T Consensus       233 y~~~~  237 (280)
T COG3629         233 YEEIL  237 (280)
T ss_pred             HHHHh
Confidence            66663

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=96.08  E-value=0.12  Score=38.51  Aligned_cols=79  Identities=16%  Similarity=0.179  Sum_probs=67.6

Q ss_pred             HHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHH-----cCCCCcHhHHH
Q 046446          101 IQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEE-----NAVAPNVITFG  175 (244)
Q Consensus       101 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~-----~~~~p~~~~~~  175 (244)
                      ..++..++..+...|+.+.+...++++.... +.+...|..++.+|.+.|+...|...|+.+.+     .|+.|...+..
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            4456778888999999999999999998875 67899999999999999999999999988764     68888888777


Q ss_pred             HHHHH
Q 046446          176 TLIHG  180 (244)
Q Consensus       176 ~l~~~  180 (244)
                      .....
T Consensus       232 ~y~~~  236 (280)
T COG3629         232 LYEEI  236 (280)
T ss_pred             HHHHH
Confidence            66665

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.08  E-value=0.27  Score=41.88  Aligned_cols=139  Identities=12%  Similarity=0.183  Sum_probs=76.2

Q ss_pred             hhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHH
Q 046446            6 YCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVES   85 (244)
Q Consensus         6 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   85 (244)
                      +.+.|++++|..-|-+-... +.|+     .+|.-|........--.+++.+.+.|+. +...-..|+.+|.+.++.+..
T Consensus       378 Ly~Kgdf~~A~~qYI~tI~~-le~s-----~Vi~kfLdaq~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL  450 (933)
T KOG2114|consen  378 LYGKGDFDEATDQYIETIGF-LEPS-----EVIKKFLDAQRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKL  450 (933)
T ss_pred             HHhcCCHHHHHHHHHHHccc-CChH-----HHHHHhcCHHHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHH
Confidence            45667777777666555443 1222     3444555666666666777777777665 555555677777777777666


Q ss_pred             HHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHH
Q 046446           86 VELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDM  162 (244)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  162 (244)
                      .++.+... .|..  ..-....+..+.+.+-+++|..+-.....     +......++   -..+++++|.+.+..+
T Consensus       451 ~efI~~~~-~g~~--~fd~e~al~Ilr~snyl~~a~~LA~k~~~-----he~vl~ill---e~~~ny~eAl~yi~sl  516 (933)
T KOG2114|consen  451 TEFISKCD-KGEW--FFDVETALEILRKSNYLDEAELLATKFKK-----HEWVLDILL---EDLHNYEEALRYISSL  516 (933)
T ss_pred             HHHHhcCC-Ccce--eeeHHHHHHHHHHhChHHHHHHHHHHhcc-----CHHHHHHHH---HHhcCHHHHHHHHhcC
Confidence            65555433 2211  11133445555556666666655554443     122223332   2446677777766554

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=96.06  E-value=0.21  Score=32.54  Aligned_cols=63  Identities=16%  Similarity=0.299  Sum_probs=29.6

Q ss_pred             HHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCC
Q 046446          139 YSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNV  202 (244)
Q Consensus       139 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  202 (244)
                      ....+.+....|+.+...+++.++.+. -.+++...-.+..+|.+.|+..++.+++.+.-+.|+
T Consensus        89 vD~ALd~lv~~~kkDqLdki~~~l~kn-~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~  151 (161)
T PF09205_consen   89 VDLALDILVKQGKKDQLDKIYNELKKN-EEINPEFLVKIANAYKKLGNTREANELLKEACEKGL  151 (161)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHhhc-cCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhch
Confidence            344445555555555555555555431 234555555555555555555555555555555554

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=96.00  E-value=0.29  Score=33.53  Aligned_cols=31  Identities=19%  Similarity=0.442  Sum_probs=16.6

Q ss_pred             HHHHHHHcCCCCChhHHHHHHHHHHhCCcHH
Q 046446           53 LFDEMQRDGVAADTRTYTIFIDGLCKNGYIV   83 (244)
Q Consensus        53 ~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   83 (244)
                      +++.+.+.+++|+...+..+++.+.+.|.+.
T Consensus        16 YirSl~~~~i~~~~~L~~lli~lLi~~~~~~   46 (167)
T PF07035_consen   16 YIRSLNQHNIPVQHELYELLIDLLIRNGQFS   46 (167)
T ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHHcCCHH
Confidence            3444445555555555555555555555533

>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=95.94  E-value=0.25  Score=34.37  Aligned_cols=94  Identities=17%  Similarity=0.094  Sum_probs=45.5

Q ss_pred             hHHHHHHHHHcCCCHHHHHHHHHhcccCCcccc--HHHHHHHHHHHHccCChHHHHHHHHHHHHc---CCCCcH----hH
Q 046446          103 AYSCLIDGLCKSGRLEIALELFHSLPRGVLVAD--VVTYSIMIHGLYNDGQMDKAHDLFLDMEEN---AVAPNV----IT  173 (244)
Q Consensus       103 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~li~~~~~~~~~~~a~~~~~~~~~~---~~~p~~----~~  173 (244)
                      .+..+...|.+.|+.+.|.+.|.++.+....+.  ...+-.+|......+++..+...+......   |-.++.    ..
T Consensus        38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk~  117 (177)
T PF10602_consen   38 ALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLKV  117 (177)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHHH
Confidence            345555555566666666666555554432222  233445555555556666555555544321   111111    11


Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHH
Q 046446          174 FGTLIHGFIRINEPSKVIELLHKMK  198 (244)
Q Consensus       174 ~~~l~~~~~~~g~~~~a~~~~~~~~  198 (244)
                      |..+  .+...|++..|.+.|-+..
T Consensus       118 ~~gL--~~l~~r~f~~AA~~fl~~~  140 (177)
T PF10602_consen  118 YEGL--ANLAQRDFKEAAELFLDSL  140 (177)
T ss_pred             HHHH--HHHHhchHHHHHHHHHccC
Confidence            2222  2234567777777666543

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=95.94  E-value=0.51  Score=35.84  Aligned_cols=152  Identities=14%  Similarity=0.201  Sum_probs=92.9

Q ss_pred             hHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHh--CC----cHHHHHHHHHHHHHhCC---CccHHhHHHHHHHHHcCCC
Q 046446           46 QVERAFKLFDEMQRDGVAADTRTYTIFIDGLCK--NG----YIVESVELFRTLRILKC---ELDIQAYSCLIDGLCKSGR  116 (244)
Q Consensus        46 ~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~--~~----~~~~a~~~~~~~~~~~~---~~~~~~~~~ll~~~~~~~~  116 (244)
                      .+++.+.+++.|.+.|+.-+..+|-+.......  ..    ....+.++|+.|++...   .++...+..++..  ..++
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            367788889999999999888777654333333  22    34578889999998642   2445555555544  3333


Q ss_pred             ----HHHHHHHHHhcccCCcccc--HHHHHHHHHHHHccCC--hHHHHHHHHHHHHcCCCCcHhHHHHHHHHHH-hcCC-
Q 046446          117 ----LEIALELFHSLPRGVLVAD--VVTYSIMIHGLYNDGQ--MDKAHDLFLDMEENAVAPNVITFGTLIHGFI-RINE-  186 (244)
Q Consensus       117 ----~~~a~~~~~~~~~~~~~~~--~~~~~~li~~~~~~~~--~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~-~~g~-  186 (244)
                          .+.++.+|+.+.+.|...+  ......++.......+  ...+.++++.+.+.|+++....|..+.-... ..+. 
T Consensus       155 ~e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lGlLall~~~~~  234 (297)
T PF13170_consen  155 VEELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLGLLALLEDPEE  234 (297)
T ss_pred             HHHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHHHHHhcCCchH
Confidence                3567788888887665443  2333333333332222  4478889999999999988887776644332 2222 


Q ss_pred             --hhHHHHHHHHHHH
Q 046446          187 --PSKVIELLHKMKE  199 (244)
Q Consensus       187 --~~~a~~~~~~~~~  199 (244)
                        .+...++.+.+.+
T Consensus       235 ~~~~~i~ev~~~L~~  249 (297)
T PF13170_consen  235 KIVEEIKEVIDELKE  249 (297)
T ss_pred             HHHHHHHHHHHHHhh
Confidence              3344444444443

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=95.91  E-value=0.027  Score=28.91  Aligned_cols=26  Identities=19%  Similarity=0.183  Sum_probs=12.9

Q ss_pred             HHHHHHHHHccCChHHHHHHHHHHHH
Q 046446          139 YSIMIHGLYNDGQMDKAHDLFLDMEE  164 (244)
Q Consensus       139 ~~~li~~~~~~~~~~~a~~~~~~~~~  164 (244)
                      +..+...|...|++++|.++|+...+
T Consensus         4 ~~~la~~~~~~G~~~~A~~~~~~~l~   29 (44)
T PF13428_consen    4 WLALARAYRRLGQPDEAERLLRRALA   29 (44)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            44444455555555555555555444

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=95.75  E-value=0.58  Score=35.02  Aligned_cols=147  Identities=15%  Similarity=0.118  Sum_probs=98.0

Q ss_pred             HHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChH
Q 046446           74 DGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMD  153 (244)
Q Consensus        74 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~  153 (244)
                      ......|+..+|...|+...... +-+...-..+..+|...|+.+.|..++..+...--.........-|..+.+.....
T Consensus       142 ~~~~~~e~~~~a~~~~~~al~~~-~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~  220 (304)
T COG3118         142 KELIEAEDFGEAAPLLKQALQAA-PENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATP  220 (304)
T ss_pred             hhhhhccchhhHHHHHHHHHHhC-cccchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCC
Confidence            34567788999999998888765 34566677788999999999999999998876532222223233345555555555


Q ss_pred             HHHHHHHHHHHcCCCC-cHhHHHHHHHHHHhcCChhHHHHHHHHHHHC--CCCCChhhHHHHHHHHHhccccccc
Q 046446          154 KAHDLFLDMEENAVAP-NVITFGTLIHGFIRINEPSKVIELLHKMKEK--NVMPDASIVSIVVDLLAKNEISLNS  225 (244)
Q Consensus       154 ~a~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~a  225 (244)
                      +...+-...-..   | |...-..+...+...|+.+.|.+.+-.+..+  |.. |...-..+++.+.--|..+.+
T Consensus       221 ~~~~l~~~~aad---Pdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~-d~~~Rk~lle~f~~~g~~Dp~  291 (304)
T COG3118         221 EIQDLQRRLAAD---PDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFE-DGEARKTLLELFEAFGPADPL  291 (304)
T ss_pred             CHHHHHHHHHhC---CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccc-CcHHHHHHHHHHHhcCCCCHH
Confidence            555555544442   4 5555566777888889999988877766654  333 556667777777776654443

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=95.73  E-value=0.31  Score=31.77  Aligned_cols=92  Identities=16%  Similarity=0.027  Sum_probs=71.1

Q ss_pred             HHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHH---HHHHHHHcCC
Q 046446           39 IGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYS---CLIDGLCKSG  115 (244)
Q Consensus        39 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~---~ll~~~~~~~  115 (244)
                      -+++..|+.+.|++.|.+.... .+-....||.-..++--.|+.++|+.=+++..+..-..+.....   --...|...|
T Consensus        51 valaE~g~Ld~AlE~F~qal~l-~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g  129 (175)
T KOG4555|consen   51 IALAEAGDLDGALELFGQALCL-APERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLG  129 (175)
T ss_pred             HHHHhccchHHHHHHHHHHHHh-cccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhC
Confidence            4567789999999999998876 44478899999999999999999999999887754333433333   3344677788


Q ss_pred             CHHHHHHHHHhcccCC
Q 046446          116 RLEIALELFHSLPRGV  131 (244)
Q Consensus       116 ~~~~a~~~~~~~~~~~  131 (244)
                      +.+.|..=|+..-+.|
T Consensus       130 ~dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  130 NDDAARADFEAAAQLG  145 (175)
T ss_pred             chHHHHHhHHHHHHhC
Confidence            9999988888777665

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=95.70  E-value=0.73  Score=35.82  Aligned_cols=54  Identities=9%  Similarity=0.043  Sum_probs=33.0

Q ss_pred             hhhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHc
Q 046446            3 INGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRD   60 (244)
Q Consensus         3 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~   60 (244)
                      ..+.-+.|+|+...+........  .++...+..+...  ..++++++....+.....
T Consensus         5 ~eaaWrl~~Wd~l~~~~~~~~~~--~~~~~~~~al~~l--~~~~~~~~~~~i~~~r~~   58 (352)
T PF02259_consen    5 AEAAWRLGDWDLLEEYLSQSNED--SPEYSFYRALLAL--RQGDYDEAKKYIEKARQL   58 (352)
T ss_pred             HHHHHhcCChhhHHHHHhhccCC--ChhHHHHHHHHHH--hCccHHHHHHHHHHHHHH
Confidence            35667778888855555444433  2344555555433  677888888877776553

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=95.61  E-value=0.61  Score=39.29  Aligned_cols=183  Identities=10%  Similarity=-0.002  Sum_probs=88.1

Q ss_pred             CCChhhHHHHHHHHhhhchHHHHHHHHHHHHHc-CCCC--------ChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCC
Q 046446           28 KPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRD-GVAA--------DTRTYTIFIDGLCKNGYIVESVELFRTLRILKCE   98 (244)
Q Consensus        28 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~~--------~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~   98 (244)
                      .|.+..|..+.......-.++-|...|-+...- |+..        +...-.+=+.+|  -|++++|+++|-++-+++. 
T Consensus       689 nPHprLWrllAe~Al~Kl~l~tAE~AFVrc~dY~Gik~vkrl~~i~s~~~q~aei~~~--~g~feeaek~yld~drrDL-  765 (1189)
T KOG2041|consen  689 NPHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIKLVKRLRTIHSKEQQRAEISAF--YGEFEEAEKLYLDADRRDL-  765 (1189)
T ss_pred             CCchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchhHHHHhhhhhhHHHHhHhHhhh--hcchhHhhhhhhccchhhh-
Confidence            588888888887777777777777766544332 2211        111111222222  2678888888777755432 


Q ss_pred             ccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCC-ccccHHHHHHHHHHHHccCChHHHHHHHHHHH-------------H
Q 046446           99 LDIQAYSCLIDGLCKSGRLEIALELFHSLPRGV-LVADVVTYSIMIHGLYNDGQMDKAHDLFLDME-------------E  164 (244)
Q Consensus        99 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~-------------~  164 (244)
                              .+..+.+.|++-.+.++++.-.... -..-...|+.+...+.....|++|.+.+..-.             .
T Consensus       766 --------Aielr~klgDwfrV~qL~r~g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~~~~e~~~ecly~le~  837 (1189)
T KOG2041|consen  766 --------AIELRKKLGDWFRVYQLIRNGGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSYCGDTENQIECLYRLEL  837 (1189)
T ss_pred             --------hHHHHHhhhhHHHHHHHHHccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccchHhHHHHHHHHHh
Confidence                    3444555555555544444321110 00112234444333333333333333332111             0


Q ss_pred             --------cCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchhhhh
Q 046446          165 --------NAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFT  230 (244)
Q Consensus       165 --------~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  230 (244)
                              ..++-+....-.+..++.+.|.-++|.+.+-+-..    |.     .-+..|...+++.+|.++-+
T Consensus       838 f~~LE~la~~Lpe~s~llp~~a~mf~svGMC~qAV~a~Lr~s~----pk-----aAv~tCv~LnQW~~avelaq  902 (1189)
T KOG2041|consen  838 FGELEVLARTLPEDSELLPVMADMFTSVGMCDQAVEAYLRRSL----PK-----AAVHTCVELNQWGEAVELAQ  902 (1189)
T ss_pred             hhhHHHHHHhcCcccchHHHHHHHHHhhchHHHHHHHHHhccC----cH-----HHHHHHHHHHHHHHHHHHHH
Confidence                    11233444455566666666666666655433211    11     33455555666655555544

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.60  E-value=0.66  Score=35.15  Aligned_cols=104  Identities=13%  Similarity=0.101  Sum_probs=74.8

Q ss_pred             cCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhC---CCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccH
Q 046446           60 DGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILK---CELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADV  136 (244)
Q Consensus        60 ~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~  136 (244)
                      .|.+....+...++..-....+++.++..+-.++...   ..|+... .++++.+.+ -+.++++.++..-.+.|+-||.
T Consensus        58 ~g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~-~~~irlllk-y~pq~~i~~l~npIqYGiF~dq  135 (418)
T KOG4570|consen   58 RGLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTI-HTWIRLLLK-YDPQKAIYTLVNPIQYGIFPDQ  135 (418)
T ss_pred             cCCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccH-HHHHHHHHc-cChHHHHHHHhCcchhccccch
Confidence            3556666777777777777788888888877776431   1222222 223333333 4567888899988999999999


Q ss_pred             HHHHHHHHHHHccCChHHHHHHHHHHHHc
Q 046446          137 VTYSIMIHGLYNDGQMDKAHDLFLDMEEN  165 (244)
Q Consensus       137 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~  165 (244)
                      .+++.++..+.+.+++.+|.++.-.|...
T Consensus       136 f~~c~l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  136 FTFCLLMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             hhHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            99999999999999999998888776643

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=95.59  E-value=0.34  Score=40.27  Aligned_cols=81  Identities=16%  Similarity=0.198  Sum_probs=53.1

Q ss_pred             HHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHh-----------HHHHHH
Q 046446          110 GLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVI-----------TFGTLI  178 (244)
Q Consensus       110 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~-----------~~~~l~  178 (244)
                      .+.+...+.-|-++|..|-..         ..+++.....++|++|..+-+...+  ..||++           -|...-
T Consensus       756 ylk~l~~~gLAaeIF~k~gD~---------ksiVqlHve~~~W~eAFalAe~hPe--~~~dVy~pyaqwLAE~DrFeEAq  824 (1081)
T KOG1538|consen  756 YLKKLDSPGLAAEIFLKMGDL---------KSLVQLHVETQRWDEAFALAEKHPE--FKDDVYMPYAQWLAENDRFEEAQ  824 (1081)
T ss_pred             HHhhccccchHHHHHHHhccH---------HHHhhheeecccchHhHhhhhhCcc--ccccccchHHHHhhhhhhHHHHH
Confidence            333444455555555554432         3456777888999999888876554  233322           245556


Q ss_pred             HHHHhcCChhHHHHHHHHHHHCC
Q 046446          179 HGFIRINEPSKVIELLHKMKEKN  201 (244)
Q Consensus       179 ~~~~~~g~~~~a~~~~~~~~~~~  201 (244)
                      .+|.+.|+-.+|..+++++....
T Consensus       825 kAfhkAGr~~EA~~vLeQLtnna  847 (1081)
T KOG1538|consen  825 KAFHKAGRQREAVQVLEQLTNNA  847 (1081)
T ss_pred             HHHHHhcchHHHHHHHHHhhhhh
Confidence            78889999999999999987543

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=95.49  E-value=0.57  Score=33.21  Aligned_cols=221  Identities=17%  Similarity=0.062  Sum_probs=129.0

Q ss_pred             ChhHHHHHHHHHHhCCCC-CChhhHHHHHHHHhhhchHHHHHHHHHHHHHc-CCCCChhHHHHHHHHHHhCCcHHHHHHH
Q 046446           11 EIEGALNLYSEMLSKGIK-PDVVIHNTLFIGLFEIHQVERAFKLFDEMQRD-GVAADTRTYTIFIDGLCKNGYIVESVEL   88 (244)
Q Consensus        11 ~~~~a~~~~~~~~~~~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~~~~~~~~~ll~~~~~~~~~~~a~~~   88 (244)
                      ....+...+......... .....+......+...+.+..+...+...... ........+......+...+....+.+.
T Consensus        38 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  117 (291)
T COG0457          38 ELAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALEL  117 (291)
T ss_pred             hHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHH
Confidence            344445555555444211 12456666666677777777777777766652 2334555666666777777777788888


Q ss_pred             HHHHHHhCCCccHHhHHHHHH-HHHcCCCHHHHHHHHHhcccCCc--cccHHHHHHHHHHHHccCChHHHHHHHHHHHHc
Q 046446           89 FRTLRILKCELDIQAYSCLID-GLCKSGRLEIALELFHSLPRGVL--VADVVTYSIMIHGLYNDGQMDKAHDLFLDMEEN  165 (244)
Q Consensus        89 ~~~~~~~~~~~~~~~~~~ll~-~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  165 (244)
                      +.........+ ......... .+...|+++.|...+.+......  ......+......+...++.+.+...+......
T Consensus       118 ~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  196 (291)
T COG0457         118 LEKALALDPDP-DLAEALLALGALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALKL  196 (291)
T ss_pred             HHHHHcCCCCc-chHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhh
Confidence            87777644222 222222233 67778888888888887754211  012334444444466677888888888777764


Q ss_pred             CCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchhhhhhhh
Q 046446          166 AVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFTVHE  233 (244)
Q Consensus       166 ~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  233 (244)
                      ........+..+...+...++++.+...+......... ....+..+...+...+..+.+...+....
T Consensus       197 ~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  263 (291)
T COG0457         197 NPDDDAEALLNLGLLYLKLGKYEEALEYYEKALELDPD-NAEALYNLALLLLELGRYEEALEALEKAL  263 (291)
T ss_pred             CcccchHHHHHhhHHHHHcccHHHHHHHHHHHHhhCcc-cHHHHhhHHHHHHHcCCHHHHHHHHHHHH
Confidence            22113556666777777777788888887777665321 23334444444445555566655555443

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=95.28  E-value=0.064  Score=26.13  Aligned_cols=24  Identities=8%  Similarity=0.070  Sum_probs=14.4

Q ss_pred             HHHHHHHHHhCCcHHHHHHHHHHH
Q 046446           69 YTIFIDGLCKNGYIVESVELFRTL   92 (244)
Q Consensus        69 ~~~ll~~~~~~~~~~~a~~~~~~~   92 (244)
                      |..|...|.+.|++++|+++|++.
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~a   25 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQA   25 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHH
Confidence            455666666666666666666663

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=95.27  E-value=0.9  Score=34.08  Aligned_cols=145  Identities=14%  Similarity=0.108  Sum_probs=95.3

Q ss_pred             HHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHH
Q 046446           39 IGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLE  118 (244)
Q Consensus        39 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~  118 (244)
                      ......|++.+|..+|+...+.... +...--.+..+|...|+.+.|..++..+....-.........-|..+.+.....
T Consensus       142 ~~~~~~e~~~~a~~~~~~al~~~~~-~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~  220 (304)
T COG3118         142 KELIEAEDFGEAAPLLKQALQAAPE-NSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATP  220 (304)
T ss_pred             hhhhhccchhhHHHHHHHHHHhCcc-cchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCC
Confidence            3456778999999999998886433 456667788999999999999999998765432122222223344444444444


Q ss_pred             HHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcC-CCCcHhHHHHHHHHHHhcCC
Q 046446          119 IALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENA-VAPNVITFGTLIHGFIRINE  186 (244)
Q Consensus       119 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~-~~p~~~~~~~l~~~~~~~g~  186 (244)
                      +...+-.+.-..  +-|...-..+...+...|+.+.|.+.+-.+.+.. -.-|...-..++..+.--|.
T Consensus       221 ~~~~l~~~~aad--Pdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~~Rk~lle~f~~~g~  287 (304)
T COG3118         221 EIQDLQRRLAAD--PDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGEARKTLLELFEAFGP  287 (304)
T ss_pred             CHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcHHHHHHHHHHHhcCC
Confidence            444444444443  3367777888889999999999988877766432 12245556666666665553

>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=95.26  E-value=0.6  Score=32.03  Aligned_cols=135  Identities=16%  Similarity=0.073  Sum_probs=87.2

Q ss_pred             HHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHh
Q 046446           16 LNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRIL   95 (244)
Q Consensus        16 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~   95 (244)
                      .+..+.+.+.+++|+...+..++..+.+.|++...    .++.+.++-+|+......+-.+..  ....+.++=-.|..+
T Consensus        14 lEYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L----~qllq~~Vi~DSk~lA~~LLs~~~--~~~~~~Ql~lDMLkR   87 (167)
T PF07035_consen   14 LEYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQL----HQLLQYHVIPDSKPLACQLLSLGN--QYPPAYQLGLDMLKR   87 (167)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHH----HHHHhhcccCCcHHHHHHHHHhHc--cChHHHHHHHHHHHH
Confidence            45566667789999999999999999999987654    456666777787776655544433  233344443333322


Q ss_pred             CCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHH
Q 046446           96 KCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEE  164 (244)
Q Consensus        96 ~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  164 (244)
                      =    ...+..+++.+...|++-+|.++.+......    ......++.+..+.+|...-..+++-..+
T Consensus        88 L----~~~~~~iievLL~~g~vl~ALr~ar~~~~~~----~~~~~~fLeAA~~~~D~~lf~~V~~ff~~  148 (167)
T PF07035_consen   88 L----GTAYEEIIEVLLSKGQVLEALRYARQYHKVD----SVPARKFLEAAANSNDDQLFYAVFRFFEE  148 (167)
T ss_pred             h----hhhHHHHHHHHHhCCCHHHHHHHHHHcCCcc----cCCHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            0    1134567788888999999999988764432    11224456666666666665555555544

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.24  E-value=0.31  Score=36.76  Aligned_cols=103  Identities=11%  Similarity=0.014  Sum_probs=69.4

Q ss_pred             CCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHc---CCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHH
Q 046446           26 GIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRD---GVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQ  102 (244)
Q Consensus        26 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~---~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  102 (244)
                      |.+.+..+...++.......+++.++.++-+++..   ...|+... .+.++.+.+ -++++++.++..=++.|+-||..
T Consensus        59 g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~-~~~irlllk-y~pq~~i~~l~npIqYGiF~dqf  136 (418)
T KOG4570|consen   59 GLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTI-HTWIRLLLK-YDPQKAIYTLVNPIQYGIFPDQF  136 (418)
T ss_pred             CCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccH-HHHHHHHHc-cChHHHHHHHhCcchhccccchh
Confidence            44555666666666666667788888777766543   11122222 233333333 36778888888888888888888


Q ss_pred             hHHHHHHHHHcCCCHHHHHHHHHhcccC
Q 046446          103 AYSCLIDGLCKSGRLEIALELFHSLPRG  130 (244)
Q Consensus       103 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~  130 (244)
                      +++.+|+.+.+.+++.+|..+.-.|...
T Consensus       137 ~~c~l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  137 TFCLLMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             hHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            8888888888888888888887776544

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=95.18  E-value=0.28  Score=29.94  Aligned_cols=45  Identities=11%  Similarity=0.194  Sum_probs=21.8

Q ss_pred             HHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHH
Q 046446          154 KAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMK  198 (244)
Q Consensus       154 ~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  198 (244)
                      ++.+-++.+....+.|++....+.+++|.+.+++..|.++++-.+
T Consensus        25 e~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK   69 (103)
T cd00923          25 ELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIK   69 (103)
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            334444444444444555555555555555555555555554443

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.

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=95.16  E-value=0.22  Score=30.71  Aligned_cols=45  Identities=9%  Similarity=-0.034  Sum_probs=21.6

Q ss_pred             HHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHH
Q 046446          119 IALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDME  163 (244)
Q Consensus       119 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~  163 (244)
                      +..+-+..+....+.|++....+.+.+|.+.+++..|.++|+.++
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK   72 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIK   72 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            344444444455555555555555555555555555555555544

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 ....

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=95.13  E-value=0.93  Score=40.42  Aligned_cols=80  Identities=15%  Similarity=0.165  Sum_probs=36.7

Q ss_pred             HHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCCh
Q 046446          108 IDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEP  187 (244)
Q Consensus       108 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~  187 (244)
                      +.+|..+|+|.+|+.+..++.... .--..+-..|+.-+...+++-+|-++..+....        ....+..+++...|
T Consensus       972 l~a~~~~~dWr~~l~~a~ql~~~~-de~~~~a~~L~s~L~e~~kh~eAa~il~e~~sd--------~~~av~ll~ka~~~ 1042 (1265)
T KOG1920|consen  972 LKAYKECGDWREALSLAAQLSEGK-DELVILAEELVSRLVEQRKHYEAAKILLEYLSD--------PEEAVALLCKAKEW 1042 (1265)
T ss_pred             HHHHHHhccHHHHHHHHHhhcCCH-HHHHHHHHHHHHHHHHcccchhHHHHHHHHhcC--------HHHHHHHHhhHhHH
Confidence            344444444444444444443321 001112245555555666666666555554431        12334444555566


Q ss_pred             hHHHHHHHH
Q 046446          188 SKVIELLHK  196 (244)
Q Consensus       188 ~~a~~~~~~  196 (244)
                      ++|.++...
T Consensus      1043 ~eAlrva~~ 1051 (1265)
T KOG1920|consen 1043 EEALRVASK 1051 (1265)
T ss_pred             HHHHHHHHh
Confidence            666655443

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.09  E-value=0.76  Score=38.87  Aligned_cols=115  Identities=11%  Similarity=0.133  Sum_probs=79.0

Q ss_pred             CCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHH
Q 046446           63 AADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIM  142 (244)
Q Consensus        63 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  142 (244)
                      ....-+.+--+.-+...|...+|.++-.+.+    -|+...|..-+.+++..+++++-+++-+..+.      +.-|.-.
T Consensus       681 ~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~aLa~~~kweeLekfAkskks------PIGy~PF  750 (829)
T KOG2280|consen  681 SFVDLSLHDTVTTLILIGQNKRAEQLKSDFK----IPDKRLWWLKLTALADIKKWEELEKFAKSKKS------PIGYLPF  750 (829)
T ss_pred             ccccCcHHHHHHHHHHccchHHHHHHHHhcC----CcchhhHHHHHHHHHhhhhHHHHHHHHhccCC------CCCchhH
Confidence            3344455555666777788888888777665    47888888888888888888876665554442      3456667


Q ss_pred             HHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHH
Q 046446          143 IHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHK  196 (244)
Q Consensus       143 i~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~  196 (244)
                      ..+|.+.|+.++|.+++.....         +.-...+|.+.|++.+|.++.-+
T Consensus       751 Ve~c~~~~n~~EA~KYiprv~~---------l~ekv~ay~~~~~~~eAad~A~~  795 (829)
T KOG2280|consen  751 VEACLKQGNKDEAKKYIPRVGG---------LQEKVKAYLRVGDVKEAADLAAE  795 (829)
T ss_pred             HHHHHhcccHHHHhhhhhccCC---------hHHHHHHHHHhccHHHHHHHHHH
Confidence            7788888888888887755432         11456777788888877776544

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=95.08  E-value=0.79  Score=32.46  Aligned_cols=194  Identities=19%  Similarity=0.106  Sum_probs=138.3

Q ss_pred             hhhhhcCChhHHHHHHHHHHhC-CCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHH-HHHhCCc
Q 046446            4 NGYCKNKEIEGALNLYSEMLSK-GIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFID-GLCKNGY   81 (244)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~-~~~~~~~   81 (244)
                      ..+...+++..+...+...... ........+......+...+++..+...+.........+ ......... .+...|+
T Consensus        67 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~  145 (291)
T COG0457          67 LALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDP-DLAEALLALGALYELGD  145 (291)
T ss_pred             HHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCc-chHHHHHHHHHHHHcCC
Confidence            4556678888888888877652 224556667777777888888999999999888754443 222333333 7889999


Q ss_pred             HHHHHHHHHHHHHhCC--CccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccc-cHHHHHHHHHHHHccCChHHHHHH
Q 046446           82 IVESVELFRTLRILKC--ELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVA-DVVTYSIMIHGLYNDGQMDKAHDL  158 (244)
Q Consensus        82 ~~~a~~~~~~~~~~~~--~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~~~~~~~~~~a~~~  158 (244)
                      ++.+...+.+......  ......+......+...++.+.+...+....... +. ....+..+...+...++++.+...
T Consensus       146 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~  224 (291)
T COG0457         146 YEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALKLN-PDDDAEALLNLGLLYLKLGKYEEALEY  224 (291)
T ss_pred             HHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhC-cccchHHHHHhhHHHHHcccHHHHHHH
Confidence            9999999999865321  1234444445555778899999999999988764 22 467788888889999999999999


Q ss_pred             HHHHHHcCCCCc-HhHHHHHHHHHHhcCChhHHHHHHHHHHHCC
Q 046446          159 FLDMEENAVAPN-VITFGTLIHGFIRINEPSKVIELLHKMKEKN  201 (244)
Q Consensus       159 ~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  201 (244)
                      +.......  |+ ...+......+...+..+.+...+.+.....
T Consensus       225 ~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  266 (291)
T COG0457         225 YEKALELD--PDNAEALYNLALLLLELGRYEEALEALEKALELD  266 (291)
T ss_pred             HHHHHhhC--cccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            99888642  33 3444455555556777899998888877653

>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=95.00  E-value=0.59  Score=30.57  Aligned_cols=61  Identities=5%  Similarity=0.062  Sum_probs=26.6

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchhhhhhhhhh
Q 046446          174 FGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFTVHERQ  235 (244)
Q Consensus       174 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  235 (244)
                      +...+.....+|+-++..+++.++.+ +-.+++...-.+..+|.+.|+..++-+++....++
T Consensus        89 vD~ALd~lv~~~kkDqLdki~~~l~k-n~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACek  149 (161)
T PF09205_consen   89 VDLALDILVKQGKKDQLDKIYNELKK-NEEINPEFLVKIANAYKKLGNTREANELLKEACEK  149 (161)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHhh-ccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHh
Confidence            33344444555555555555555443 22344445555555555555555555555444443

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=94.95  E-value=0.08  Score=25.77  Aligned_cols=25  Identities=16%  Similarity=0.149  Sum_probs=15.2

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHH
Q 046446          174 FGTLIHGFIRINEPSKVIELLHKMK  198 (244)
Q Consensus       174 ~~~l~~~~~~~g~~~~a~~~~~~~~  198 (244)
                      |..|...|.+.|++++|.+++++..
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~aL   26 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQAL   26 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            5556666666666666666666633

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=94.92  E-value=0.39  Score=29.37  Aligned_cols=60  Identities=3%  Similarity=0.082  Sum_probs=31.6

Q ss_pred             HHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHH
Q 046446           49 RAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLID  109 (244)
Q Consensus        49 ~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  109 (244)
                      ++.+-++.+....+.|++.+..+.+++|-+.+|+..|.++++-.+... ..+...|..++.
T Consensus        25 e~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~-~~~~~~y~~~lq   84 (103)
T cd00923          25 ELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKC-GAHKEIYPYILQ   84 (103)
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHc-cCchhhHHHHHH
Confidence            344444555555556666666666666666666666666666554321 123334544443

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.

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=94.89  E-value=0.75  Score=31.21  Aligned_cols=51  Identities=20%  Similarity=0.121  Sum_probs=23.8

Q ss_pred             hCCcHHHHHHHHHHHHHhCCCccHHh-HHHHHHHHHcCCCHHHHHHHHHhcccC
Q 046446           78 KNGYIVESVELFRTLRILKCELDIQA-YSCLIDGLCKSGRLEIALELFHSLPRG  130 (244)
Q Consensus        78 ~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~ll~~~~~~~~~~~a~~~~~~~~~~  130 (244)
                      +.++.+++..++..+.-..  |.... -..-...+...|++.+|..+|+++...
T Consensus        22 ~~~~~~D~e~lL~ALrvLR--P~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~   73 (160)
T PF09613_consen   22 RLGDPDDAEALLDALRVLR--PEFPELDLFDGWLHIVRGDWDDALRLLRELEER   73 (160)
T ss_pred             ccCChHHHHHHHHHHHHhC--CCchHHHHHHHHHHHHhCCHHHHHHHHHHHhcc
Confidence            4455555555555554432  22111 111223344555666666666665544

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.84  E-value=2.2  Score=36.32  Aligned_cols=115  Identities=7%  Similarity=0.026  Sum_probs=87.6

Q ss_pred             CccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHH
Q 046446           98 ELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTL  177 (244)
Q Consensus        98 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l  177 (244)
                      .....+.+--+.-+...|+..+|.++-.+++    .||...|-.-+.+++..+++++.+++-+..+      .+..|.-.
T Consensus       681 ~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~aLa~~~kweeLekfAkskk------sPIGy~PF  750 (829)
T KOG2280|consen  681 SFVDLSLHDTVTTLILIGQNKRAEQLKSDFK----IPDKRLWWLKLTALADIKKWEELEKFAKSKK------SPIGYLPF  750 (829)
T ss_pred             ccccCcHHHHHHHHHHccchHHHHHHHHhcC----CcchhhHHHHHHHHHhhhhHHHHHHHHhccC------CCCCchhH
Confidence            3444455666667778899999999988887    4788889999999999999998777665443      35668888


Q ss_pred             HHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchhhhhh
Q 046446          178 IHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFTV  231 (244)
Q Consensus       178 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  231 (244)
                      +.+|.+.|+.++|..++-+....         .-.+.+|.+.|++.+|.+.--+
T Consensus       751 Ve~c~~~~n~~EA~KYiprv~~l---------~ekv~ay~~~~~~~eAad~A~~  795 (829)
T KOG2280|consen  751 VEACLKQGNKDEAKKYIPRVGGL---------QEKVKAYLRVGDVKEAADLAAE  795 (829)
T ss_pred             HHHHHhcccHHHHhhhhhccCCh---------HHHHHHHHHhccHHHHHHHHHH
Confidence            99999999999999887654221         1577889999998888766543

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=94.81  E-value=2.1  Score=35.90  Aligned_cols=183  Identities=10%  Similarity=0.038  Sum_probs=111.8

Q ss_pred             hhHHHHHHHHHHhCCCCCChhhHHHHHHH---HhhhchHHHHHHHHHHHHH-------cCCCCChhHHHHHHHHHHhCC-
Q 046446           12 IEGALNLYSEMLSKGIKPDVVIHNTLFIG---LFEIHQVERAFKLFDEMQR-------DGVAADTRTYTIFIDGLCKNG-   80 (244)
Q Consensus        12 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~---~~~~~~~~~a~~~~~~m~~-------~~~~~~~~~~~~ll~~~~~~~-   80 (244)
                      ...|.+.++.....|. .........+..   +....+.+.|+.+|+.+.+       .|   .+....-+..+|.+.. 
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 LSEAFKYYREAAKLGH-SEAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQGLG  303 (552)
T ss_pred             hhHHHHHHHHHHhhcc-hHHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcCCC
Confidence            5678888888887762 222222222222   3355789999999998877       44   3446667777777643 


Q ss_pred             ----cHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHc-CCCHHHHHHHHHhcccCCccccHHHHHHHHHHHH--ccCChH
Q 046446           81 ----YIVESVELFRTLRILKCELDIQAYSCLIDGLCK-SGRLEIALELFHSLPRGVLVADVVTYSIMIHGLY--NDGQMD  153 (244)
Q Consensus        81 ----~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~--~~~~~~  153 (244)
                          +.+.|+.++....+.|. |+....-..+..... ..+...|.++|...-..|.. ...-+..++....  -..+..
T Consensus       304 ~~~~d~~~A~~~~~~aA~~g~-~~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~~-~A~~~la~~y~~G~gv~r~~~  381 (552)
T KOG1550|consen  304 VEKIDYEKALKLYTKAAELGN-PDAQYLLGVLYETGTKERDYRRAFEYYSLAAKAGHI-LAIYRLALCYELGLGVERNLE  381 (552)
T ss_pred             CccccHHHHHHHHHHHHhcCC-chHHHHHHHHHHcCCccccHHHHHHHHHHHHHcCCh-HHHHHHHHHHHhCCCcCCCHH
Confidence                66779999999988884 565555444433333 24678999999999888732 3333333322222  345788


Q ss_pred             HHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCC
Q 046446          154 KAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNV  202 (244)
Q Consensus       154 ~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  202 (244)
                      .|..++...-+.|.......... +..+.. ++++.+.-.+..+.+.|.
T Consensus       382 ~A~~~~k~aA~~g~~~A~~~~~~-~~~~g~-~~~~~~~~~~~~~a~~g~  428 (552)
T KOG1550|consen  382 LAFAYYKKAAEKGNPSAAYLLGA-FYEYGV-GRYDTALALYLYLAELGY  428 (552)
T ss_pred             HHHHHHHHHHHccChhhHHHHHH-HHHHcc-ccccHHHHHHHHHHHhhh
Confidence            88888888888773222322222 233333 666666666666655543

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=94.73  E-value=0.026  Score=37.66  Aligned_cols=52  Identities=12%  Similarity=0.182  Sum_probs=23.9

Q ss_pred             HHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHH
Q 046446           39 IGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFR   90 (244)
Q Consensus        39 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~   90 (244)
                      ..+.+.+.++....+++.+...+...+....+.++..|++.++.+...++++
T Consensus        15 ~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~   66 (143)
T PF00637_consen   15 SAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLK   66 (143)
T ss_dssp             HHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTT
T ss_pred             HHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcc
Confidence            3344444444455555555544333344455555555555544444444444

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.

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=94.63  E-value=1.7  Score=34.11  Aligned_cols=157  Identities=15%  Similarity=0.189  Sum_probs=91.0

Q ss_pred             hhcCChhHHHHHHHHHHhCCCCCChhhH--HHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHH
Q 046446            7 CKNKEIEGALNLYSEMLSKGIKPDVVIH--NTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVE   84 (244)
Q Consensus         7 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~--~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~   84 (244)
                      .-.|+++.|.+-|+-|...   |.....  ..|.-..-+.|..+.|..+-++.-..-. --...+...+...+..|+|+.
T Consensus       131 l~eG~~~~Ar~kfeAMl~d---PEtRllGLRgLyleAqr~GareaAr~yAe~Aa~~Ap-~l~WA~~AtLe~r~~~gdWd~  206 (531)
T COG3898         131 LLEGDYEDARKKFEAMLDD---PETRLLGLRGLYLEAQRLGAREAARHYAERAAEKAP-QLPWAARATLEARCAAGDWDG  206 (531)
T ss_pred             HhcCchHHHHHHHHHHhcC---hHHHHHhHHHHHHHHHhcccHHHHHHHHHHHHhhcc-CCchHHHHHHHHHHhcCChHH
Confidence            3469999999999999974   333322  2333334467888888888887766522 245677888899999999999


Q ss_pred             HHHHHHHHHHhC-CCccHHh--HHHHHHHHH---cCCCHHHHHHHHHhcccCCccccHH-HHHHHHHHHHccCChHHHHH
Q 046446           85 SVELFRTLRILK-CELDIQA--YSCLIDGLC---KSGRLEIALELFHSLPRGVLVADVV-TYSIMIHGLYNDGQMDKAHD  157 (244)
Q Consensus        85 a~~~~~~~~~~~-~~~~~~~--~~~ll~~~~---~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~li~~~~~~~~~~~a~~  157 (244)
                      |+++++.-+... +.++..-  -..|+.+-.   -.-+...|...-.+..+.  .||.. .-..-..++.+.|+..++-.
T Consensus       207 AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A~~a~KL--~pdlvPaav~AAralf~d~~~rKg~~  284 (531)
T COG3898         207 ALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDDALEANKL--APDLVPAAVVAARALFRDGNLRKGSK  284 (531)
T ss_pred             HHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHhhc--CCccchHHHHHHHHHHhccchhhhhh
Confidence            999998765433 2232221  111111111   112333444433333322  33322 22233455666677777777


Q ss_pred             HHHHHHHcCCCC
Q 046446          158 LFLDMEENAVAP  169 (244)
Q Consensus       158 ~~~~~~~~~~~p  169 (244)
                      +++.+.+....|
T Consensus       285 ilE~aWK~ePHP  296 (531)
T COG3898         285 ILETAWKAEPHP  296 (531)
T ss_pred             HHHHHHhcCCCh
Confidence            777666654333

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=94.62  E-value=2.5  Score=37.90  Aligned_cols=83  Identities=14%  Similarity=0.174  Sum_probs=46.6

Q ss_pred             HHHHHccCChHHHHHHHHHHHHcCCCCcHhH--HHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcc
Q 046446          143 IHGLYNDGQMDKAHDLFLDMEENAVAPNVIT--FGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNE  220 (244)
Q Consensus       143 i~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~--~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  220 (244)
                      +.+|...|+|.+|+.+...+...   -+...  -..|+.-+...++.-+|-++..+....        ....+..|++..
T Consensus       972 l~a~~~~~dWr~~l~~a~ql~~~---~de~~~~a~~L~s~L~e~~kh~eAa~il~e~~sd--------~~~av~ll~ka~ 1040 (1265)
T KOG1920|consen  972 LKAYKECGDWREALSLAAQLSEG---KDELVILAEELVSRLVEQRKHYEAAKILLEYLSD--------PEEAVALLCKAK 1040 (1265)
T ss_pred             HHHHHHhccHHHHHHHHHhhcCC---HHHHHHHHHHHHHHHHHcccchhHHHHHHHHhcC--------HHHHHHHHhhHh
Confidence            45555556666666555544321   11111  145666667777777777776665442        123445666777


Q ss_pred             ccccchhhhhhhhhhh
Q 046446          221 ISLNSLPSFTVHERQE  236 (244)
Q Consensus       221 ~~~~a~~~~~~~~~~~  236 (244)
                      .+++|+.+.....+.+
T Consensus      1041 ~~~eAlrva~~~~~~d 1056 (1265)
T KOG1920|consen 1041 EWEEALRVASKAKRDD 1056 (1265)
T ss_pred             HHHHHHHHHHhcccch
Confidence            7777777666555433

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=94.60  E-value=2.1  Score=34.94  Aligned_cols=180  Identities=13%  Similarity=0.042  Sum_probs=107.1

Q ss_pred             CChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHH
Q 046446           29 PDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLI  108 (244)
Q Consensus        29 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll  108 (244)
                      .|....-+++..+++...+.-+..+..+|..-|  -+...|..++.+|... ..+.-..+++++.+..+ .+.+.-.-|.
T Consensus        64 l~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en-~n~~l~~lWer~ve~df-nDvv~~ReLa  139 (711)
T COG1747          64 LDDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVEYDF-NDVVIGRELA  139 (711)
T ss_pred             ccchHHHHHHHHhccchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcc-hhHHHHHHHH
Confidence            345556667777777777777777777777754  3566777777877777 44677777777777654 2334344444


Q ss_pred             HHHHcCCCHHHHHHHHHhcccCCcc-----ccHHHHHHHHHHHHccCChHHHHHHHHHHHH-cCCCCcHhHHHHHHHHHH
Q 046446          109 DGLCKSGRLEIALELFHSLPRGVLV-----ADVVTYSIMIHGLYNDGQMDKAHDLFLDMEE-NAVAPNVITFGTLIHGFI  182 (244)
Q Consensus       109 ~~~~~~~~~~~a~~~~~~~~~~~~~-----~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~-~~~~p~~~~~~~l~~~~~  182 (244)
                      ..|-+ ++.+.+..+|......-++     .-...|.-+...-  ..+.+..+++...+.. .|...-...+.-+..-|.
T Consensus       140 ~~yEk-ik~sk~a~~f~Ka~yrfI~~~q~~~i~evWeKL~~~i--~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Ys  216 (711)
T COG1747         140 DKYEK-IKKSKAAEFFGKALYRFIPRRQNAAIKEVWEKLPELI--GDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKYS  216 (711)
T ss_pred             HHHHH-hchhhHHHHHHHHHHHhcchhhhhhHHHHHHHHHHhc--cccHHHHHHHHHHHHHhhccchHHHHHHHHHHHhc
Confidence            44444 6666666666665433111     1233555555432  3456666666666553 333334455556666777


Q ss_pred             hcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHH
Q 046446          183 RINEPSKVIELLHKMKEKNVMPDASIVSIVVDLL  216 (244)
Q Consensus       183 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  216 (244)
                      ...++.+|++++..+.+..-+ |...-..++..+
T Consensus       217 ~~eN~~eai~Ilk~il~~d~k-~~~ar~~~i~~l  249 (711)
T COG1747         217 ENENWTEAIRILKHILEHDEK-DVWARKEIIENL  249 (711)
T ss_pred             cccCHHHHHHHHHHHhhhcch-hhhHHHHHHHHH
Confidence            788888888888877665422 444444444433

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=94.51  E-value=0.65  Score=28.74  Aligned_cols=64  Identities=13%  Similarity=0.144  Sum_probs=40.9

Q ss_pred             hHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHH
Q 046446          152 MDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLL  216 (244)
Q Consensus       152 ~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  216 (244)
                      .-+..+-++.+....+.|++......+.+|.+.+++..|.++++-.+.+ +.+....|..+++-+
T Consensus        26 ~we~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K-~~~~~~~Y~~~lqEl   89 (108)
T PF02284_consen   26 GWELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDK-CGNKKEIYPYILQEL   89 (108)
T ss_dssp             HHHHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TTT-TTHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-ccChHHHHHHHHHHH
Confidence            3356666777777777888888888888888888888888888877654 222333676666644

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 ....

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=94.48  E-value=0.024  Score=37.82  Aligned_cols=128  Identities=14%  Similarity=0.173  Sum_probs=80.8

Q ss_pred             hhhhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCc
Q 046446            2 LINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGY   81 (244)
Q Consensus         2 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~   81 (244)
                      +++.+.+.+.+..+...++.+...+...+....+.++..|++.+..+...++++.       .+..-...++..|.+.|.
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~-------~~~yd~~~~~~~c~~~~l   85 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKT-------SNNYDLDKALRLCEKHGL   85 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTS-------SSSS-CTHHHHHHHTTTS
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHccc-------ccccCHHHHHHHHHhcch
Confidence            5778888999999999999999876567788999999999999877888877761       122333466777777777


Q ss_pred             HHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCC
Q 046446           82 IVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQ  151 (244)
Q Consensus        82 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~  151 (244)
                      ++++.-++.++....-         .+..+...++++.|.++..+      .++...|..++..+...+.
T Consensus        86 ~~~a~~Ly~~~~~~~~---------al~i~~~~~~~~~a~e~~~~------~~~~~l~~~l~~~~l~~~~  140 (143)
T PF00637_consen   86 YEEAVYLYSKLGNHDE---------ALEILHKLKDYEEAIEYAKK------VDDPELWEQLLKYCLDSKP  140 (143)
T ss_dssp             HHHHHHHHHCCTTHTT---------CSSTSSSTHCSCCCTTTGGG------CSSSHHHHHHHHHHCTSTC
T ss_pred             HHHHHHHHHHcccHHH---------HHHHHHHHccHHHHHHHHHh------cCcHHHHHHHHHHHHhcCc
Confidence            7777766665432211         00112233344444422221      1346677777777665544

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.

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.47  E-value=1.4  Score=32.29  Aligned_cols=90  Identities=11%  Similarity=0.094  Sum_probs=53.8

Q ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHH-----hCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccC---CccccHHHHH
Q 046446           69 YTIFIDGLCKNGYIVESVELFRTLRI-----LKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRG---VLVADVVTYS  140 (244)
Q Consensus        69 ~~~ll~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~  140 (244)
                      +..+-+.+.+...+++|-..+.+-..     ......-..|-+.|-.|.-..++..|.++++...+.   .-+-+..+..
T Consensus       153 ~gk~sr~lVrl~kf~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~le  232 (308)
T KOG1585|consen  153 YGKCSRVLVRLEKFTEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLE  232 (308)
T ss_pred             HHHhhhHhhhhHHhhHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHH
Confidence            33444455555555555444433211     111112234566666777788999999999985443   2344677888


Q ss_pred             HHHHHHHccCChHHHHHHH
Q 046446          141 IMIHGLYNDGQMDKAHDLF  159 (244)
Q Consensus       141 ~li~~~~~~~~~~~a~~~~  159 (244)
                      .|+.+|- .|+.+++..++
T Consensus       233 nLL~ayd-~gD~E~~~kvl  250 (308)
T KOG1585|consen  233 NLLTAYD-EGDIEEIKKVL  250 (308)
T ss_pred             HHHHHhc-cCCHHHHHHHH
Confidence            8888874 57777776655

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=94.39  E-value=2  Score=33.93  Aligned_cols=154  Identities=11%  Similarity=0.022  Sum_probs=81.3

Q ss_pred             hhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHH--HHhhhchHHHHHHHHHHHHHcCCCCChhHHHHH----------
Q 046446            5 GYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFI--GLFEIHQVERAFKLFDEMQRDGVAADTRTYTIF----------   72 (244)
Q Consensus         5 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~--~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l----------   72 (244)
                      ++.-.|++++|.+.--..++..   ....+...++  ++.-.++.+.+...|++....  .|+...-...          
T Consensus       178 cl~~~~~~~~a~~ea~~ilkld---~~n~~al~vrg~~~yy~~~~~ka~~hf~qal~l--dpdh~~sk~~~~~~k~le~~  252 (486)
T KOG0550|consen  178 CLAFLGDYDEAQSEAIDILKLD---ATNAEALYVRGLCLYYNDNADKAINHFQQALRL--DPDHQKSKSASMMPKKLEVK  252 (486)
T ss_pred             hhhhcccchhHHHHHHHHHhcc---cchhHHHHhcccccccccchHHHHHHHhhhhcc--ChhhhhHHhHhhhHHHHHHH
Confidence            3444566666666665555542   1112222222  233345666777777666553  3333221111          


Q ss_pred             ---HHHHHhCCcHHHHHHHHHHHHHhC---CCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCcccc-HHHHHHHHHH
Q 046446           73 ---IDGLCKNGYIVESVELFRTLRILK---CELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVAD-VVTYSIMIHG  145 (244)
Q Consensus        73 ---l~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~  145 (244)
                         .+-..+.|.+..|.+.|.+.+...   ..++...|........+.|+.++|+.--+.....+  +. ...+..-..+
T Consensus       253 k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD--~syikall~ra~c  330 (486)
T KOG0550|consen  253 KERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKID--SSYIKALLRRANC  330 (486)
T ss_pred             HhhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcC--HHHHHHHHHHHHH
Confidence               122345677777777777766532   33455556666666777777777776666655542  11 1122222344


Q ss_pred             HHccCChHHHHHHHHHHHHc
Q 046446          146 LYNDGQMDKAHDLFLDMEEN  165 (244)
Q Consensus       146 ~~~~~~~~~a~~~~~~~~~~  165 (244)
                      +...++|++|.+-++...+.
T Consensus       331 ~l~le~~e~AV~d~~~a~q~  350 (486)
T KOG0550|consen  331 HLALEKWEEAVEDYEKAMQL  350 (486)
T ss_pred             HHHHHHHHHHHHHHHHHHhh
Confidence            44566777777777765543

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=94.38  E-value=2.2  Score=34.23  Aligned_cols=139  Identities=14%  Similarity=0.109  Sum_probs=87.3

Q ss_pred             HhhhchHHHHHHHHHHHHHcCCCCC------hhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHH--HH
Q 046446           41 LFEIHQVERAFKLFDEMQRDGVAAD------TRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDG--LC  112 (244)
Q Consensus        41 ~~~~~~~~~a~~~~~~m~~~~~~~~------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~--~~  112 (244)
                      +-+.+++.++.++|.+..+.. ..+      ....+.++++|... +.+.....+....+..  | ...|-.+..+  +-
T Consensus        16 Lqkq~~~~esEkifskI~~e~-~~~~f~lkeEvl~grilnAffl~-nld~Me~~l~~l~~~~--~-~s~~l~LF~~L~~Y   90 (549)
T PF07079_consen   16 LQKQKKFQESEKIFSKIYDEK-ESSPFLLKEEVLGGRILNAFFLN-NLDLMEKQLMELRQQF--G-KSAYLPLFKALVAY   90 (549)
T ss_pred             HHHHhhhhHHHHHHHHHHHHh-hcchHHHHHHHHhhHHHHHHHHh-hHHHHHHHHHHHHHhc--C-CchHHHHHHHHHHH
Confidence            345688999999999887762 222      23345677887764 5666666666665542  2 2233333332  34


Q ss_pred             cCCCHHHHHHHHHhcccC--Cccc------------cHHHHHHHHHHHHccCChHHHHHHHHHHHHcC----CCCcHhHH
Q 046446          113 KSGRLEIALELFHSLPRG--VLVA------------DVVTYSIMIHGLYNDGQMDKAHDLFLDMEENA----VAPNVITF  174 (244)
Q Consensus       113 ~~~~~~~a~~~~~~~~~~--~~~~------------~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~----~~p~~~~~  174 (244)
                      +.+.+.+|.+.+..-...  +..|            |...=+..+..+...|++.++..+++.+...=    ..-+..+|
T Consensus        91 ~~k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~y  170 (549)
T PF07079_consen   91 KQKEYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMY  170 (549)
T ss_pred             HhhhHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHH
Confidence            678888888877665543  2111            11222556677788999999999998877543    33578888


Q ss_pred             HHHHHHHHhc
Q 046446          175 GTLIHGFIRI  184 (244)
Q Consensus       175 ~~l~~~~~~~  184 (244)
                      +.++-.+.++
T Consensus       171 d~~vlmlsrS  180 (549)
T PF07079_consen  171 DRAVLMLSRS  180 (549)
T ss_pred             HHHHHHHhHH
Confidence            8877776654

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=94.37  E-value=1  Score=30.54  Aligned_cols=112  Identities=16%  Similarity=0.045  Sum_probs=66.5

Q ss_pred             HHHHcCCCHHHHHHHHHhcccCCccccHHHHH-HHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCCh
Q 046446          109 DGLCKSGRLEIALELFHSLPRGVLVADVVTYS-IMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEP  187 (244)
Q Consensus       109 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~  187 (244)
                      ..-...++.+++..++..+.-.  .|...... .-...+...|++.+|.++|+++.+..  |....-..|+..|....+-
T Consensus        18 ~~al~~~~~~D~e~lL~ALrvL--RP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~--~~~p~~kALlA~CL~~~~D   93 (160)
T PF09613_consen   18 SVALRLGDPDDAEALLDALRVL--RPEFPELDLFDGWLHIVRGDWDDALRLLRELEERA--PGFPYAKALLALCLYALGD   93 (160)
T ss_pred             HHHHccCChHHHHHHHHHHHHh--CCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccC--CCChHHHHHHHHHHHHcCC
Confidence            3345677899999999988765  34432222 22344568899999999999987653  4444445555555544333


Q ss_pred             hHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchh
Q 046446          188 SKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLP  227 (244)
Q Consensus       188 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  227 (244)
                      ..-...-.++.+.+-.|+  +. .+++.+....+...|..
T Consensus        94 ~~Wr~~A~evle~~~d~~--a~-~Lv~~Ll~~~~~~~a~~  130 (160)
T PF09613_consen   94 PSWRRYADEVLESGADPD--AR-ALVRALLARADLEPAHE  130 (160)
T ss_pred             hHHHHHHHHHHhcCCChH--HH-HHHHHHHHhccccchhh
Confidence            333344455666653333  32 45666666555544443

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=94.35  E-value=0.96  Score=30.06  Aligned_cols=54  Identities=22%  Similarity=0.183  Sum_probs=26.5

Q ss_pred             HhCCcHHHHHHHHHHHHHhC--CCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccC
Q 046446           77 CKNGYIVESVELFRTLRILK--CELDIQAYSCLIDGLCKSGRLEIALELFHSLPRG  130 (244)
Q Consensus        77 ~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  130 (244)
                      .+.|++++|.+.|+.+..+-  -+-...+--.|+.+|.+.+++++|...++++.+.
T Consensus        21 l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirL   76 (142)
T PF13512_consen   21 LQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRL   76 (142)
T ss_pred             HHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHh
Confidence            34455555555555555431  0122333444555555555555555555555443

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=94.28  E-value=0.079  Score=25.48  Aligned_cols=21  Identities=29%  Similarity=0.358  Sum_probs=8.9

Q ss_pred             cHHhHHHHHHHHHcCCCHHHH
Q 046446          100 DIQAYSCLIDGLCKSGRLEIA  120 (244)
Q Consensus       100 ~~~~~~~ll~~~~~~~~~~~a  120 (244)
                      +..+|+.+...|...|++++|
T Consensus        12 n~~a~~nla~~~~~~g~~~~A   32 (34)
T PF13431_consen   12 NAEAYNNLANLYLNQGDYEEA   32 (34)
T ss_pred             CHHHHHHHHHHHHHCcCHHhh
Confidence            344444444444444444443

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=93.88  E-value=1.5  Score=32.74  Aligned_cols=118  Identities=12%  Similarity=0.069  Sum_probs=77.9

Q ss_pred             hhcCChhHHHHHHHHHHhC-----CC-CCC-------hhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHH
Q 046446            7 CKNKEIEGALNLYSEMLSK-----GI-KPD-------VVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFI   73 (244)
Q Consensus         7 ~~~~~~~~a~~~~~~~~~~-----~~-~~~-------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll   73 (244)
                      .-..||..|++.-++-.+.     +. .++       ...+..-|.+++..++|.+++...-+.-+..-...+.+....|
T Consensus        46 vV~rdF~aal~tCerglqsL~~~a~~ee~~~~~~evK~sLcvvGIQALAEmnrWreVLsWvlqyYq~pEklPpkIleLCI  125 (309)
T PF07163_consen   46 VVHRDFQAALETCERGLQSLASDADAEEPAGSSLEVKCSLCVVGIQALAEMNRWREVLSWVLQYYQVPEKLPPKILELCI  125 (309)
T ss_pred             HHHHHHHHHHHHHHHHHHHhcccccccccccchhhhhhhhhhhhHHHHHHHhhHHHHHHHHHHHhcCcccCCHHHHHHHH
Confidence            3455667776666654332     01 111       1223445788999999999988876665543344556677778


Q ss_pred             HHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHH-----cCCCHHHHHHHH
Q 046446           74 DGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLC-----KSGRLEIALELF  124 (244)
Q Consensus        74 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-----~~~~~~~a~~~~  124 (244)
                      -.|++.+.+..+.++-..-.+..-..+..-|.+++..|.     =.|.+++|+++.
T Consensus       126 LLysKv~Ep~amlev~~~WL~~p~Nq~lp~y~~vaELyLl~VLlPLG~~~eAeelv  181 (309)
T PF07163_consen  126 LLYSKVQEPAAMLEVASAWLQDPSNQSLPEYGTVAELYLLHVLLPLGHFSEAEELV  181 (309)
T ss_pred             HHHHHhcCHHHHHHHHHHHHhCcccCCchhhHHHHHHHHHHHHhccccHHHHHHHH
Confidence            889999999999888876665432334444777666554     469999999887

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

>PF11207 DUF2989: Protein of unknown function (DUF2989); InterPro: IPR021372 Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed

Probab=93.63  E-value=1.3  Score=31.27  Aligned_cols=70  Identities=19%  Similarity=0.157  Sum_probs=30.3

Q ss_pred             HHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHC---CCCCChhhHHHHHHHHHhccccccc
Q 046446          155 AHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEK---NVMPDASIVSIVVDLLAKNEISLNS  225 (244)
Q Consensus       155 a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~g~~~~a  225 (244)
                      |.+.|-.+...+..-++.....+...|. ..+.+++..++.+..+.   +-.+|+..+..|+..|.+.|+.+.|
T Consensus       125 A~~~fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~A  197 (203)
T PF11207_consen  125 ALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQA  197 (203)
T ss_pred             HHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhhh
Confidence            3444444443333333333333333333 34445555555444432   2244455555555555555554443

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=93.60  E-value=3.4  Score=33.77  Aligned_cols=165  Identities=13%  Similarity=0.008  Sum_probs=121.6

Q ss_pred             CCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHH
Q 046446           63 AADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIM  142 (244)
Q Consensus        63 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  142 (244)
                      ..|.....+++..+++...+.-++.+..+|...|  -+...|..++.+|... ..+.-..+|+++.+..+. |++.-..|
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            4466777889999999999999999999999876  4788899999999998 557788899988887532 34444444


Q ss_pred             HHHHHccCChHHHHHHHHHHHHcCCCCc------HhHHHHHHHHHHhcCChhHHHHHHHHHHHC-CCCCChhhHHHHHHH
Q 046446          143 IHGLYNDGQMDKAHDLFLDMEENAVAPN------VITFGTLIHGFIRINEPSKVIELLHKMKEK-NVMPDASIVSIVVDL  215 (244)
Q Consensus       143 i~~~~~~~~~~~a~~~~~~~~~~~~~p~------~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~  215 (244)
                      ...|- .++...+..+|..+...= .|.      ...|..+...  -..+.+....+...+... |...-...+.-+-..
T Consensus       139 a~~yE-kik~sk~a~~f~Ka~yrf-I~~~q~~~i~evWeKL~~~--i~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~  214 (711)
T COG1747         139 ADKYE-KIKKSKAAEFFGKALYRF-IPRRQNAAIKEVWEKLPEL--IGDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKK  214 (711)
T ss_pred             HHHHH-HhchhhHHHHHHHHHHHh-cchhhhhhHHHHHHHHHHh--ccccHHHHHHHHHHHHHhhccchHHHHHHHHHHH
Confidence            44444 488899999998877542 221      2345555442  245777788877777654 555566677778889


Q ss_pred             HHhccccccchhhhhhhhhh
Q 046446          216 LAKNEISLNSLPSFTVHERQ  235 (244)
Q Consensus       216 ~~~~g~~~~a~~~~~~~~~~  235 (244)
                      |....++.+++++++.+.+.
T Consensus       215 Ys~~eN~~eai~Ilk~il~~  234 (711)
T COG1747         215 YSENENWTEAIRILKHILEH  234 (711)
T ss_pred             hccccCHHHHHHHHHHHhhh
Confidence            99999999999999865543

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=93.59  E-value=3.4  Score=33.63  Aligned_cols=75  Identities=16%  Similarity=0.106  Sum_probs=54.3

Q ss_pred             HHHHHHHhCCcHHHHHHHHHHHHHhC-CCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCcccc-HHHHHHHHHH
Q 046446           71 IFIDGLCKNGYIVESVELFRTLRILK-CELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVAD-VVTYSIMIHG  145 (244)
Q Consensus        71 ~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~  145 (244)
                      .+..++-+.|+.++|.+.+++|.+.. ...+..+...|+.++...+.+.++..++.+-.+...+.+ ...|+..+--
T Consensus       264 RLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpkSAti~YTaALLk  340 (539)
T PF04184_consen  264 RLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPKSATICYTAALLK  340 (539)
T ss_pred             HHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCchHHHHHHHHHHH
Confidence            45556667899999999999997653 223455778899999999999999999999765443222 4456655533

The molecular function of this protein is uncertain.

>PF11207 DUF2989: Protein of unknown function (DUF2989); InterPro: IPR021372 Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed

Probab=93.58  E-value=1.3  Score=31.30  Aligned_cols=75  Identities=11%  Similarity=0.012  Sum_probs=59.2

Q ss_pred             hHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHh---CCCccHHhHHHHHHHHHcCCCHHHHH
Q 046446           46 QVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRIL---KCELDIQAYSCLIDGLCKSGRLEIAL  121 (244)
Q Consensus        46 ~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~ll~~~~~~~~~~~a~  121 (244)
                      .-+.|.+.|-++...+.--++.....|...|. ..|.+++.+++-+..+.   +-.+|+..+.+|...+.+.|+++.|.
T Consensus       121 ~d~~A~~~fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~AY  198 (203)
T PF11207_consen  121 GDQEALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQAY  198 (203)
T ss_pred             CcHHHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhhhh
Confidence            45778888888888776656666666666666 56889999999887764   23678999999999999999999885

>PRK11906 transcriptional regulator; Provisional

Probab=93.56  E-value=3.3  Score=33.39  Aligned_cols=160  Identities=14%  Similarity=0.148  Sum_probs=102.1

Q ss_pred             hhH--HHHHHHHhhh-----chHHHHHHHHHHHHHc-CCCCC-hhHHHHHHHHHHh---------CCcHHHHHHHHHHHH
Q 046446           32 VIH--NTLFIGLFEI-----HQVERAFKLFDEMQRD-GVAAD-TRTYTIFIDGLCK---------NGYIVESVELFRTLR   93 (244)
Q Consensus        32 ~~~--~~li~~~~~~-----~~~~~a~~~~~~m~~~-~~~~~-~~~~~~ll~~~~~---------~~~~~~a~~~~~~~~   93 (244)
                      ..|  ...+++....     ...+.|+.+|.+.... .+.|+ ...|..+..++..         ..+..+|.++-++..
T Consensus       252 ~a~~~d~ylrg~~~~~~~t~~~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAv  331 (458)
T PRK11906        252 NHYLSDEMLAGKKELYDFTPESIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVS  331 (458)
T ss_pred             cchhhHHHHHHHHHhhccCHHHHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHH
Confidence            445  5555554432     3467888889888722 24444 3334333333221         234556777777788


Q ss_pred             HhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCc---
Q 046446           94 ILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPN---  170 (244)
Q Consensus        94 ~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~---  170 (244)
                      +.+ +.|..+...+..+....++++.|...|++....+ +-...+|....-.+.-.|+.++|.+.++...+.  .|.   
T Consensus       332 eld-~~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L~-Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrL--sP~~~~  407 (458)
T PRK11906        332 DIT-TVDGKILAIMGLITGLSGQAKVSHILFEQAKIHS-TDIASLYYYRALVHFHNEKIEEARICIDKSLQL--EPRRRK  407 (458)
T ss_pred             hcC-CCCHHHHHHHHHHHHhhcchhhHHHHHHHHhhcC-CccHHHHHHHHHHHHHcCCHHHHHHHHHHHhcc--CchhhH
Confidence            777 5788888888888888888999999999988774 223556666666677789999999999986653  233   


Q ss_pred             HhHHHHHHHHHHhcCChhHHHHHHHH
Q 046446          171 VITFGTLIHGFIRINEPSKVIELLHK  196 (244)
Q Consensus       171 ~~~~~~l~~~~~~~g~~~~a~~~~~~  196 (244)
                      .......+..|+.. ..+.+..+|-+
T Consensus       408 ~~~~~~~~~~~~~~-~~~~~~~~~~~  432 (458)
T PRK11906        408 AVVIKECVDMYVPN-PLKNNIKLYYK  432 (458)
T ss_pred             HHHHHHHHHHHcCC-chhhhHHHHhh
Confidence            22333344466654 45666666543

>PRK11906 transcriptional regulator; Provisional

Probab=93.55  E-value=3.3  Score=33.38  Aligned_cols=145  Identities=14%  Similarity=0.033  Sum_probs=97.5

Q ss_pred             hhHHHHHHHHHHhC-CCCCCh-hhHHHHHHHHhh---------hchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCC
Q 046446           12 IEGALNLYSEMLSK-GIKPDV-VIHNTLFIGLFE---------IHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNG   80 (244)
Q Consensus        12 ~~~a~~~~~~~~~~-~~~~~~-~~~~~li~~~~~---------~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~   80 (244)
                      .+.|..+|.+.... .+.|+- ..|..+..++..         .....+|.++-++..+.+. -|+.....+..+..-.+
T Consensus       274 ~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAveld~-~Da~a~~~~g~~~~~~~  352 (458)
T PRK11906        274 IYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSDITT-VDGKILAIMGLITGLSG  352 (458)
T ss_pred             HHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHhhc
Confidence            45788889998822 235553 334333322221         2345677777777777643 38888888888888888


Q ss_pred             cHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccH---HHHHHHHHHHHccCChHHHHH
Q 046446           81 YIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADV---VTYSIMIHGLYNDGQMDKAHD  157 (244)
Q Consensus        81 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~li~~~~~~~~~~~a~~  157 (244)
                      +.+.|...|++....+ |....+|......+.-.|+.++|.+.+++..+.  .|..   ...-..+..|+.+ ..+.|.+
T Consensus       353 ~~~~a~~~f~rA~~L~-Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrL--sP~~~~~~~~~~~~~~~~~~-~~~~~~~  428 (458)
T PRK11906        353 QAKVSHILFEQAKIHS-TDIASLYYYRALVHFHNEKIEEARICIDKSLQL--EPRRRKAVVIKECVDMYVPN-PLKNNIK  428 (458)
T ss_pred             chhhHHHHHHHHhhcC-CccHHHHHHHHHHHHHcCCHHHHHHHHHHHhcc--CchhhHHHHHHHHHHHHcCC-chhhhHH
Confidence            9999999999999876 445566666666677789999999999997665  3432   2333344466654 4677777


Q ss_pred             HHHH
Q 046446          158 LFLD  161 (244)
Q Consensus       158 ~~~~  161 (244)
                      ++-.
T Consensus       429 ~~~~  432 (458)
T PRK11906        429 LYYK  432 (458)
T ss_pred             HHhh
Confidence            7644

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=93.26  E-value=3.6  Score=33.05  Aligned_cols=137  Identities=12%  Similarity=0.151  Sum_probs=81.6

Q ss_pred             hhhcCChhHHHHHHHHHHhCCCCCC------hhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHH--HH
Q 046446            6 YCKNKEIEGALNLYSEMLSKGIKPD------VVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDG--LC   77 (244)
Q Consensus         6 ~~~~~~~~~a~~~~~~~~~~~~~~~------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~--~~   77 (244)
                      +.+.+++.+|..+|.+.-+.. ..+      ...-+.++++|.. ++.+.....+....+.  .| ...|-.+..+  +.
T Consensus        16 Lqkq~~~~esEkifskI~~e~-~~~~f~lkeEvl~grilnAffl-~nld~Me~~l~~l~~~--~~-~s~~l~LF~~L~~Y   90 (549)
T PF07079_consen   16 LQKQKKFQESEKIFSKIYDEK-ESSPFLLKEEVLGGRILNAFFL-NNLDLMEKQLMELRQQ--FG-KSAYLPLFKALVAY   90 (549)
T ss_pred             HHHHhhhhHHHHHHHHHHHHh-hcchHHHHHHHHhhHHHHHHHH-hhHHHHHHHHHHHHHh--cC-CchHHHHHHHHHHH
Confidence            456789999999999887652 222      2223456676654 4667666666666654  22 2334344333  34


Q ss_pred             hCCcHHHHHHHHHHHHHh--CCC------------ccHHhHHHHHHHHHcCCCHHHHHHHHHhcccC----CccccHHHH
Q 046446           78 KNGYIVESVELFRTLRIL--KCE------------LDIQAYSCLIDGLCKSGRLEIALELFHSLPRG----VLVADVVTY  139 (244)
Q Consensus        78 ~~~~~~~a~~~~~~~~~~--~~~------------~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~  139 (244)
                      +.+++..|.+.+..-...  +..            ++...=+..++++...|++.++..+++++...    ....+..+|
T Consensus        91 ~~k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~y  170 (549)
T PF07079_consen   91 KQKEYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMY  170 (549)
T ss_pred             HhhhHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHH
Confidence            667788887776655433  211            12222355677778888888888888776543    233567777


Q ss_pred             HHHHHHHH
Q 046446          140 SIMIHGLY  147 (244)
Q Consensus       140 ~~li~~~~  147 (244)
                      +.++-.++
T Consensus       171 d~~vlmls  178 (549)
T PF07079_consen  171 DRAVLMLS  178 (549)
T ss_pred             HHHHHHHh
Confidence            76444443

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=93.12  E-value=0.34  Score=24.02  Aligned_cols=27  Identities=15%  Similarity=0.191  Sum_probs=14.9

Q ss_pred             hHHHHHHHHHHhCCcHHHHHHHHHHHH
Q 046446           67 RTYTIFIDGLCKNGYIVESVELFRTLR   93 (244)
Q Consensus        67 ~~~~~ll~~~~~~~~~~~a~~~~~~~~   93 (244)
                      .+++.|...|...|++++|..++++..
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            345555566666666666666655544

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=93.10  E-value=0.17  Score=24.31  Aligned_cols=22  Identities=14%  Similarity=0.264  Sum_probs=13.5

Q ss_pred             ChhHHHHHHHHHHhCCcHHHHH
Q 046446           65 DTRTYTIFIDGLCKNGYIVESV   86 (244)
Q Consensus        65 ~~~~~~~ll~~~~~~~~~~~a~   86 (244)
                      +..+|+.+...|...|++++|+
T Consensus        12 n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen   12 NAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             CHHHHHHHHHHHHHCcCHHhhc
Confidence            4556666666666666666654

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=93.05  E-value=2.1  Score=29.65  Aligned_cols=139  Identities=15%  Similarity=0.144  Sum_probs=92.4

Q ss_pred             ChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChh-HHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHH-hHHHH
Q 046446           30 DVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTR-TYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQ-AYSCL  107 (244)
Q Consensus        30 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l  107 (244)
                      +...|...+. +.+.+..++|+.-|.++.+.|...=+. .--.......+.|+...|...|.++-.....|-.. -...|
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 456678889999999988876542221 12233455677899999999999887654333332 11222


Q ss_pred             --HHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCC
Q 046446          108 --IDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAP  169 (244)
Q Consensus       108 --l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p  169 (244)
                        .-.+..+|.+++...-++-+...+-+.-...-..|.-+-.+.|++.+|.+.|..+......|
T Consensus       137 raa~lLvD~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~Da~ap  200 (221)
T COG4649         137 RAAYLLVDNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIANDAQAP  200 (221)
T ss_pred             HHHHHHhccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHccccCc
Confidence              22356788899988888887766644445566777777888999999999998877543333

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=92.74  E-value=0.4  Score=23.78  Aligned_cols=25  Identities=12%  Similarity=0.287  Sum_probs=11.8

Q ss_pred             HHHHHHHHHHccCChHHHHHHHHHH
Q 046446          138 TYSIMIHGLYNDGQMDKAHDLFLDM  162 (244)
Q Consensus       138 ~~~~li~~~~~~~~~~~a~~~~~~~  162 (244)
                      +++.+...|...|++++|..++++.
T Consensus         4 ~~~~la~~~~~~g~~~~A~~~~~~a   28 (42)
T PF13374_consen    4 ALNNLANAYRAQGRYEEALELLEEA   28 (42)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcchhhHHHHHH
Confidence            3444445555555555555555443

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=92.69  E-value=2.4  Score=29.38  Aligned_cols=140  Identities=10%  Similarity=0.079  Sum_probs=95.4

Q ss_pred             ChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHH-hHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHH-HHHHH
Q 046446           65 DTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQ-AYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVV-TYSIM  142 (244)
Q Consensus        65 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l  142 (244)
                      +...|..-++ +++.+..++|+.-|..+.+.|...-+. .-..........|+-..|...|.+.-...-.|-.. -.-.|
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            4556665555 356678899999999999877532221 12223345678899999999999988765444332 11222


Q ss_pred             --HHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC
Q 046446          143 --IHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPD  205 (244)
Q Consensus       143 --i~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  205 (244)
                        .-.+..+|.++......+-+...+-+.-...-..|.-+-.+.|++..|..+|.++....-.|.
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              233557899999998888776554444444455676777899999999999999887654553

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=92.44  E-value=3.6  Score=30.94  Aligned_cols=121  Identities=12%  Similarity=0.123  Sum_probs=70.7

Q ss_pred             CCccHHhHHHHHHHHHcCCC--HHHHHHHHHhcc-cCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHc-CCCCcHh
Q 046446           97 CELDIQAYSCLIDGLCKSGR--LEIALELFHSLP-RGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEEN-AVAPNVI  172 (244)
Q Consensus        97 ~~~~~~~~~~ll~~~~~~~~--~~~a~~~~~~~~-~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-~~~p~~~  172 (244)
                      +-.|..+...+++......+  ...-.++.+-+. ..+..++..+...++..++..+++.+..++++..... +..-|..
T Consensus       160 Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~kl~~fW~~~~~~~~~~~D~r  239 (292)
T PF13929_consen  160 IIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNKLFQFWEQCIPNSVPGNDPR  239 (292)
T ss_pred             eeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHHHHHHHHHhcccCCCCCCCc
Confidence            33456666666666654211  111222222222 2223566777777888888888888888887766543 4555777


Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHH-----HHHCCCCCChhhHHHHHHHHH
Q 046446          173 TFGTLIHGFIRINEPSKVIELLHK-----MKEKNVMPDASIVSIVVDLLA  217 (244)
Q Consensus       173 ~~~~l~~~~~~~g~~~~a~~~~~~-----~~~~~~~~~~~~~~~l~~~~~  217 (244)
                      .|..+|......|+..-...+..+     +.+.++..+...-..+-+.+.
T Consensus       240 pW~~FI~li~~sgD~~~~~kiI~~GhLLwikR~~V~v~~~L~~~L~~LF~  289 (292)
T PF13929_consen  240 PWAEFIKLIVESGDQEVMRKIIDDGHLLWIKRNNVDVTDELRSQLSELFK  289 (292)
T ss_pred             hHHHHHHHHHHcCCHHHHHHHhhCCCeEEeeecCCcCCHHHHHHHHHHHH
Confidence            788888888888887666555544     223355555555555544443

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=92.33  E-value=3  Score=30.38  Aligned_cols=90  Identities=12%  Similarity=0.123  Sum_probs=44.6

Q ss_pred             CChHHHHHHHHHHHHc--CCCCc---HhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccc-
Q 046446          150 GQMDKAHDLFLDMEEN--AVAPN---VITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISL-  223 (244)
Q Consensus       150 ~~~~~a~~~~~~~~~~--~~~p~---~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~-  223 (244)
                      .+++.|+..|+..-+.  |-..+   ...+.-+...-...+++.+|+.+|++.....+.-+..-| .+=..+.+.|.-. 
T Consensus       128 ~d~ekaI~~YE~Aae~yk~ees~ssANKC~lKvA~yaa~leqY~~Ai~iyeqva~~s~~n~LLKy-s~KdyflkAgLChl  206 (288)
T KOG1586|consen  128 QDFEKAIAHYEQAAEYYKGEESVSSANKCLLKVAQYAAQLEQYSKAIDIYEQVARSSLDNNLLKY-SAKDYFLKAGLCHL  206 (288)
T ss_pred             HHHHHHHHHHHHHHHHHcchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccchHHHh-HHHHHHHHHHHHhH
Confidence            4566666666554431  11111   222333344445678899999999998776543232222 2333444444432 


Q ss_pred             ---cchhhhhhhhhhhcccc
Q 046446          224 ---NSLPSFTVHERQEEVDE  240 (244)
Q Consensus       224 ---~a~~~~~~~~~~~~~~~  240 (244)
                         +.+..-..+++-...+|
T Consensus       207 ~~~D~v~a~~ALeky~~~dP  226 (288)
T KOG1586|consen  207 CKADEVNAQRALEKYQELDP  226 (288)
T ss_pred             hcccHHHHHHHHHHHHhcCC
Confidence               22333344444444444

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=92.32  E-value=0.47  Score=22.38  Aligned_cols=24  Identities=13%  Similarity=0.304  Sum_probs=9.2

Q ss_pred             HHHHHHHHHccCChHHHHHHHHHH
Q 046446          139 YSIMIHGLYNDGQMDKAHDLFLDM  162 (244)
Q Consensus       139 ~~~li~~~~~~~~~~~a~~~~~~~  162 (244)
                      |..+...|...|++++|...|++.
T Consensus         4 ~~~~g~~~~~~~~~~~A~~~~~~a   27 (34)
T PF00515_consen    4 YYNLGNAYFQLGDYEEALEYYQRA   27 (34)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCchHHHHHHHHH
Confidence            333333444444444444444433

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 ....

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=92.19  E-value=5.5  Score=32.42  Aligned_cols=120  Identities=9%  Similarity=0.085  Sum_probs=81.4

Q ss_pred             hcCChhHHH-HHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHH
Q 046446            8 KNKEIEGAL-NLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESV   86 (244)
Q Consensus         8 ~~~~~~~a~-~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~   86 (244)
                      ..|+...|- +++.-+......|+.......  .+...|.++.+...+...... +.....+..++++...+.|+++.|.
T Consensus       301 ~~gd~~aas~~~~~~lr~~~~~p~~i~l~~~--i~~~lg~ye~~~~~~s~~~~~-~~s~~~~~~~~~r~~~~l~r~~~a~  377 (831)
T PRK15180        301 ADGDIIAASQQLFAALRNQQQDPVLIQLRSV--IFSHLGYYEQAYQDISDVEKI-IGTTDSTLRCRLRSLHGLARWREAL  377 (831)
T ss_pred             hccCHHHHHHHHHHHHHhCCCCchhhHHHHH--HHHHhhhHHHHHHHhhchhhh-hcCCchHHHHHHHhhhchhhHHHHH
Confidence            346665554 455555555334554444443  356779999999988777654 4556778889999999999999999


Q ss_pred             HHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCC
Q 046446           87 ELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGV  131 (244)
Q Consensus        87 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  131 (244)
                      .+-+-|....++ ++..........-..|-++++...|+++...+
T Consensus       378 s~a~~~l~~eie-~~ei~~iaa~sa~~l~~~d~~~~~wk~~~~~~  421 (831)
T PRK15180        378 STAEMMLSNEIE-DEEVLTVAAGSADALQLFDKSYHYWKRVLLLN  421 (831)
T ss_pred             HHHHHHhccccC-ChhheeeecccHHHHhHHHHHHHHHHHHhccC
Confidence            999988876653 33333333333445577889999998876554

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=92.15  E-value=0.67  Score=21.83  Aligned_cols=28  Identities=18%  Similarity=0.206  Sum_probs=14.6

Q ss_pred             HHHHHHHHHHhCCcHHHHHHHHHHHHHh
Q 046446           68 TYTIFIDGLCKNGYIVESVELFRTLRIL   95 (244)
Q Consensus        68 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~   95 (244)
                      +|..+..+|...|++++|+..|++..+.
T Consensus         3 ~~~~~g~~~~~~~~~~~A~~~~~~al~~   30 (34)
T PF00515_consen    3 AYYNLGNAYFQLGDYEEALEYYQRALEL   30 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHHH
Confidence            4455555555555555555555555543

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 ....

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=91.52  E-value=4.8  Score=30.35  Aligned_cols=136  Identities=15%  Similarity=0.192  Sum_probs=93.3

Q ss_pred             hHHHHHHHHHHHHH-cCCCCChhHHHHHHHHHHhC-C-cHHHHHHHHHHHHH-hCCCccHHhHHHHHHHHHcCCCHHHHH
Q 046446           46 QVERAFKLFDEMQR-DGVAADTRTYTIFIDGLCKN-G-YIVESVELFRTLRI-LKCELDIQAYSCLIDGLCKSGRLEIAL  121 (244)
Q Consensus        46 ~~~~a~~~~~~m~~-~~~~~~~~~~~~ll~~~~~~-~-~~~~a~~~~~~~~~-~~~~~~~~~~~~ll~~~~~~~~~~~a~  121 (244)
                      ...+|+.+|+.... ..+--|..+...+++..... + ....--++.+-+.. .+-.++..+...++..++..+++.+-.
T Consensus       143 ~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~kl~  222 (292)
T PF13929_consen  143 IVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNKLF  222 (292)
T ss_pred             HHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHHHH
Confidence            34566666663222 23555788888888887762 2 22333334444433 234688888899999999999999999


Q ss_pred             HHHHhcccC-CccccHHHHHHHHHHHHccCChHHHHHHHHH-----HHHcCCCCcHhHHHHHHHHH
Q 046446          122 ELFHSLPRG-VLVADVVTYSIMIHGLYNDGQMDKAHDLFLD-----MEENAVAPNVITFGTLIHGF  181 (244)
Q Consensus       122 ~~~~~~~~~-~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~-----~~~~~~~p~~~~~~~l~~~~  181 (244)
                      ++++..... +..-|...|...|......|+..-...+.++     +++.++..+...-..+-+.+
T Consensus       223 ~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~GhLLwikR~~V~v~~~L~~~L~~LF  288 (292)
T PF13929_consen  223 QFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDDGHLLWIKRNNVDVTDELRSQLSELF  288 (292)
T ss_pred             HHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhCCCeEEeeecCCcCCHHHHHHHHHHH
Confidence            999987765 5566889999999999999999887777765     23455555555555544443

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=91.48  E-value=3  Score=27.98  Aligned_cols=51  Identities=14%  Similarity=0.204  Sum_probs=27.0

Q ss_pred             hCCcHHHHHHHHHHHHHhCC-CccHHhHHHHHHHHHcCCCHHHHHHHHHhcccC
Q 046446           78 KNGYIVESVELFRTLRILKC-ELDIQAYSCLIDGLCKSGRLEIALELFHSLPRG  130 (244)
Q Consensus        78 ~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  130 (244)
                      ..++.+++..+++.|.-... .+...++.  ...+...|++++|.++|+++.+.
T Consensus        22 ~~~d~~D~e~lLdALrvLrP~~~e~d~~d--g~l~i~rg~w~eA~rvlr~l~~~   73 (153)
T TIGR02561        22 RSADPYDAQAMLDALRVLRPNLKELDMFD--GWLLIARGNYDEAARILRELLSS   73 (153)
T ss_pred             hcCCHHHHHHHHHHHHHhCCCccccchhH--HHHHHHcCCHHHHHHHHHhhhcc
Confidence            35666666666666654320 11222222  23345566677777777666665

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=91.35  E-value=5  Score=30.28  Aligned_cols=164  Identities=11%  Similarity=0.106  Sum_probs=101.6

Q ss_pred             hhhchHHHHHHHHHHHHHcC--CCCCh-----hHHHHHHHHHHhCC-cHHHHHHHHHHHHHh----C----CCcc-----
Q 046446           42 FEIHQVERAFKLFDEMQRDG--VAADT-----RTYTIFIDGLCKNG-YIVESVELFRTLRIL----K----CELD-----  100 (244)
Q Consensus        42 ~~~~~~~~a~~~~~~m~~~~--~~~~~-----~~~~~ll~~~~~~~-~~~~a~~~~~~~~~~----~----~~~~-----  100 (244)
                      .+.|+.+.|..++.+....-  ..|+.     .++..+.......+ +++.|...+++..+.    +    ..|+     
T Consensus         4 ~~~~~~~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn~G~~l~~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~elr   83 (278)
T PF08631_consen    4 WKQGDLDLAEHMYSKAKDLLNSLDPDMAEELARVCYNIGKSLLSKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSELR   83 (278)
T ss_pred             hhhCCHHHHHHHHHHhhhHHhcCCcHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHHHH
Confidence            46789999999999887643  23332     12223333344556 888888877765432    1    1222     


Q ss_pred             HHhHHHHHHHHHcCCCHH---HHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHH
Q 046446          101 IQAYSCLIDGLCKSGRLE---IALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTL  177 (244)
Q Consensus       101 ~~~~~~ll~~~~~~~~~~---~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l  177 (244)
                      ..+...++.+|...+..+   +|.++++.+.... +-.+.++-.-+..+.+.++.+.+.+.+..|...- .-....+...
T Consensus        84 ~~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~-~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~-~~~e~~~~~~  161 (278)
T PF08631_consen   84 LSILRLLANAYLEWDTYESVEKALNALRLLESEY-GNKPEVFLLKLEILLKSFDEEEYEEILMRMIRSV-DHSESNFDSI  161 (278)
T ss_pred             HHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhC-CCCcHHHHHHHHHHhccCChhHHHHHHHHHHHhc-ccccchHHHH
Confidence            345677788888877755   5666666665442 2235566666777778999999999999998752 2133445555


Q ss_pred             HHHHHh--cCChhHHHHHHHHHHHCCCCCChh
Q 046446          178 IHGFIR--INEPSKVIELLHKMKEKNVMPDAS  207 (244)
Q Consensus       178 ~~~~~~--~g~~~~a~~~~~~~~~~~~~~~~~  207 (244)
                      +..+..  ......+...+..+....+.|...
T Consensus       162 l~~i~~l~~~~~~~a~~~ld~~l~~r~~~~~~  193 (278)
T PF08631_consen  162 LHHIKQLAEKSPELAAFCLDYLLLNRFKSSED  193 (278)
T ss_pred             HHHHHHHHhhCcHHHHHHHHHHHHHHhCCChh
Confidence            554421  233456777777776665665553

It is also involved in sporulation [].

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=91.33  E-value=3.1  Score=27.83  Aligned_cols=50  Identities=20%  Similarity=0.290  Sum_probs=23.7

Q ss_pred             cHHhHHHHHHHHHcCCC-HHHHHHHHHhcccCCccccHHHHHHHHHHHHcc
Q 046446          100 DIQAYSCLIDGLCKSGR-LEIALELFHSLPRGVLVADVVTYSIMIHGLYND  149 (244)
Q Consensus       100 ~~~~~~~ll~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  149 (244)
                      +...|.+++.+.....- .-.+..+|.-+++.+.+++..-|..++.++.+-
T Consensus        78 ~~ssf~~if~SlsnSsSaK~~~~~Lf~~Lk~~~~~~t~~dy~~li~~~l~g  128 (145)
T PF13762_consen   78 DNSSFHIIFKSLSNSSSAKLTSLTLFNFLKKNDIEFTPSDYSCLIKAALRG  128 (145)
T ss_pred             ccchHHHHHHHHccChHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHcC
Confidence            34445555555544333 223444444454444455555555555555443

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=91.29  E-value=4.2  Score=29.35  Aligned_cols=162  Identities=12%  Similarity=0.040  Sum_probs=80.7

Q ss_pred             CCC-hhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhC-CCccHHhHH
Q 046446           28 KPD-VVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILK-CELDIQAYS  105 (244)
Q Consensus        28 ~~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~  105 (244)
                      .|+ +.+||.+.-.+...|+++.|.+.|+...+....-+-...|.-|..| -.|++.-|.+=+.+.-+.+ -.|-...|-
T Consensus        95 ~P~m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi~~Y-Y~gR~~LAq~d~~~fYQ~D~~DPfR~LWL  173 (297)
T COG4785          95 RPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALY-YGGRYKLAQDDLLAFYQDDPNDPFRSLWL  173 (297)
T ss_pred             CCCcHHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhccceeee-ecCchHhhHHHHHHHHhcCCCChHHHHHH
Confidence            344 4567777777777777787777777777653332323333333222 3467776666555554433 123333333


Q ss_pred             HHHHHHHcCCCHHHHHHHH-HhcccCCccccHHHHHHHHH-HHHccCChHHHHHHHHHHHHcCCCC-------cHhHHHH
Q 046446          106 CLIDGLCKSGRLEIALELF-HSLPRGVLVADVVTYSIMIH-GLYNDGQMDKAHDLFLDMEENAVAP-------NVITFGT  176 (244)
Q Consensus       106 ~ll~~~~~~~~~~~a~~~~-~~~~~~~~~~~~~~~~~li~-~~~~~~~~~~a~~~~~~~~~~~~~p-------~~~~~~~  176 (244)
                      -+..   ..-++.+|..-+ ++....    |..-|...|- .|...=..   ..+++.+... ...       =+.||-.
T Consensus       174 Yl~E---~k~dP~~A~tnL~qR~~~~----d~e~WG~~iV~~yLgkiS~---e~l~~~~~a~-a~~n~~~Ae~LTEtyFY  242 (297)
T COG4785         174 YLNE---QKLDPKQAKTNLKQRAEKS----DKEQWGWNIVEFYLGKISE---ETLMERLKAD-ATDNTSLAEHLTETYFY  242 (297)
T ss_pred             HHHH---hhCCHHHHHHHHHHHHHhc----cHhhhhHHHHHHHHhhccH---HHHHHHHHhh-ccchHHHHHHHHHHHHH
Confidence            2222   223455554433 333332    3333433332 22211111   1223333221 111       1346666


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHCC
Q 046446          177 LIHGFIRINEPSKVIELLHKMKEKN  201 (244)
Q Consensus       177 l~~~~~~~g~~~~a~~~~~~~~~~~  201 (244)
                      +..-+...|+.++|..+|+-....+
T Consensus       243 L~K~~l~~G~~~~A~~LfKLaiann  267 (297)
T COG4785         243 LGKYYLSLGDLDEATALFKLAVANN  267 (297)
T ss_pred             HHHHHhccccHHHHHHHHHHHHHHh
Confidence            7777777888888888887766553

>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]

Probab=90.84  E-value=2.8  Score=27.20  Aligned_cols=40  Identities=13%  Similarity=0.299  Sum_probs=19.2

Q ss_pred             HHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHH
Q 046446          159 FLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMK  198 (244)
Q Consensus       159 ~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  198 (244)
                      ++.+....+.|++......+++|.+.+++..|.++|+-.+
T Consensus        72 lN~l~~yDlVP~pkvIEaaLRA~RRvNDfa~aVRilE~iK  111 (149)
T KOG4077|consen   72 LNNLFDYDLVPSPKVIEAALRACRRVNDFATAVRILEAIK  111 (149)
T ss_pred             HHhhhccccCCChHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            3333444444555555555555555555555555554443

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=90.60  E-value=1  Score=21.02  Aligned_cols=26  Identities=15%  Similarity=0.179  Sum_probs=11.7

Q ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHH
Q 046446           69 YTIFIDGLCKNGYIVESVELFRTLRI   94 (244)
Q Consensus        69 ~~~ll~~~~~~~~~~~a~~~~~~~~~   94 (244)
                      +..+...+...|++++|.+.|++..+
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            33444444444555555555444443

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 ....

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=90.54  E-value=0.86  Score=35.95  Aligned_cols=133  Identities=11%  Similarity=-0.023  Sum_probs=89.3

Q ss_pred             hhHHHHHHHHhhhchHHHHHHHHHHHH----HcCCC-CChhHHHHHHHHHHhCCcHHHHHHHHHHHHH----hC-CCccH
Q 046446           32 VIHNTLFIGLFEIHQVERAFKLFDEMQ----RDGVA-ADTRTYTIFIDGLCKNGYIVESVELFRTLRI----LK-CELDI  101 (244)
Q Consensus        32 ~~~~~li~~~~~~~~~~~a~~~~~~m~----~~~~~-~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~----~~-~~~~~  101 (244)
                      ..|..|.+.|.-.|+++.|+...+.-.    +-|-. .....+..+.+++.-.|.++.|.+.|+....    .| -....
T Consensus       196 Ra~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEA  275 (639)
T KOG1130|consen  196 RAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEA  275 (639)
T ss_pred             chhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHH
Confidence            456666666667788998888766432    22322 2345677888888889999999998877543    22 11234


Q ss_pred             HhHHHHHHHHHcCCCHHHHHHHHHhccc----C-CccccHHHHHHHHHHHHccCChHHHHHHHHHHHH
Q 046446          102 QAYSCLIDGLCKSGRLEIALELFHSLPR----G-VLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEE  164 (244)
Q Consensus       102 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~----~-~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  164 (244)
                      ...-+|.+.|.-..++++|+.++.+-..    . ...-....+-+|..+|...|..++|+.+.+...+
T Consensus       276 QscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~  343 (639)
T KOG1130|consen  276 QSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLR  343 (639)
T ss_pred             HHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            4456677788777888888887765321    1 1123466788888999999999998887766543

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=90.12  E-value=9.6  Score=32.00  Aligned_cols=99  Identities=15%  Similarity=0.101  Sum_probs=65.8

Q ss_pred             HhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHH
Q 046446           77 CKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAH  156 (244)
Q Consensus        77 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~  156 (244)
                      .+.|+.+.|.++..+.      .+..-|..|.++....+++..|.+.|.....         |..|+-.+...|+.+...
T Consensus       648 l~lgrl~iA~~la~e~------~s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l~  712 (794)
T KOG0276|consen  648 LKLGRLDIAFDLAVEA------NSEVKWRQLGDAALSAGELPLASECFLRARD---------LGSLLLLYTSSGNAEGLA  712 (794)
T ss_pred             hhcCcHHHHHHHHHhh------cchHHHHHHHHHHhhcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHHH
Confidence            3556666666655443      3566788888888888888888888876654         345556666677776666


Q ss_pred             HHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHH
Q 046446          157 DLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHK  196 (244)
Q Consensus       157 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~  196 (244)
                      .+-....+.|..      |....++...|+++++.+++..
T Consensus       713 ~la~~~~~~g~~------N~AF~~~~l~g~~~~C~~lLi~  746 (794)
T KOG0276|consen  713 VLASLAKKQGKN------NLAFLAYFLSGDYEECLELLIS  746 (794)
T ss_pred             HHHHHHHhhccc------chHHHHHHHcCCHHHHHHHHHh
Confidence            666666555532      4445566677888888777654

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=90.00  E-value=2.7  Score=30.28  Aligned_cols=77  Identities=21%  Similarity=0.176  Sum_probs=56.3

Q ss_pred             HHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCC--ccccHHHHHHHHHH
Q 046446           68 TYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGV--LVADVVTYSIMIHG  145 (244)
Q Consensus        68 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~li~~  145 (244)
                      |.+.-++.+.+.+...+++...++-.+.+ |.+...-..++..++-.|++++|..-++-.-...  ..+...+|..+|.+
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            44556777888889999999988777765 5667777888999999999999988777654431  23445666666653

>PF10579 Rapsyn_N: Rapsyn N-terminal myristoylation and linker region; InterPro: IPR019568 Neuromuscular junction formation relies upon the clustering of acetylcholine receptors and other proteins in the muscle membrane

Probab=89.82  E-value=1.9  Score=25.36  Aligned_cols=46  Identities=11%  Similarity=0.143  Sum_probs=24.1

Q ss_pred             hhchHHHHHHHHHHHHHcCCCCC--hhHHHHHHHHHHhCCcHHHHHHH
Q 046446           43 EIHQVERAFKLFDEMQRDGVAAD--TRTYTIFIDGLCKNGYIVESVEL   88 (244)
Q Consensus        43 ~~~~~~~a~~~~~~m~~~~~~~~--~~~~~~ll~~~~~~~~~~~a~~~   88 (244)
                      ..++-+.|+..|+...+.-..|.  -.++..++.+|+..|++.+++++
T Consensus        18 ~~~~~~~Al~~W~~aL~k~~~~~~rf~~lG~l~qA~~e~Gkyr~~L~f   65 (80)
T PF10579_consen   18 HQNETQQALQKWRKALEKITDREDRFRVLGYLIQAHMEWGKYREMLAF   65 (80)
T ss_pred             ccchHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44555666666665555422221  13455556666666666655554

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=89.67  E-value=1.3  Score=20.68  Aligned_cols=27  Identities=19%  Similarity=0.272  Sum_probs=16.7

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHH
Q 046446          173 TFGTLIHGFIRINEPSKVIELLHKMKE  199 (244)
Q Consensus       173 ~~~~l~~~~~~~g~~~~a~~~~~~~~~  199 (244)
                      .|..+...+...|++++|.+.+++..+
T Consensus         3 ~~~~lg~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF07719_consen    3 AWYYLGQAYYQLGNYEEAIEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            355556666667777777777766654

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 ....

>PF07721 TPR_4: Tetratricopeptide repeat; InterPro: IPR011717 This entry includes tetratricopeptide-like repeats not detected by the IPR001440 from INTERPRO, IPR013105 from INTERPRO and IPR011716 from INTERPRO models

Probab=89.67  E-value=0.73  Score=20.39  Aligned_cols=15  Identities=27%  Similarity=0.235  Sum_probs=5.9

Q ss_pred             HHHHcCCCHHHHHHH
Q 046446          109 DGLCKSGRLEIALEL  123 (244)
Q Consensus       109 ~~~~~~~~~~~a~~~  123 (244)
                      ..+...|++++|..+
T Consensus         9 ~~~~~~G~~~eA~~~   23 (26)
T PF07721_consen    9 RALLAQGDPDEAERL   23 (26)
T ss_pred             HHHHHcCCHHHHHHH
Confidence            333334444444333

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

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=89.67  E-value=1.3  Score=22.81  Aligned_cols=23  Identities=13%  Similarity=0.131  Sum_probs=11.9

Q ss_pred             HHHHHHhCCcHHHHHHHHHHHHH
Q 046446           72 FIDGLCKNGYIVESVELFRTLRI   94 (244)
Q Consensus        72 ll~~~~~~~~~~~a~~~~~~~~~   94 (244)
                      +..+|...|+.+.|.+++++...
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.

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=89.66  E-value=5.9  Score=33.77  Aligned_cols=87  Identities=7%  Similarity=0.002  Sum_probs=37.3

Q ss_pred             hhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcC-CCCChhHHHHHHHHHHh---C
Q 046446            4 NGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDG-VAADTRTYTIFIDGLCK---N   79 (244)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~~~~~~~~~~ll~~~~~---~   79 (244)
                      ..+.-.|+++.|++.+-+  ..+...+..++...+..|.-.+-.+...   ..+.... -.|...-+..||..|.+   .
T Consensus       266 ~~LlLtgqFE~AI~~L~~--~~~~~~dAVH~AIaL~~~gLL~~~~~~~---~~lls~~~~~~~~ln~arLI~~Y~~~F~~  340 (613)
T PF04097_consen  266 QVLLLTGQFEAAIEFLYR--NEFNRVDAVHFAIALAYYGLLRVSDSSS---APLLSVDPGDPPPLNFARLIGQYTRSFEI  340 (613)
T ss_dssp             HHHHHTT-HHHHHHHHHT----T-HHHHHHHHHHHHHTT---------------------------HHHHHHHHHHTTTT
T ss_pred             HHHHHHhhHHHHHHHHHh--hccCcccHHHHHHHHHHcCCCCCCCccc---cceeeecCCCCCCcCHHHHHHHHHHHHhc
Confidence            345566777777777655  2222445555555554443322222111   1111110 01112456777777776   4


Q ss_pred             CcHHHHHHHHHHHHHh
Q 046446           80 GYIVESVELFRTLRIL   95 (244)
Q Consensus        80 ~~~~~a~~~~~~~~~~   95 (244)
                      .++..|.+++--+...
T Consensus       341 td~~~Al~Y~~li~~~  356 (613)
T PF04097_consen  341 TDPREALQYLYLICLF  356 (613)
T ss_dssp             T-HHHHHHHHHGGGGS
T ss_pred             cCHHHHHHHHHHHHHc
Confidence            5777888877766554

It is required for the correct assembly of the nuclear pore complex []. In Saccharomyces cerevisiae, Nic96 has been shown to be involved in the distribution and cellular concentration of the GTPase Gsp1 []. The structure of Nic96 has revealed a mostly alpha helical structure [].; GO: 0006810 transport, 0005643 nuclear pore; PDB: 2QX5_B 2RFO_A.

>COG0735 Fur Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]

Probab=89.55  E-value=3.9  Score=27.44  Aligned_cols=64  Identities=11%  Similarity=0.091  Sum_probs=39.4

Q ss_pred             HHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcccc
Q 046446          158 LFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEIS  222 (244)
Q Consensus       158 ~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  222 (244)
                      +...+.+.|.+++.. -..++..+...++.-.|.++++++.+.+...+..|....++.+...|-.
T Consensus         8 ~~~~lk~~glr~T~q-R~~vl~~L~~~~~~~sAeei~~~l~~~~p~islaTVYr~L~~l~e~Glv   71 (145)
T COG0735           8 AIERLKEAGLRLTPQ-RLAVLELLLEADGHLSAEELYEELREEGPGISLATVYRTLKLLEEAGLV   71 (145)
T ss_pred             HHHHHHHcCCCcCHH-HHHHHHHHHhcCCCCCHHHHHHHHHHhCCCCCHhHHHHHHHHHHHCCCE
Confidence            344455666665443 3445566666666677777777777766666666666666777666654

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=89.51  E-value=4.7  Score=29.13  Aligned_cols=78  Identities=14%  Similarity=0.160  Sum_probs=58.0

Q ss_pred             hHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhC--CCccHHhHHHHHHH
Q 046446           33 IHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILK--CELDIQAYSCLIDG  110 (244)
Q Consensus        33 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~ll~~  110 (244)
                      |.+..+..+.+.+.+.+++...++-.+.. +.|..+-..+++.++-.|+|++|..-++-.-+..  ..+...+|..+|.+
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            45566778888899999999988766653 3466677788999999999999988777665542  23556677777765


Q ss_pred             H
Q 046446          111 L  111 (244)
Q Consensus       111 ~  111 (244)
                      -
T Consensus        82 e   82 (273)
T COG4455          82 E   82 (273)
T ss_pred             H
Confidence            3

>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A

Probab=89.42  E-value=1.3  Score=20.66  Aligned_cols=27  Identities=19%  Similarity=0.069  Sum_probs=16.7

Q ss_pred             HHHHHHHHHHhCCcHHHHHHHHHHHHH
Q 046446           68 TYTIFIDGLCKNGYIVESVELFRTLRI   94 (244)
Q Consensus        68 ~~~~ll~~~~~~~~~~~a~~~~~~~~~   94 (244)
                      +|..+...|...|++++|.+.|++..+
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            455556666666666666666666554

...

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=89.22  E-value=1.3  Score=20.37  Aligned_cols=19  Identities=11%  Similarity=0.476  Sum_probs=8.3

Q ss_pred             HhhhchHHHHHHHHHHHHH
Q 046446           41 LFEIHQVERAFKLFDEMQR   59 (244)
Q Consensus        41 ~~~~~~~~~a~~~~~~m~~   59 (244)
                      +.+.|++++|.+.|+++.+
T Consensus        10 ~~~~g~~~~A~~~~~~~~~   28 (33)
T PF13174_consen   10 YYKLGDYDEAIEYFQRLIK   28 (33)
T ss_dssp             HHHHCHHHHHHHHHHHHHH
T ss_pred             HHHccCHHHHHHHHHHHHH
Confidence            3334444444444444443

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=88.93  E-value=13  Score=31.33  Aligned_cols=145  Identities=13%  Similarity=0.021  Sum_probs=95.8

Q ss_pred             HHHHHHHHHHHHHcCCCCChhHHHHHHH----H-HHhCCcHHHHHHHHHHHHH-------hCCCccHHhHHHHHHHHHcC
Q 046446           47 VERAFKLFDEMQRDGVAADTRTYTIFID----G-LCKNGYIVESVELFRTLRI-------LKCELDIQAYSCLIDGLCKS  114 (244)
Q Consensus        47 ~~~a~~~~~~m~~~~~~~~~~~~~~ll~----~-~~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~ll~~~~~~  114 (244)
                      ...+.++++...+.|..   ..-..+..    + +....|.+.|+..++...+       .+   ......-+..+|.+.
T Consensus       228 ~~~a~~~~~~~a~~g~~---~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~g  301 (552)
T KOG1550|consen  228 LSEAFKYYREAAKLGHS---EAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQG  301 (552)
T ss_pred             hhHHHHHHHHHHhhcch---HHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcC
Confidence            56788888888777543   22222222    2 4456799999999998876       44   334556677777764


Q ss_pred             C-----CHHHHHHHHHhcccCCccccHHHHHHHHHHHHc-cCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHH----hc
Q 046446          115 G-----RLEIALELFHSLPRGVLVADVVTYSIMIHGLYN-DGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFI----RI  184 (244)
Q Consensus       115 ~-----~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~-~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~----~~  184 (244)
                      .     +.+.|..++...-..| .|+....-..+..... ..+...|.++|...-+.|..+   .+-.+..+|.    ..
T Consensus       302 ~~~~~~d~~~A~~~~~~aA~~g-~~~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~~~---A~~~la~~y~~G~gv~  377 (552)
T KOG1550|consen  302 LGVEKIDYEKALKLYTKAAELG-NPDAQYLLGVLYETGTKERDYRRAFEYYSLAAKAGHIL---AIYRLALCYELGLGVE  377 (552)
T ss_pred             CCCccccHHHHHHHHHHHHhcC-CchHHHHHHHHHHcCCccccHHHHHHHHHHHHHcCChH---HHHHHHHHHHhCCCcC
Confidence            3     6788999999988887 4555554444444443 356789999999998887542   2222222222    23


Q ss_pred             CChhHHHHHHHHHHHCC
Q 046446          185 NEPSKVIELLHKMKEKN  201 (244)
Q Consensus       185 g~~~~a~~~~~~~~~~~  201 (244)
                      .+.+.|..++++..+.|
T Consensus       378 r~~~~A~~~~k~aA~~g  394 (552)
T KOG1550|consen  378 RNLELAFAYYKKAAEKG  394 (552)
T ss_pred             CCHHHHHHHHHHHHHcc
Confidence            47788999999998888

>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]

Probab=88.66  E-value=4.9  Score=26.13  Aligned_cols=46  Identities=9%  Similarity=0.008  Sum_probs=35.3

Q ss_pred             HHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHH
Q 046446          119 IALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEE  164 (244)
Q Consensus       119 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  164 (244)
                      +..+.+..+...++.|++......++++.+.+|+..|.++|+-++.
T Consensus        67 EvrkglN~l~~yDlVP~pkvIEaaLRA~RRvNDfa~aVRilE~iK~  112 (149)
T KOG4077|consen   67 EVRKGLNNLFDYDLVPSPKVIEAALRACRRVNDFATAVRILEAIKD  112 (149)
T ss_pred             HHHHHHHhhhccccCCChHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            4455566666777788888888888888888888888888887764

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=88.43  E-value=1  Score=23.10  Aligned_cols=23  Identities=26%  Similarity=0.508  Sum_probs=12.9

Q ss_pred             hhhhhhcCChhHHHHHHHHHHhC
Q 046446            3 INGYCKNKEIEGALNLYSEMLSK   25 (244)
Q Consensus         3 i~~~~~~~~~~~a~~~~~~~~~~   25 (244)
                      ..+|...|+.+.|.+++++....
T Consensus         6 A~ayie~Gd~e~Ar~lL~evl~~   28 (44)
T TIGR03504         6 ARAYIEMGDLEGARELLEEVIEE   28 (44)
T ss_pred             HHHHHHcCChHHHHHHHHHHHHc
Confidence            34555556666666655555543

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.

>KOG0686 consensus COP9 signalosome, subunit CSN1 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=87.98  E-value=12  Score=29.78  Aligned_cols=173  Identities=12%  Similarity=0.055  Sum_probs=95.9

Q ss_pred             hHHHHHHHHhhhchHHHHHHHHHHHHHcCCC---CChhHHHHHHHHHHhCCcHHHHHHHHHHHHHh---------CCCcc
Q 046446           33 IHNTLFIGLFEIHQVERAFKLFDEMQRDGVA---ADTRTYTIFIDGLCKNGYIVESVELFRTLRIL---------KCELD  100 (244)
Q Consensus        33 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~---~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~---------~~~~~  100 (244)
                      .+..+...|...|+++.|++.|.+.+.- ..   -....|-.+|..-.-.|+|..+..+..+..+.         -+++-
T Consensus       152 a~~Dl~dhy~~cG~l~~Alr~YsR~RdY-CTs~khvInm~ln~i~VSI~~~nw~hv~sy~~~A~st~~~~~~~~q~v~~k  230 (466)
T KOG0686|consen  152 ALEDLGDHYLDCGQLDNALRCYSRARDY-CTSAKHVINMCLNLILVSIYMGNWGHVLSYISKAESTPDANENLAQEVPAK  230 (466)
T ss_pred             HHHHHHHHHHHhccHHHHHhhhhhhhhh-hcchHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHhCchhhhhHHHhcCcc
Confidence            5667788888999999999999986653 22   23445666667777788888887777776553         13334


Q ss_pred             HHhHHHHHHHHHcCCCHHHHHHHHHhcccCC------ccccHHHHHHHHHHHHccCChHHHHHH-----HHHHHHcCCCC
Q 046446          101 IQAYSCLIDGLCKSGRLEIALELFHSLPRGV------LVADVVTYSIMIHGLYNDGQMDKAHDL-----FLDMEENAVAP  169 (244)
Q Consensus       101 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~li~~~~~~~~~~~a~~~-----~~~~~~~~~~p  169 (244)
                      ...+..+...+.+  .++.|.+.|-......      +.|...+....+.+..--++-+--..+     |+.+.+    .
T Consensus       231 l~C~agLa~L~lk--kyk~aa~~fL~~~~~~~d~~~ivtpsdv~iYggLcALAtfdr~~Lk~~vi~n~~Fk~fle----l  304 (466)
T KOG0686|consen  231 LKCAAGLANLLLK--KYKSAAKYFLLAEFDHCDYPEIVTPSDVAIYGGLCALATFDRQDLKLNVIKNESFKLFLE----L  304 (466)
T ss_pred             hHHHHHHHHHHHH--HHHHHHHHHHhCCCCccCccceecchhhHHHHhhHhhccCCHHHHHHHHHcchhhhhHHh----c
Confidence            4445555554444  6676666654433221      234333333444444433332222222     222222    2


Q ss_pred             cHhHHHHHHHHHHhcCChhHHHHHHHHHHHC-----CCCCChhhHHHHHH
Q 046446          170 NVITFGTLIHGFIRINEPSKVIELLHKMKEK-----NVMPDASIVSIVVD  214 (244)
Q Consensus       170 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-----~~~~~~~~~~~l~~  214 (244)
                      .+..+..+...|  .+++...+++++++...     -+.|...+.-.+|+
T Consensus       305 ~Pqlr~il~~fy--~sky~~cl~~L~~~k~~llLD~yLaphVd~Ly~~IR  352 (466)
T KOG0686|consen  305 EPQLREILFKFY--SSKYASCLELLREIKPRLLLDMYLAPHVDNLYSLIR  352 (466)
T ss_pred             ChHHHHHHHHHh--hhhHHHHHHHHHHhccceeechhcchhHHHHHHHHH
Confidence            333344444433  36777788887776643     24555555544444

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=87.97  E-value=17  Score=31.53  Aligned_cols=148  Identities=14%  Similarity=0.168  Sum_probs=80.6

Q ss_pred             hhhhhcCChhHHHHHHHHHHhCCCCC---ChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCC
Q 046446            4 NGYCKNKEIEGALNLYSEMLSKGIKP---DVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNG   80 (244)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~   80 (244)
                      +-+.+.+.+++|+++-+.....  .|   -...+...|..+...|++++|-...-.|...    +..-|-.-+..++..+
T Consensus       364 ~Wll~~k~yeeAl~~~k~~~~~--~~~~~i~kv~~~yI~HLl~~~~y~~Aas~~p~m~gn----~~~eWe~~V~~f~e~~  437 (846)
T KOG2066|consen  364 DWLLEKKKYEEALDAAKASIGN--EERFVIKKVGKTYIDHLLFEGKYDEAASLCPKMLGN----NAAEWELWVFKFAELD  437 (846)
T ss_pred             HHHHHhhHHHHHHHHHHhccCC--ccccchHHHHHHHHHHHHhcchHHHHHhhhHHHhcc----hHHHHHHHHHHhcccc
Confidence            4466778888888877655443  44   3446677788888888888888877777654    4444555455554444


Q ss_pred             cHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhc------------------ccCCccccHHHHHHH
Q 046446           81 YIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSL------------------PRGVLVADVVTYSIM  142 (244)
Q Consensus        81 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~------------------~~~~~~~~~~~~~~l  142 (244)
                      .......   -+.......+...|..++..+.. .+...-.+..++-                  .+.  .-+...-..|
T Consensus       438 ~l~~Ia~---~lPt~~~rL~p~vYemvLve~L~-~~~~~F~e~i~~Wp~~Lys~l~iisa~~~q~~q~--Se~~~L~e~L  511 (846)
T KOG2066|consen  438 QLTDIAP---YLPTGPPRLKPLVYEMVLVEFLA-SDVKGFLELIKEWPGHLYSVLTIISATEPQIKQN--SESTALLEVL  511 (846)
T ss_pred             ccchhhc---cCCCCCcccCchHHHHHHHHHHH-HHHHHHHHHHHhCChhhhhhhHHHhhcchHHHhh--ccchhHHHHH
Confidence            4332211   11111111344556656555554 2222211111111                  111  1122333457


Q ss_pred             HHHHHccCChHHHHHHHHHHH
Q 046446          143 IHGLYNDGQMDKAHDLFLDME  163 (244)
Q Consensus       143 i~~~~~~~~~~~a~~~~~~~~  163 (244)
                      +..|...+++..|..++-..+
T Consensus       512 a~LYl~d~~Y~~Al~~ylklk  532 (846)
T KOG2066|consen  512 AHLYLYDNKYEKALPIYLKLQ  532 (846)
T ss_pred             HHHHHHccChHHHHHHHHhcc
Confidence            788888888888888776554

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=87.90  E-value=6.3  Score=26.50  Aligned_cols=53  Identities=15%  Similarity=0.112  Sum_probs=37.4

Q ss_pred             HcCCCHHHHHHHHHhcccCC-ccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcC
Q 046446          112 CKSGRLEIALELFHSLPRGV-LVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENA  166 (244)
Q Consensus       112 ~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~  166 (244)
                      ...++.+++..++..|.-.. -.+...++...  .+...|++++|.++|+++.+.+
T Consensus        21 L~~~d~~D~e~lLdALrvLrP~~~e~d~~dg~--l~i~rg~w~eA~rvlr~l~~~~   74 (153)
T TIGR02561        21 LRSADPYDAQAMLDALRVLRPNLKELDMFDGW--LLIARGNYDEAARILRELLSSA   74 (153)
T ss_pred             HhcCCHHHHHHHHHHHHHhCCCccccchhHHH--HHHHcCCHHHHHHHHHhhhccC
Confidence            34788899999988876542 02233344444  4567899999999999998764

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=87.56  E-value=10  Score=28.53  Aligned_cols=119  Identities=12%  Similarity=0.041  Sum_probs=76.6

Q ss_pred             HhhhchHHHHHHHHHHHHHc-----CC-CCC-------hhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHH
Q 046446           41 LFEIHQVERAFKLFDEMQRD-----GV-AAD-------TRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCL  107 (244)
Q Consensus        41 ~~~~~~~~~a~~~~~~m~~~-----~~-~~~-------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  107 (244)
                      +.-..++..|++..++-.+.     .. .|+       ...+..=|.+++..++|.+++...-+.-+..-+....+....
T Consensus        45 LvV~rdF~aal~tCerglqsL~~~a~~ee~~~~~~evK~sLcvvGIQALAEmnrWreVLsWvlqyYq~pEklPpkIleLC  124 (309)
T PF07163_consen   45 LVVHRDFQAALETCERGLQSLASDADAEEPAGSSLEVKCSLCVVGIQALAEMNRWREVLSWVLQYYQVPEKLPPKILELC  124 (309)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhcccccccccccchhhhhhhhhhhhHHHHHHHhhHHHHHHHHHHHhcCcccCCHHHHHHH
Confidence            33456777777777665443     01 111       122334478899999999998876655443223344556667


Q ss_pred             HHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHc-----cCChHHHHHHH
Q 046446          108 IDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYN-----DGQMDKAHDLF  159 (244)
Q Consensus       108 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~-----~~~~~~a~~~~  159 (244)
                      |-.|.+.+++..+.++-..-.+..-.-+...|.+++..|..     .|.+++|+++.
T Consensus       125 ILLysKv~Ep~amlev~~~WL~~p~Nq~lp~y~~vaELyLl~VLlPLG~~~eAeelv  181 (309)
T PF07163_consen  125 ILLYSKVQEPAAMLEVASAWLQDPSNQSLPEYGTVAELYLLHVLLPLGHFSEAEELV  181 (309)
T ss_pred             HHHHHHhcCHHHHHHHHHHHHhCcccCCchhhHHHHHHHHHHHHhccccHHHHHHHH
Confidence            77899999999888887765543212234457777766655     69999998887

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

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=87.52  E-value=8.9  Score=29.83  Aligned_cols=55  Identities=18%  Similarity=0.190  Sum_probs=40.0

Q ss_pred             hhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHH
Q 046446            4 NGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQR   59 (244)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   59 (244)
                      +-|.+.|.+++|++.|....... +.++.++..-..+|.+...+..|..-......
T Consensus       105 N~yFKQgKy~EAIDCYs~~ia~~-P~NpV~~~NRA~AYlk~K~FA~AE~DC~~Aia  159 (536)
T KOG4648|consen  105 NTYFKQGKYEEAIDCYSTAIAVY-PHNPVYHINRALAYLKQKSFAQAEEDCEAAIA  159 (536)
T ss_pred             hhhhhccchhHHHHHhhhhhccC-CCCccchhhHHHHHHHHHHHHHHHHhHHHHHH
Confidence            35788899999999998877652 33777787777788888888776665555443

>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=87.34  E-value=2  Score=20.06  Aligned_cols=25  Identities=16%  Similarity=0.097  Sum_probs=12.9

Q ss_pred             HHHHHHHHHccCChHHHHHHHHHHH
Q 046446          139 YSIMIHGLYNDGQMDKAHDLFLDME  163 (244)
Q Consensus       139 ~~~li~~~~~~~~~~~a~~~~~~~~  163 (244)
                      |..+...|...|++++|...|++..
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            4444455555555555555555444

...

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=87.29  E-value=7.3  Score=32.66  Aligned_cols=100  Identities=17%  Similarity=0.191  Sum_probs=65.9

Q ss_pred             HHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHH
Q 046446          111 LCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKV  190 (244)
Q Consensus       111 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a  190 (244)
                      ..+.|+++.|.++..+..      +..-|..|..+....+++..|.+.|.....         |..|+-.+...|+-+..
T Consensus       647 al~lgrl~iA~~la~e~~------s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l  711 (794)
T KOG0276|consen  647 ALKLGRLDIAFDLAVEAN------SEVKWRQLGDAALSAGELPLASECFLRARD---------LGSLLLLYTSSGNAEGL  711 (794)
T ss_pred             hhhcCcHHHHHHHHHhhc------chHHHHHHHHHHhhcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHH
Confidence            345667777766655443      567788999999999999999888876654         45566666667776655


Q ss_pred             HHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchhhhhh
Q 046446          191 IELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFTV  231 (244)
Q Consensus       191 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  231 (244)
                      ..+-....+.|..      +.-.-+|...|+++++++++..
T Consensus       712 ~~la~~~~~~g~~------N~AF~~~~l~g~~~~C~~lLi~  746 (794)
T KOG0276|consen  712 AVLASLAKKQGKN------NLAFLAYFLSGDYEECLELLIS  746 (794)
T ss_pred             HHHHHHHHhhccc------chHHHHHHHcCCHHHHHHHHHh
Confidence            5555555555532      2333456667777777766643

>KOG4642 consensus Chaperone-dependent E3 ubiquitin protein ligase (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]

Probab=87.23  E-value=9.8  Score=27.97  Aligned_cols=118  Identities=11%  Similarity=0.045  Sum_probs=82.2

Q ss_pred             hhhcCChhHHHHHHHHHHhCCCCCChhhH-HHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhH-HHHHHHHHHhCCcHH
Q 046446            6 YCKNKEIEGALNLYSEMLSKGIKPDVVIH-NTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRT-YTIFIDGLCKNGYIV   83 (244)
Q Consensus         6 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~-~~~ll~~~~~~~~~~   83 (244)
                      |.....++.|+..|.+.+..  .|+..+| +.=+.++.+..+++.+..=-.+..+  +.||..- ...+.........++
T Consensus        20 ~f~~k~y~~ai~~y~raI~~--nP~~~~Y~tnralchlk~~~~~~v~~dcrralq--l~~N~vk~h~flg~~~l~s~~~~   95 (284)
T KOG4642|consen   20 CFIPKRYDDAIDCYSRAICI--NPTVASYYTNRALCHLKLKHWEPVEEDCRRALQ--LDPNLVKAHYFLGQWLLQSKGYD   95 (284)
T ss_pred             ccchhhhchHHHHHHHHHhc--CCCcchhhhhHHHHHHHhhhhhhhhhhHHHHHh--cChHHHHHHHHHHHHHHhhcccc
Confidence            55567888999988777765  6777554 5566667778889888777666665  4566543 345566677788899


Q ss_pred             HHHHHHHHHHH----hCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhc
Q 046446           84 ESVELFRTLRI----LKCELDIQAYSCLIDGLCKSGRLEIALELFHSL  127 (244)
Q Consensus        84 ~a~~~~~~~~~----~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~  127 (244)
                      .|+..+.+..+    ..+++....+..|..+--..-...+..++.++.
T Consensus        96 eaI~~Lqra~sl~r~~~~~~~~di~~~L~~ak~~~w~v~e~~Ri~Q~~  143 (284)
T KOG4642|consen   96 EAIKVLQRAYSLLREQPFTFGDDIPKALRDAKKKRWEVSEEKRIRQEL  143 (284)
T ss_pred             HHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHhCccchhHHHHHHHHh
Confidence            99998888743    345566677777777766666666666665543

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=87.19  E-value=18  Score=30.93  Aligned_cols=185  Identities=14%  Similarity=0.070  Sum_probs=106.9

Q ss_pred             hHHHHHHHHHHh-CCCCCC--hhhHHHHHHHHh-hhchHHHHHHHHHHHHHcCCCCCh-----hHHHHHHHHHHhCCcHH
Q 046446           13 EGALNLYSEMLS-KGIKPD--VVIHNTLFIGLF-EIHQVERAFKLFDEMQRDGVAADT-----RTYTIFIDGLCKNGYIV   83 (244)
Q Consensus        13 ~~a~~~~~~~~~-~~~~~~--~~~~~~li~~~~-~~~~~~~a~~~~~~m~~~~~~~~~-----~~~~~ll~~~~~~~~~~   83 (244)
                      ..|+..++-+.+ ..++|.  ..++-.+...+. ...+++.|...+.+.....-.++-     ..-..++..+.+.+...
T Consensus        38 ~~ai~CL~~~~~~~~l~p~~ea~~~l~la~iL~~eT~n~~~Ae~~L~k~~~l~~~~~~~d~k~~~~~ll~~i~~~~~~~~  117 (608)
T PF10345_consen   38 ATAIKCLEAVLKQFKLSPRQEARVRLRLASILLEETENLDLAETYLEKAILLCERHRLTDLKFRCQFLLARIYFKTNPKA  117 (608)
T ss_pred             HHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHHhcCHHH
Confidence            345666666663 333333  234445555554 567899999999877554322222     12234566666666655


Q ss_pred             HHHHHHHHHHHhC----CCccHHhHHHH-HHHHHcCCCHHHHHHHHHhcccCC---ccccHHHHHHHHHHHH--ccCChH
Q 046446           84 ESVELFRTLRILK----CELDIQAYSCL-IDGLCKSGRLEIALELFHSLPRGV---LVADVVTYSIMIHGLY--NDGQMD  153 (244)
Q Consensus        84 ~a~~~~~~~~~~~----~~~~~~~~~~l-l~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~li~~~~--~~~~~~  153 (244)
                       |...+++..+.-    ..+-...|..+ +..+...+++..|.+.++.+...-   ..|...++-.++.+..  +.+..+
T Consensus       118 -a~~~l~~~I~~~~~~~~~~w~~~frll~~~l~~~~~d~~~Al~~L~~~~~~a~~~~d~~~~v~~~l~~~~l~l~~~~~~  196 (608)
T PF10345_consen  118 -ALKNLDKAIEDSETYGHSAWYYAFRLLKIQLALQHKDYNAALENLQSIAQLANQRGDPAVFVLASLSEALLHLRRGSPD  196 (608)
T ss_pred             -HHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHhcCCCch
Confidence             888888766532    22333344444 333333478998999888765331   2444555555555544  456677


Q ss_pred             HHHHHHHHHHHcC---------CCCcHhHHHHHHHHHH--hcCChhHHHHHHHHHH
Q 046446          154 KAHDLFLDMEENA---------VAPNVITFGTLIHGFI--RINEPSKVIELLHKMK  198 (244)
Q Consensus       154 ~a~~~~~~~~~~~---------~~p~~~~~~~l~~~~~--~~g~~~~a~~~~~~~~  198 (244)
                      ++.+.++.+....         ..|-..+|..++..++  ..|+++.+...++++.
T Consensus       197 d~~~~l~~~~~~~~~~q~~~~~~~~qL~~~~lll~l~~~l~~~~~~~~~~~L~~lq  252 (608)
T PF10345_consen  197 DVLELLQRAIAQARSLQLDPSVHIPQLKALFLLLDLCCSLQQGDVKNSKQKLKQLQ  252 (608)
T ss_pred             hHHHHHHHHHHHHhhcccCCCCCcHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            7777777764322         2345667777776554  5677767777666654

It is associated with the cohesin complex and is required in G1 for cohesin binding to chromosomes, but is dispensable in G2 when cohesion has been established. It is often referred to as Ssl3 in Schizosaccharomyces pombe (Fission yeast), and Scc4 in Saccharomyces cerevisiae (Baker's yeast). It complexes with Mis4 [].

>PF11848 DUF3368: Domain of unknown function (DUF3368); InterPro: IPR021799 This domain is functionally uncharacterised

Probab=87.04  E-value=3  Score=21.84  Aligned_cols=33  Identities=15%  Similarity=0.216  Sum_probs=21.5

Q ss_pred             HhcCChhHHHHHHHHHHHCCCCCChhhHHHHHH
Q 046446          182 IRINEPSKVIELLHKMKEKNVMPDASIVSIVVD  214 (244)
Q Consensus       182 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  214 (244)
                      .+.|-..++..++++|.+.|+..+...+..+++
T Consensus        13 k~~GlI~~~~~~l~~l~~~g~~is~~l~~~~L~   45 (48)
T PF11848_consen   13 KRRGLISEVKPLLDRLQQAGFRISPKLIEEILR   45 (48)
T ss_pred             HHcCChhhHHHHHHHHHHcCcccCHHHHHHHHH
Confidence            355666667777777777777666666665554

This domain is found in bacteria and archaea. This presumed domain is about 50 amino acids in length.

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=86.90  E-value=12  Score=30.58  Aligned_cols=86  Identities=10%  Similarity=-0.005  Sum_probs=38.0

Q ss_pred             HHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHH
Q 046446          111 LCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKV  190 (244)
Q Consensus       111 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a  190 (244)
                      +...|+++.+...+...... +.....+...+++.....|++++|..+-..|....+. ++.......-..-..|-++++
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            34445555555555443322 1123334455555555555566655555555544333 222222222222233444555


Q ss_pred             HHHHHHHH
Q 046446          191 IELLHKMK  198 (244)
Q Consensus       191 ~~~~~~~~  198 (244)
                      .-.++++.
T Consensus       411 ~~~wk~~~  418 (831)
T PRK15180        411 YHYWKRVL  418 (831)
T ss_pred             HHHHHHHh
Confidence            54444443

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=86.77  E-value=9.4  Score=27.29  Aligned_cols=89  Identities=16%  Similarity=0.006  Sum_probs=52.9

Q ss_pred             HHHhCCcHHHHHHHHHHHHHhCCCcc-----HHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHcc
Q 046446           75 GLCKNGYIVESVELFRTLRILKCELD-----IQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYND  149 (244)
Q Consensus        75 ~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  149 (244)
                      -+...|++++|..-|.+....- ++.     ...|..-..++.+.+.++.|..--....+.+ +........-..+|.+.
T Consensus       104 ~~F~ngdyeeA~skY~~Ale~c-p~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~-pty~kAl~RRAeayek~  181 (271)
T KOG4234|consen  104 ELFKNGDYEEANSKYQEALESC-PSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELN-PTYEKALERRAEAYEKM  181 (271)
T ss_pred             HhhhcccHHHHHHHHHHHHHhC-ccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcC-chhHHHHHHHHHHHHhh
Confidence            3456677777777777776653 221     2234444556677777777776666666553 11222333334567777


Q ss_pred             CChHHHHHHHHHHHHc
Q 046446          150 GQMDKAHDLFLDMEEN  165 (244)
Q Consensus       150 ~~~~~a~~~~~~~~~~  165 (244)
                      ..+++|++=|..+.+.
T Consensus       182 ek~eealeDyKki~E~  197 (271)
T KOG4234|consen  182 EKYEEALEDYKKILES  197 (271)
T ss_pred             hhHHHHHHHHHHHHHh
Confidence            7777777777777764

>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B

Probab=86.58  E-value=2.2  Score=23.79  Aligned_cols=22  Identities=32%  Similarity=0.377  Sum_probs=10.4

Q ss_pred             HHHHHHhCCcHHHHHHHHHHHH
Q 046446           72 FIDGLCKNGYIVESVELFRTLR   93 (244)
Q Consensus        72 ll~~~~~~~~~~~a~~~~~~~~   93 (244)
                      ++.++...|++++|.++++++.
T Consensus        29 vI~gllqlg~~~~a~eYi~~~~   50 (62)
T PF14689_consen   29 VIYGLLQLGKYEEAKEYIKELS   50 (62)
T ss_dssp             HHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHH
Confidence            4445555555555555544443

>PF07575 Nucleopor_Nup85: Nup85 Nucleoporin; InterPro: IPR011502 This is a family of nucleoporins conserved from yeast to human

Probab=86.20  E-value=4  Score=34.38  Aligned_cols=34  Identities=15%  Similarity=0.190  Sum_probs=0.0

Q ss_pred             hcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHH
Q 046446          183 RINEPSKVIELLHKMKEKNVMPDASIVSIVVDLL  216 (244)
Q Consensus       183 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  216 (244)
                      +.|++.+|.+.+-.+....+.|...-...|.++.
T Consensus       507 ~~~~~~~Aa~~Lv~Ll~~~~~Pk~f~~~LL~d~l  540 (566)
T PF07575_consen  507 DEGDFREAASLLVSLLKSPIAPKSFWPLLLCDAL  540 (566)
T ss_dssp             ----------------------------------
T ss_pred             hhhhHHHHHHHHHHHHCCCCCcHHHHHHHHHHHH
Confidence            4578888888887777777788776666665543

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.

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=86.13  E-value=13  Score=28.26  Aligned_cols=72  Identities=13%  Similarity=0.097  Sum_probs=52.5

Q ss_pred             HHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHH-----CCCCCChhhHH
Q 046446          138 TYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKE-----KNVMPDASIVS  210 (244)
Q Consensus       138 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-----~~~~~~~~~~~  210 (244)
                      +++.....|..+|.+.+|.++.+...... +.+...+-.++..+...|+--.+..-++.+.+     .|+..+...+.
T Consensus       281 llgkva~~yle~g~~neAi~l~qr~ltld-pL~e~~nk~lm~~la~~gD~is~~khyerya~vleaelgi~vddsiee  357 (361)
T COG3947         281 LLGKVARAYLEAGKPNEAIQLHQRALTLD-PLSEQDNKGLMASLATLGDEISAIKHYERYAEVLEAELGIDVDDSIEE  357 (361)
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHhhcC-hhhhHHHHHHHHHHHHhccchhhhhHHHHHHHHHHHHhCCCcchhHHH
Confidence            44556678888999999999888877653 34677777888888888987777777766643     37776665544

>PF11838 ERAP1_C: ERAP1-like C-terminal domain; InterPro: IPR024571 This entry represents the uncharacterised C-terminal domain of zinc metallopeptidases belonging to MEROPS peptidase family M1 (aminopeptidase N, clan MA), with a single member characterised in Streptomyces lividans: aminopeptidase G []

Probab=86.12  E-value=14  Score=28.48  Aligned_cols=111  Identities=12%  Similarity=0.020  Sum_probs=65.1

Q ss_pred             HHHHHHHHHHHHHhCC----CccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHH
Q 046446           82 IVESVELFRTLRILKC----ELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHD  157 (244)
Q Consensus        82 ~~~a~~~~~~~~~~~~----~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~  157 (244)
                      .+.|.+.|+.....+.    ..++..-..++....+.|..+.-..+++.....   ++......++.+.+...+.+...+
T Consensus       146 ~~~a~~~~~~~~~~~~~~~~~i~~dlr~~v~~~~~~~g~~~~~~~l~~~~~~~---~~~~~k~~~l~aLa~~~d~~~~~~  222 (324)
T PF11838_consen  146 VAEARELFKAWLDGNDSPESSIPPDLRWAVYCAGVRNGDEEEWDFLWELYKNS---TSPEEKRRLLSALACSPDPELLKR  222 (324)
T ss_dssp             HHHHHHHHHHHHHTTT-TTSTS-HHHHHHHHHHHTTS--HHHHHHHHHHHHTT---STHHHHHHHHHHHTT-S-HHHHHH
T ss_pred             HHHHHHHHHHHhcCCcccccccchHHHHHHHHHHHHHhhHhhHHHHHHHHhcc---CCHHHHHHHHHhhhccCCHHHHHH
Confidence            4567777777776422    345556666777777888766666666666654   367777888888888888888888


Q ss_pred             HHHHHHHcCCCCcHhHHHHHHHHHHhcCCh--hHHHHHHHH
Q 046446          158 LFLDMEENAVAPNVITFGTLIHGFIRINEP--SKVIELLHK  196 (244)
Q Consensus       158 ~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~--~~a~~~~~~  196 (244)
                      +++.....+..++... ..++.++...+..  +.+.+.+..
T Consensus       223 ~l~~~l~~~~v~~~d~-~~~~~~~~~~~~~~~~~~~~~~~~  262 (324)
T PF11838_consen  223 LLDLLLSNDKVRSQDI-RYVLAGLASSNPVGRDLAWEFFKE  262 (324)
T ss_dssp             HHHHHHCTSTS-TTTH-HHHHHHHH-CSTTCHHHHHHHHHH
T ss_pred             HHHHHcCCcccccHHH-HHHHHHHhcCChhhHHHHHHHHHH
Confidence            8888877542233333 3344444423333  555555543

The rest of the members of this family are identified as aminopeptidase N of the actinomycete-type. The spectrum of activity may differ somewhat from the aminopeptidase N clade of Escherichia coli and most other proteobacteria, which are well separated phylogenetically within the M1 family. ; PDB: 3MDJ_A 2YD0_A 3QNF_C 3RJO_A 1Z5H_A 3Q7J_A 1Z1W_A 3SE6_B.

>PF11848 DUF3368: Domain of unknown function (DUF3368); InterPro: IPR021799 This domain is functionally uncharacterised

Probab=85.89  E-value=3.2  Score=21.72  Aligned_cols=32  Identities=13%  Similarity=0.210  Sum_probs=20.8

Q ss_pred             hhchHHHHHHHHHHHHHcCCCCChhHHHHHHH
Q 046446           43 EIHQVERAFKLFDEMQRDGVAADTRTYTIFID   74 (244)
Q Consensus        43 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~   74 (244)
                      +.|-..++..++++|.+.|+..+...+..+++
T Consensus        14 ~~GlI~~~~~~l~~l~~~g~~is~~l~~~~L~   45 (48)
T PF11848_consen   14 RRGLISEVKPLLDRLQQAGFRISPKLIEEILR   45 (48)
T ss_pred             HcCChhhHHHHHHHHHHcCcccCHHHHHHHHH
Confidence            45566666666777766676666666666554

This domain is found in bacteria and archaea. This presumed domain is about 50 amino acids in length.

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=85.77  E-value=16  Score=28.84  Aligned_cols=130  Identities=10%  Similarity=-0.025  Sum_probs=82.7

Q ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHHhC-----CCccHHhHHHHHHHHHcCCCHHHHHHHHHhccc----CCccccHH--
Q 046446           69 YTIFIDGLCKNGYIVESVELFRTLRILK-----CELDIQAYSCLIDGLCKSGRLEIALELFHSLPR----GVLVADVV--  137 (244)
Q Consensus        69 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~--  137 (244)
                      .-++..++...+-++++++.|+...+..     ......++-.|-..|.+..++++|.-+..+..+    .++..-..  
T Consensus       125 ~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~ky  204 (518)
T KOG1941|consen  125 SLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSLKY  204 (518)
T ss_pred             hhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhHHH
Confidence            4456677777888899999988776532     123455688888899999999888766554321    22111111  


Q ss_pred             ---HHHHHHHHHHccCChHHHHHHHHHHH----HcCCCC-cHhHHHHHHHHHHhcCChhHHHHHHHHHH
Q 046446          138 ---TYSIMIHGLYNDGQMDKAHDLFLDME----ENAVAP-NVITFGTLIHGFIRINEPSKVIELLHKMK  198 (244)
Q Consensus       138 ---~~~~li~~~~~~~~~~~a~~~~~~~~----~~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  198 (244)
                         ....|.-++...|..-.|.+..++..    +.|-.| -......+...|...|+.+.|+.-|++..
T Consensus       205 r~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIyR~~gd~e~af~rYe~Am  273 (518)
T KOG1941|consen  205 RAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIYRSRGDLERAFRRYEQAM  273 (518)
T ss_pred             HHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHhcccHhHHHHHHHHHH
Confidence               22334456677788888887777654    334222 12334456677888899998888777654

>KOG0890 consensus Protein kinase of the PI-3 kinase family involved in mitotic growth, DNA repair and meiotic recombination [Signal transduction mechanisms; Chromatin structure and dynamics; Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=84.78  E-value=20  Score=35.28  Aligned_cols=116  Identities=9%  Similarity=-0.026  Sum_probs=62.6

Q ss_pred             HHHHhhhchHHHHHHHHHHH----HHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHc
Q 046446           38 FIGLFEIHQVERAFKLFDEM----QRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCK  113 (244)
Q Consensus        38 i~~~~~~~~~~~a~~~~~~m----~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~  113 (244)
                      ..+-.+.+.+.+|.-.+++-    .+.  ......+..+...|+..++++.+.-+...-..   .|+  .+ .-|.....
T Consensus      1390 a~aSfrc~~y~RalmylEs~~~~ek~~--~~~e~l~fllq~lY~~i~dpDgV~Gv~~~r~a---~~s--l~-~qil~~e~ 1461 (2382)
T KOG0890|consen 1390 ARASFRCKAYARALMYLESHRSTEKEK--ETEEALYFLLQNLYGSIHDPDGVEGVSARRFA---DPS--LY-QQILEHEA 1461 (2382)
T ss_pred             HHHHHhhHHHHHHHHHHHHhccccchh--HHHHHHHHHHHHHHHhcCCcchhhhHHHHhhc---Ccc--HH-HHHHHHHh
Confidence            33445667777777777763    111  11223344444477777777776666653110   122  22 23334555


Q ss_pred             CCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHH
Q 046446          114 SGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDM  162 (244)
Q Consensus       114 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  162 (244)
                      .|++..|...|+.+.+.+ ++...+++-++......|.++......+..
T Consensus      1462 ~g~~~da~~Cye~~~q~~-p~~~~~~~g~l~sml~~~~l~t~i~~~dg~ 1509 (2382)
T KOG0890|consen 1462 SGNWADAAACYERLIQKD-PDKEKHHSGVLKSMLAIQHLSTEILHLDGL 1509 (2382)
T ss_pred             hccHHHHHHHHHHhhcCC-CccccchhhHHHhhhcccchhHHHhhhcch
Confidence            677777777777777664 233555665555555555655555544433

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=84.70  E-value=12  Score=26.74  Aligned_cols=88  Identities=18%  Similarity=0.103  Sum_probs=48.4

Q ss_pred             HhhhchHHHHHHHHHHHHHcCCCCCh-----hHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCC
Q 046446           41 LFEIHQVERAFKLFDEMQRDGVAADT-----RTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSG  115 (244)
Q Consensus        41 ~~~~~~~~~a~~~~~~m~~~~~~~~~-----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~  115 (244)
                      +...|++++|..-|...... +++..     ..|..-..++.+.+.++.|+.-....++.+ +....+...-..+|.+..
T Consensus       105 ~F~ngdyeeA~skY~~Ale~-cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~-pty~kAl~RRAeayek~e  182 (271)
T KOG4234|consen  105 LFKNGDYEEANSKYQEALES-CPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELN-PTYEKALERRAEAYEKME  182 (271)
T ss_pred             hhhcccHHHHHHHHHHHHHh-CccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcC-chhHHHHHHHHHHHHhhh
Confidence            44566666666666666654 22221     233333445556666666666666665554 222333333345666666


Q ss_pred             CHHHHHHHHHhcccC
Q 046446          116 RLEIALELFHSLPRG  130 (244)
Q Consensus       116 ~~~~a~~~~~~~~~~  130 (244)
                      .+++|+.=|+.+.+.
T Consensus       183 k~eealeDyKki~E~  197 (271)
T KOG4234|consen  183 KYEEALEDYKKILES  197 (271)
T ss_pred             hHHHHHHHHHHHHHh
Confidence            666776666666655

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=84.42  E-value=21  Score=29.32  Aligned_cols=56  Identities=20%  Similarity=0.232  Sum_probs=28.2

Q ss_pred             HHHHHHcCCCHHHHHHHHHhcccCC-ccccHHHHHHHHHHHHccCChHHHHHHHHHH
Q 046446          107 LIDGLCKSGRLEIALELFHSLPRGV-LVADVVTYSIMIHGLYNDGQMDKAHDLFLDM  162 (244)
Q Consensus       107 ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  162 (244)
                      +..++-+.|+.++|.+.|+++.+.. ..-+......|+.++...+.+.++..++..-
T Consensus       265 LAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kY  321 (539)
T PF04184_consen  265 LAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKY  321 (539)
T ss_pred             HHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHh
Confidence            3444445555666666555554331 1112334455555555555666555555554

The molecular function of this protein is uncertain.

>COG0735 Fur Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]

Probab=83.53  E-value=8.2  Score=25.90  Aligned_cols=59  Identities=15%  Similarity=0.152  Sum_probs=25.6

Q ss_pred             HHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhC
Q 046446           20 SEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKN   79 (244)
Q Consensus        20 ~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~   79 (244)
                      +.+.+.|++++. .-..++..+.+.++.-.|.++++.+.+.+...+..|...-++.+...
T Consensus        10 ~~lk~~glr~T~-qR~~vl~~L~~~~~~~sAeei~~~l~~~~p~islaTVYr~L~~l~e~   68 (145)
T COG0735          10 ERLKEAGLRLTP-QRLAVLELLLEADGHLSAEELYEELREEGPGISLATVYRTLKLLEEA   68 (145)
T ss_pred             HHHHHcCCCcCH-HHHHHHHHHHhcCCCCCHHHHHHHHHHhCCCCCHhHHHHHHHHHHHC
Confidence            334444444332 22233344444444455555555555554444444433333444433

>PRK10564 maltose regulon periplasmic protein; Provisional

Probab=83.24  E-value=4.4  Score=30.71  Aligned_cols=43  Identities=23%  Similarity=0.282  Sum_probs=29.4

Q ss_pred             cccHHH-HHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHH
Q 046446          133 VADVVT-YSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFG  175 (244)
Q Consensus       133 ~~~~~~-~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~  175 (244)
                      .|+..+ |+..|....+.||+++|++++++.++.|+.--..+|-
T Consensus       253 ~~dTe~Yy~~aI~~AVk~gDi~KAL~LldEAe~LG~~~Ar~tFi  296 (303)
T PRK10564        253 LNDTESYFNQAIKQAVKKGDVDKALKLLDEAERLGSTSARSTFI  296 (303)
T ss_pred             CchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCchHHHHHH
Confidence            345444 4577888888888888888888888877664444443

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=83.22  E-value=15  Score=26.67  Aligned_cols=163  Identities=12%  Similarity=0.040  Sum_probs=94.1

Q ss_pred             CCCC-hhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCC-ccccHHHH
Q 046446           62 VAAD-TRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGV-LVADVVTY  139 (244)
Q Consensus        62 ~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~  139 (244)
                      +.|+ +.+||-+.--+...|+++.|.+.|+...+.+..-+-...|.-|. +--.|++.-|.+=+...-+.+ -.|-...|
T Consensus        94 i~P~m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi~-~YY~gR~~LAq~d~~~fYQ~D~~DPfR~LW  172 (297)
T COG4785          94 IRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIA-LYYGGRYKLAQDDLLAFYQDDPNDPFRSLW  172 (297)
T ss_pred             cCCCcHHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhcccee-eeecCchHhhHHHHHHHHhcCCCChHHHHH
Confidence            4454 56788888888889999999999998887764333333343333 334578888877666655443 12323334


Q ss_pred             HHHHHHHHccCChHHHHHHHH-HHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCC------CCChhhHHHH
Q 046446          140 SIMIHGLYNDGQMDKAHDLFL-DMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNV------MPDASIVSIV  212 (244)
Q Consensus       140 ~~li~~~~~~~~~~~a~~~~~-~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~------~~~~~~~~~l  212 (244)
                      --++.   ..-++.+|..-+. +...    .|..-|...|-.+.- |+.. ...+++++....-      ..=..||--|
T Consensus       173 LYl~E---~k~dP~~A~tnL~qR~~~----~d~e~WG~~iV~~yL-gkiS-~e~l~~~~~a~a~~n~~~Ae~LTEtyFYL  243 (297)
T COG4785         173 LYLNE---QKLDPKQAKTNLKQRAEK----SDKEQWGWNIVEFYL-GKIS-EETLMERLKADATDNTSLAEHLTETYFYL  243 (297)
T ss_pred             HHHHH---hhCCHHHHHHHHHHHHHh----ccHhhhhHHHHHHHH-hhcc-HHHHHHHHHhhccchHHHHHHHHHHHHHH
Confidence            33332   3445666654443 3332    355556555444332 3222 2233444433211      0113577788


Q ss_pred             HHHHHhccccccchhhhhhhhh
Q 046446          213 VDLLAKNEISLNSLPSFTVHER  234 (244)
Q Consensus       213 ~~~~~~~g~~~~a~~~~~~~~~  234 (244)
                      .+.+...|+.++|...|+....
T Consensus       244 ~K~~l~~G~~~~A~~LfKLaia  265 (297)
T COG4785         244 GKYYLSLGDLDEATALFKLAVA  265 (297)
T ss_pred             HHHHhccccHHHHHHHHHHHHH
Confidence            8889999999999999986644

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=83.08  E-value=33  Score=30.40  Aligned_cols=222  Identities=11%  Similarity=0.015  Sum_probs=116.8

Q ss_pred             hhhhcCChhHHHHHHHHHHhCCCCCCh----h---hHHHHHHH-HhhhchHHHHHHHHHHHHHc----CCCCChhHHHHH
Q 046446            5 GYCKNKEIEGALNLYSEMLSKGIKPDV----V---IHNTLFIG-LFEIHQVERAFKLFDEMQRD----GVAADTRTYTIF   72 (244)
Q Consensus         5 ~~~~~~~~~~a~~~~~~~~~~~~~~~~----~---~~~~li~~-~~~~~~~~~a~~~~~~m~~~----~~~~~~~~~~~l   72 (244)
                      ......++++|..+..++...-..|+.    .   .++.+-.. ....|+++.+.++.+.....    -..+....+..+
T Consensus       424 ~~~s~~r~~ea~~li~~l~~~l~~~~~~~~~~l~ae~~aL~a~val~~~~~e~a~~lar~al~~L~~~~~~~r~~~~sv~  503 (894)
T COG2909         424 LLASQHRLAEAETLIARLEHFLKAPMHSRQGDLLAEFQALRAQVALNRGDPEEAEDLARLALVQLPEAAYRSRIVALSVL  503 (894)
T ss_pred             HHHHccChHHHHHHHHHHHHHhCcCcccchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhcccccchhhhhhhhhh
Confidence            345678889999998887765222221    1   23333222 23457888888888776654    223345566777


Q ss_pred             HHHHHhCCcHHHHHHHHHHHHHhCCCccHHh---HHHHH--HHHHcCCCHH--HHHHHHHhccc-----CC-ccccHHHH
Q 046446           73 IDGLCKNGYIVESVELFRTLRILKCELDIQA---YSCLI--DGLCKSGRLE--IALELFHSLPR-----GV-LVADVVTY  139 (244)
Q Consensus        73 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---~~~ll--~~~~~~~~~~--~a~~~~~~~~~-----~~-~~~~~~~~  139 (244)
                      ..+..-.|++++|..+..+..+..-..+...   |..+.  ..+...|+..  +.+..|.....     .. ..+-..+.
T Consensus       504 ~~a~~~~G~~~~Al~~~~~a~~~a~~~~~~~l~~~~~~~~s~il~~qGq~~~a~~~~~~~~~~~q~l~q~~~~~f~~~~r  583 (894)
T COG2909         504 GEAAHIRGELTQALALMQQAEQMARQHDVYHLALWSLLQQSEILEAQGQVARAEQEKAFNLIREQHLEQKPRHEFLVRIR  583 (894)
T ss_pred             hHHHHHhchHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhhhcccchhHHHHH
Confidence            7778888999999998887766532233333   33332  2344556322  22223322211     11 01223445


Q ss_pred             HHHHHHHHccCChHHHHHHHHH----HHHcCCCCcHhHH--HHHHHHHHhcCChhHHHHHHHHHHHCCC----CCChhhH
Q 046446          140 SIMIHGLYNDGQMDKAHDLFLD----MEENAVAPNVITF--GTLIHGFIRINEPSKVIELLHKMKEKNV----MPDASIV  209 (244)
Q Consensus       140 ~~li~~~~~~~~~~~a~~~~~~----~~~~~~~p~~~~~--~~l~~~~~~~g~~~~a~~~~~~~~~~~~----~~~~~~~  209 (244)
                      ..++.++.+   .+.+..-...    -......|-....  ..|+......|+.++|...+.++.....    .++...-
T Consensus       584 ~~ll~~~~r---~~~~~~ear~~~~~~~~~~~~~~~~~~~~~~LA~l~~~~Gdl~~A~~~l~~~~~l~~~~~~~~~~~a~  660 (894)
T COG2909         584 AQLLRAWLR---LDLAEAEARLGIEVGSVYTPQPLLSRLALSMLAELEFLRGDLDKALAQLDELERLLLNGQYHVDYLAA  660 (894)
T ss_pred             HHHHHHHHH---HhhhhHHhhhcchhhhhcccchhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcCCCCCchHHHH
Confidence            555555555   3332222222    1122222222222  2567778889999999999998875433    3333333


Q ss_pred             HHHHHHH--Hhccccccchhhh
Q 046446          210 SIVVDLL--AKNEISLNSLPSF  229 (244)
Q Consensus       210 ~~l~~~~--~~~g~~~~a~~~~  229 (244)
                      ...++..  ...|+.+.+....
T Consensus       661 ~~~v~~~lwl~qg~~~~a~~~l  682 (894)
T COG2909         661 AYKVKLILWLAQGDKELAAEWL  682 (894)
T ss_pred             HHHhhHHHhcccCCHHHHHHHH
Confidence            3333332  3345555554433

>COG5108 RPO41 Mitochondrial DNA-directed RNA polymerase [Transcription]

Probab=82.81  E-value=13  Score=31.67  Aligned_cols=75  Identities=13%  Similarity=0.211  Sum_probs=51.0

Q ss_pred             HHHHHHHcCCCHHHHHHHHHhcccCC--ccccHHHHHHHHHHHHccCChHH------HHHHHHHHHHcCCCCcHhHHHHH
Q 046446          106 CLIDGLCKSGRLEIALELFHSLPRGV--LVADVVTYSIMIHGLYNDGQMDK------AHDLFLDMEENAVAPNVITFGTL  177 (244)
Q Consensus       106 ~ll~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~li~~~~~~~~~~~------a~~~~~~~~~~~~~p~~~~~~~l  177 (244)
                      +|+.+|...|++..+..+++.+...+  -..-...+|..|+...+.|.++-      |.++++...   +.-|..||..+
T Consensus        33 sl~eacv~n~~~~rs~~ll~s~~~~~~~~k~~l~~~nlyi~~~~q~~sf~l~~~~~~~~~~lq~a~---ln~d~~t~all  109 (1117)
T COG5108          33 SLFEACVYNGDFLRSKQLLKSFIDHNKGDKILLPMINLYIREIIQRGSFELTDVLSNAKELLQQAR---LNGDSLTYALL  109 (1117)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHhcCCcCCeeehhHHHHHHHHHHhcCCccHHHHHHHHHHHHHHhh---cCCcchHHHHH
Confidence            78899999999999999998876543  23345678888888888887642      333333322   44577777777


Q ss_pred             HHHHHh
Q 046446          178 IHGFIR  183 (244)
Q Consensus       178 ~~~~~~  183 (244)
                      +.+-..
T Consensus       110 ~~~sln  115 (1117)
T COG5108         110 CQASLN  115 (1117)
T ss_pred             HHhhcC
Confidence            665443

>PF10579 Rapsyn_N: Rapsyn N-terminal myristoylation and linker region; InterPro: IPR019568 Neuromuscular junction formation relies upon the clustering of acetylcholine receptors and other proteins in the muscle membrane

Probab=82.57  E-value=6.2  Score=23.26  Aligned_cols=19  Identities=21%  Similarity=0.259  Sum_probs=8.5

Q ss_pred             HHHHHHHHHcCCCHHHHHH
Q 046446          104 YSCLIDGLCKSGRLEIALE  122 (244)
Q Consensus       104 ~~~ll~~~~~~~~~~~a~~  122 (244)
                      +..++.+|+..|++.++++
T Consensus        46 lG~l~qA~~e~Gkyr~~L~   64 (80)
T PF10579_consen   46 LGYLIQAHMEWGKYREMLA   64 (80)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            3444444444444444443

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

>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=82.41  E-value=1.7  Score=28.48  Aligned_cols=32  Identities=22%  Similarity=0.307  Sum_probs=21.5

Q ss_pred             ccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHH
Q 046446          148 NDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGF  181 (244)
Q Consensus       148 ~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  181 (244)
                      ..|.-.+|..+|..|.+.|-+||.  |+.|+..+
T Consensus       107 ~ygsk~DaY~VF~kML~~G~pPdd--W~~Ll~~a  138 (140)
T PF11663_consen  107 AYGSKTDAYAVFRKMLERGNPPDD--WDALLKEA  138 (140)
T ss_pred             hhccCCcHHHHHHHHHhCCCCCcc--HHHHHHHh
Confidence            345666777778888887777765  66666543

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 [].

>PF08424 NRDE-2: NRDE-2, necessary for RNA interference; InterPro: IPR013633 This is domain is found in eukaryotic proteins of unknown function

Probab=82.38  E-value=21  Score=27.68  Aligned_cols=142  Identities=9%  Similarity=-0.002  Sum_probs=97.6

Q ss_pred             CCChhHHHHHHHHHHhCCc------------HHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccC
Q 046446           63 AADTRTYTIFIDGLCKNGY------------IVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRG  130 (244)
Q Consensus        63 ~~~~~~~~~ll~~~~~~~~------------~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  130 (244)
                      +-|..+|-.++..--..-.            .+.-+.++++..+.+ +.+...+..+|..+.+..+.++..+-|+++...
T Consensus        16 P~di~~Wl~li~~Qd~~~~~~~~~~~~~~a~~E~klsilerAL~~n-p~~~~L~l~~l~~~~~~~~~~~l~~~we~~l~~   94 (321)
T PF08424_consen   16 PHDIEAWLELIEFQDELFRLQSSSKAERRALAERKLSILERALKHN-PDSERLLLGYLEEGEKVWDSEKLAKKWEELLFK   94 (321)
T ss_pred             cccHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            4478888888865443221            345667888888875 577888888999999999999999999998876


Q ss_pred             CccccHHHHHHHHHHHHc---cCChHHHHHHHHHHHHc------CC------CC--c---HhHHHHHHHHHHhcCChhHH
Q 046446          131 VLVADVVTYSIMIHGLYN---DGQMDKAHDLFLDMEEN------AV------AP--N---VITFGTLIHGFIRINEPSKV  190 (244)
Q Consensus       131 ~~~~~~~~~~~li~~~~~---~~~~~~a~~~~~~~~~~------~~------~p--~---~~~~~~l~~~~~~~g~~~~a  190 (244)
                      . +-+...|...|.....   .-.++....+|.+....      +.      .+  .   ...+..+...+...|-.+.|
T Consensus        95 ~-~~~~~LW~~yL~~~q~~~~~f~v~~~~~~y~~~l~~L~~~~~~~~~~~~~~~~~e~~~l~v~~r~~~fl~~aG~~E~A  173 (321)
T PF08424_consen   95 N-PGSPELWREYLDFRQSNFASFTVSDVRDVYEKCLRALSRRRSGRMTSHPDLPELEEFMLYVFLRLCRFLRQAGYTERA  173 (321)
T ss_pred             C-CCChHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHHhhccccccccchhhHHHHHHHHHHHHHHHHHHCCchHHH
Confidence            4 3367888888876654   34677888888765431      21      00  0   12233334444578999999


Q ss_pred             HHHHHHHHHCCC-CCCh
Q 046446          191 IELLHKMKEKNV-MPDA  206 (244)
Q Consensus       191 ~~~~~~~~~~~~-~~~~  206 (244)
                      ..+++-+.+.++ .|..
T Consensus       174 va~~Qa~lE~n~~~P~~  190 (321)
T PF08424_consen  174 VALWQALLEFNFFRPES  190 (321)
T ss_pred             HHHHHHHHHHHcCCccc
Confidence            999999888765 4443

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=82.22  E-value=36  Score=30.20  Aligned_cols=232  Identities=18%  Similarity=0.126  Sum_probs=123.4

Q ss_pred             hhhhhcCChhHHHHHHHHHHhC---C-----------CCCChhhHH----HHHHH--HhhhchHHHHHHHHHHHHHcCCC
Q 046446            4 NGYCKNKEIEGALNLYSEMLSK---G-----------IKPDVVIHN----TLFIG--LFEIHQVERAFKLFDEMQRDGVA   63 (244)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~~~~~---~-----------~~~~~~~~~----~li~~--~~~~~~~~~a~~~~~~m~~~~~~   63 (244)
                      ......|+++.|.++++.....   +           .-|+....+    .+..+  .....++.+|..+..++...-..
T Consensus       368 ~hAlaA~d~~~aa~lle~~~~~L~~~~~lsll~~~~~~lP~~~l~~~P~Lvll~aW~~~s~~r~~ea~~li~~l~~~l~~  447 (894)
T COG2909         368 DHALAAGDPEMAADLLEQLEWQLFNGSELSLLLAWLKALPAELLASTPRLVLLQAWLLASQHRLAEAETLIARLEHFLKA  447 (894)
T ss_pred             HHHHhCCCHHHHHHHHHhhhhhhhcccchHHHHHHHHhCCHHHHhhCchHHHHHHHHHHHccChHHHHHHHHHHHHHhCc
Confidence            3455678888888888776211   1           012222211    11122  23346788888888887655233


Q ss_pred             CChh-------HHHHHHH-HHHhCCcHHHHHHHHHHHHHh----CCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCC
Q 046446           64 ADTR-------TYTIFID-GLCKNGYIVESVELFRTLRIL----KCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGV  131 (244)
Q Consensus        64 ~~~~-------~~~~ll~-~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  131 (244)
                      |+..       .++.+-. .....|+++.+.++.+.....    -..+....+..+..+..-.|++++|..+..+..+..
T Consensus       448 ~~~~~~~~l~ae~~aL~a~val~~~~~e~a~~lar~al~~L~~~~~~~r~~~~sv~~~a~~~~G~~~~Al~~~~~a~~~a  527 (894)
T COG2909         448 PMHSRQGDLLAEFQALRAQVALNRGDPEEAEDLARLALVQLPEAAYRSRIVALSVLGEAAHIRGELTQALALMQQAEQMA  527 (894)
T ss_pred             CcccchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhcccccchhhhhhhhhhhHHHHHhchHHHHHHHHHHHHHHH
Confidence            3221       2333321 223468889999888776653    223456667777888888999999999887765542


Q ss_pred             ccccHH---HHHHHH--HHHHccCChHH--HHHHHHHHHHcC---C---CCcHhHHHHHHHHHHhc-CChhHHHHHHHHH
Q 046446          132 LVADVV---TYSIMI--HGLYNDGQMDK--AHDLFLDMEENA---V---APNVITFGTLIHGFIRI-NEPSKVIELLHKM  197 (244)
Q Consensus       132 ~~~~~~---~~~~li--~~~~~~~~~~~--a~~~~~~~~~~~---~---~p~~~~~~~l~~~~~~~-g~~~~a~~~~~~~  197 (244)
                      ...+..   .|..+.  ..+...|+...  .+..|.......   .   .+-..++..++.++.+. +...++..-+.--
T Consensus       528 ~~~~~~~l~~~~~~~~s~il~~qGq~~~a~~~~~~~~~~~q~l~q~~~~~f~~~~r~~ll~~~~r~~~~~~ear~~~~~~  607 (894)
T COG2909         528 RQHDVYHLALWSLLQQSEILEAQGQVARAEQEKAFNLIREQHLEQKPRHEFLVRIRAQLLRAWLRLDLAEAEARLGIEVG  607 (894)
T ss_pred             HHcccHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhhhcccchhHHHHHHHHHHHHHHHhhhhHHhhhcchhh
Confidence            222333   333332  34555674333  233333332210   0   12234455555555552 1222222222222


Q ss_pred             HHCCCCCChhhHH--HHHHHHHhccccccchhhhhhhhhh
Q 046446          198 KEKNVMPDASIVS--IVVDLLAKNEISLNSLPSFTVHERQ  235 (244)
Q Consensus       198 ~~~~~~~~~~~~~--~l~~~~~~~g~~~~a~~~~~~~~~~  235 (244)
                      ......|-...+.  .|++.....|+.++|...+..++.-
T Consensus       608 ~~~~~~~~~~~~~~~~LA~l~~~~Gdl~~A~~~l~~~~~l  647 (894)
T COG2909         608 SVYTPQPLLSRLALSMLAELEFLRGDLDKALAQLDELERL  647 (894)
T ss_pred             hhcccchhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Confidence            2222233222222  6778888899999998888877653

>PF11846 DUF3366: Domain of unknown function (DUF3366); InterPro: IPR021797 This domain is functionally uncharacterised

Probab=81.81  E-value=14  Score=26.02  Aligned_cols=34  Identities=9%  Similarity=0.228  Sum_probs=26.2

Q ss_pred             CCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 046446          167 VAPNVITFGTLIHGFIRINEPSKVIELLHKMKEK  200 (244)
Q Consensus       167 ~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  200 (244)
                      ..|+..+|..++.++...|+.++|.++..++...
T Consensus       140 ~~P~~~~~~~~a~~l~~~G~~~eA~~~~~~~~~l  173 (193)
T PF11846_consen  140 RRPDPNVYQRYALALALLGDPEEARQWLARARRL  173 (193)
T ss_pred             hCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            4578888888888888888888888887777654

This domain is found in bacteria. This presumed domain is about 200 amino acids in length.

>PF06552 TOM20_plant: Plant specific mitochondrial import receptor subunit TOM20; InterPro: IPR010547 This family consists of several plant specific mitochondrial import receptor subunit TOM20 (translocase of outer membrane 20 kDa subunit) proteins

Probab=81.40  E-value=16  Score=25.60  Aligned_cols=98  Identities=10%  Similarity=0.053  Sum_probs=44.2

Q ss_pred             hhHHHHHHHHHHhCCCCCChhhH---HHHHHHHhhhchHHHHHHHHHHHHHc-----CCCCC-hhHHHHHHHHHHhCC--
Q 046446           12 IEGALNLYSEMLSKGIKPDVVIH---NTLFIGLFEIHQVERAFKLFDEMQRD-----GVAAD-TRTYTIFIDGLCKNG--   80 (244)
Q Consensus        12 ~~~a~~~~~~~~~~~~~~~~~~~---~~li~~~~~~~~~~~a~~~~~~m~~~-----~~~~~-~~~~~~ll~~~~~~~--   80 (244)
                      ++.|.+.++.-.... +.|...+   ...+.-+++..+..++.+++++....     .+.|+ ..++..+..+|...+  
T Consensus         7 FE~ark~aea~y~~n-P~DadnL~~WG~ALLELAqfk~g~es~~miedAisK~eeAL~I~P~~hdAlw~lGnA~ts~A~l   85 (186)
T PF06552_consen    7 FEHARKKAEAAYAKN-PLDADNLTNWGGALLELAQFKQGPESKKMIEDAISKFEEALKINPNKHDALWCLGNAYTSLAFL   85 (186)
T ss_dssp             HHHHHHHHHHHHHH--TT-HHHHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHHHHHHHH-TT-HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-cHhHHHHHHHHHHHHHHHhccCcchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHhh
Confidence            455566555533332 3344433   33333344333333444444433221     23454 356666666665432  


Q ss_pred             --c-------HHHHHHHHHHHHHhCCCccHHhHHHHHHHHH
Q 046446           81 --Y-------IVESVELFRTLRILKCELDIQAYSCLIDGLC  112 (244)
Q Consensus        81 --~-------~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~  112 (244)
                        +       +++|.+.|++....  .|+..+|+.-+....
T Consensus        86 ~~d~~~A~~~F~kA~~~FqkAv~~--~P~ne~Y~ksLe~~~  124 (186)
T PF06552_consen   86 TPDTAEAEEYFEKATEYFQKAVDE--DPNNELYRKSLEMAA  124 (186)
T ss_dssp             ---HHHHHHHHHHHHHHHHHHHHH---TT-HHHHHHHHHHH
T ss_pred             cCChHHHHHHHHHHHHHHHHHHhc--CCCcHHHHHHHHHHH
Confidence              2       33344444444433  577777777776664

Most mitochondrial proteins are encoded by the nuclear genome, and are synthesised in the cytosol. TOM20 is a general import receptor that binds to mitochondrial pre-sequences in the early step of protein import into the mitochondria [].; GO: 0045040 protein import into mitochondrial outer membrane, 0005742 mitochondrial outer membrane translocase complex; PDB: 1ZU2_A.

>PHA02875 ankyrin repeat protein; Provisional

Probab=81.39  E-value=18  Score=29.02  Aligned_cols=79  Identities=16%  Similarity=0.182  Sum_probs=38.5

Q ss_pred             hhhhhcCChhHHHHHHHHHHhCCCCCChhh--HHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChh--HHHHHHHHHHhC
Q 046446            4 NGYCKNKEIEGALNLYSEMLSKGIKPDVVI--HNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTR--TYTIFIDGLCKN   79 (244)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~--~~~~ll~~~~~~   79 (244)
                      ...++.|+.+-+..    +.+.|..|+...  ..+.+...+..|+.+-+    +.+.+.|..|+..  .....+...+..
T Consensus         7 ~~A~~~g~~~iv~~----Ll~~g~~~n~~~~~g~tpL~~A~~~~~~~~v----~~Ll~~ga~~~~~~~~~~t~L~~A~~~   78 (413)
T PHA02875          7 CDAILFGELDIARR----LLDIGINPNFEIYDGISPIKLAMKFRDSEAI----KLLMKHGAIPDVKYPDIESELHDAVEE   78 (413)
T ss_pred             HHHHHhCCHHHHHH----HHHCCCCCCccCCCCCCHHHHHHHcCCHHHH----HHHHhCCCCccccCCCcccHHHHHHHC
Confidence            34455666544444    445666665432  23344445566666533    3444555554432  112234444566


Q ss_pred             CcHHHHHHHHH
Q 046446           80 GYIVESVELFR   90 (244)
Q Consensus        80 ~~~~~a~~~~~   90 (244)
                      |+.+.+..+++
T Consensus        79 g~~~~v~~Ll~   89 (413)
T PHA02875         79 GDVKAVEELLD   89 (413)
T ss_pred             CCHHHHHHHHH
Confidence            77666555444

>PF11846 DUF3366: Domain of unknown function (DUF3366); InterPro: IPR021797 This domain is functionally uncharacterised

Probab=81.38  E-value=13  Score=26.28  Aligned_cols=33  Identities=21%  Similarity=0.084  Sum_probs=20.0

Q ss_pred             CccHHhHHHHHHHHHcCCCHHHHHHHHHhcccC
Q 046446           98 ELDIQAYSCLIDGLCKSGRLEIALELFHSLPRG  130 (244)
Q Consensus        98 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  130 (244)
                      .|+..+|..++.++...|+.++|.+...++...
T Consensus       141 ~P~~~~~~~~a~~l~~~G~~~eA~~~~~~~~~l  173 (193)
T PF11846_consen  141 RPDPNVYQRYALALALLGDPEEARQWLARARRL  173 (193)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            456666666666666666666666666655543

This domain is found in bacteria. This presumed domain is about 200 amino acids in length.

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=80.90  E-value=14  Score=24.77  Aligned_cols=81  Identities=16%  Similarity=0.209  Sum_probs=43.8

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHhcccCC-----ccccHHHHHHHHHHHHccCC-hHHHHHHHHHHHHcCCCCcHhHHHHH
Q 046446          104 YSCLIDGLCKSGRLEIALELFHSLPRGV-----LVADVVTYSIMIHGLYNDGQ-MDKAHDLFLDMEENAVAPNVITFGTL  177 (244)
Q Consensus       104 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~li~~~~~~~~-~~~a~~~~~~~~~~~~~p~~~~~~~l  177 (244)
                      .|+++.-....+++.....+++.+....     -..+...|..++.+.++..- .--+..+|.-+++.+..++..-|..+
T Consensus        42 iN~iL~hl~~~~nf~~~v~~L~~l~~l~~~~~~~~~~~ssf~~if~SlsnSsSaK~~~~~Lf~~Lk~~~~~~t~~dy~~l  121 (145)
T PF13762_consen   42 INCILNHLASYQNFSGVVSILEHLHFLNTDNIIGWLDNSSFHIIFKSLSNSSSAKLTSLTLFNFLKKNDIEFTPSDYSCL  121 (145)
T ss_pred             HHHHHHHHHHccchHHHHHHHHHHHHhhHHHHhhhcccchHHHHHHHHccChHHHHHHHHHHHHHHHcCCCCCHHHHHHH
Confidence            3455554455555555555555442110     01234456666666655444 33455666666666666677777777


Q ss_pred             HHHHHhc
Q 046446          178 IHGFIRI  184 (244)
Q Consensus       178 ~~~~~~~  184 (244)
                      +.++.+.
T Consensus       122 i~~~l~g  128 (145)
T PF13762_consen  122 IKAALRG  128 (145)
T ss_pred             HHHHHcC
Confidence            7766543

>PRK09687 putative lyase; Provisional

Probab=80.88  E-value=22  Score=26.95  Aligned_cols=208  Identities=12%  Similarity=0.079  Sum_probs=121.7

Q ss_pred             hhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchH----HHHHHHHHHHHHcCCCCChhHHHHHHHHHHhC
Q 046446            4 NGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQV----ERAFKLFDEMQRDGVAADTRTYTIFIDGLCKN   79 (244)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~----~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~   79 (244)
                      .++...|. +.+...+..+...   +|...-...+.++++.|+.    +++...+..+...  .|+..+-...+.++...
T Consensus        45 ~aL~~~~~-~~~~~~l~~ll~~---~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l~~~--D~d~~VR~~A~~aLG~~  118 (280)
T PRK09687         45 RVLQLRGG-QDVFRLAIELCSS---KNPIERDIGADILSQLGMAKRCQDNVFNILNNLALE--DKSACVRASAINATGHR  118 (280)
T ss_pred             HHHHhcCc-chHHHHHHHHHhC---CCHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHhc--CCCHHHHHHHHHHHhcc
Confidence            34445554 4455555555543   4667777777778777763    5677777776443  45666666666666554


Q ss_pred             CcH-----HHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccC-ChH
Q 046446           80 GYI-----VESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDG-QMD  153 (244)
Q Consensus        80 ~~~-----~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~-~~~  153 (244)
                      +..     ..+.+.+.....   .++..+-...+.++...++ +++...+-.+...   ++...-...+.++.+.+ +..
T Consensus       119 ~~~~~~~~~~a~~~l~~~~~---D~~~~VR~~a~~aLg~~~~-~~ai~~L~~~L~d---~~~~VR~~A~~aLg~~~~~~~  191 (280)
T PRK09687        119 CKKNPLYSPKIVEQSQITAF---DKSTNVRFAVAFALSVIND-EAAIPLLINLLKD---PNGDVRNWAAFALNSNKYDNP  191 (280)
T ss_pred             cccccccchHHHHHHHHHhh---CCCHHHHHHHHHHHhccCC-HHHHHHHHHHhcC---CCHHHHHHHHHHHhcCCCCCH
Confidence            321     223333333332   2355555667777777776 4566666666653   35556666666666543 234


Q ss_pred             HHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchhhhhhhh
Q 046446          154 KAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFTVHE  233 (244)
Q Consensus       154 ~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  233 (244)
                      .+...+..+..   .++..+-...+.++.+.|+. .+...+-...+.+.     .....+.++.+.|.. +++..+..+.
T Consensus       192 ~~~~~L~~~L~---D~~~~VR~~A~~aLg~~~~~-~av~~Li~~L~~~~-----~~~~a~~ALg~ig~~-~a~p~L~~l~  261 (280)
T PRK09687        192 DIREAFVAMLQ---DKNEEIRIEAIIGLALRKDK-RVLSVLIKELKKGT-----VGDLIIEAAGELGDK-TLLPVLDTLL  261 (280)
T ss_pred             HHHHHHHHHhc---CCChHHHHHHHHHHHccCCh-hHHHHHHHHHcCCc-----hHHHHHHHHHhcCCH-hHHHHHHHHH
Confidence            55555555553   35777777778888887774 45555555555432     234567777777775 5666666655


Q ss_pred             h
Q 046446          234 R  234 (244)
Q Consensus       234 ~  234 (244)
                      .
T Consensus       262 ~  262 (280)
T PRK09687        262 Y  262 (280)
T ss_pred             h
Confidence            4

>KOG4507 consensus Uncharacterized conserved protein, contains TPR repeats [Function unknown]

Probab=80.73  E-value=28  Score=29.46  Aligned_cols=100  Identities=15%  Similarity=-0.054  Sum_probs=54.2

Q ss_pred             cCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHH
Q 046446            9 NKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVEL   88 (244)
Q Consensus         9 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~   88 (244)
                      .|+...|...+.........-+......|.....+.|....|..++.+..... ...+-++..+.+++....+++.|++.
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            35566666666555443211122233344444455556666666666655543 33455666667777777777777777


Q ss_pred             HHHHHHhCCCccHHhHHHHHHH
Q 046446           89 FRTLRILKCELDIQAYSCLIDG  110 (244)
Q Consensus        89 ~~~~~~~~~~~~~~~~~~ll~~  110 (244)
                      |++..+.. +.+...-+.|...
T Consensus       699 ~~~a~~~~-~~~~~~~~~l~~i  719 (886)
T KOG4507|consen  699 FRQALKLT-TKCPECENSLKLI  719 (886)
T ss_pred             HHHHHhcC-CCChhhHHHHHHH
Confidence            77666554 3444444444443

>KOG4567 consensus GTPase-activating protein [General function prediction only]

Probab=80.73  E-value=14  Score=28.27  Aligned_cols=74  Identities=14%  Similarity=0.274  Sum_probs=53.5

Q ss_pred             HHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHc----------CCCHHHH
Q 046446           51 FKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCK----------SGRLEIA  120 (244)
Q Consensus        51 ~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~----------~~~~~~a  120 (244)
                      .++|+.+...++.|.-.++.-+.-.+++.=.+.+++.+++.+....     .-|..|+..|+.          .|++...
T Consensus       263 ~EL~~~L~~~~i~PqfyaFRWitLLLsQEF~lpDvi~lWDsl~sD~-----~rfd~Ll~iCcsmlil~Re~il~~DF~~n  337 (370)
T KOG4567|consen  263 EELWRHLEEKEIHPQFYAFRWITLLLSQEFPLPDVIRLWDSLLSDP-----QRFDFLLYICCSMLILVRERILEGDFTVN  337 (370)
T ss_pred             HHHHHHHHhcCCCccchhHHHHHHHHhccCCchhHHHHHHHHhcCh-----hhhHHHHHHHHHHHHHHHHHHHhcchHHH
Confidence            4677888888888888888877777788778888888888887532     225556655553          5788888


Q ss_pred             HHHHHhccc
Q 046446          121 LELFHSLPR  129 (244)
Q Consensus       121 ~~~~~~~~~  129 (244)
                      .++++.-..
T Consensus       338 mkLLQ~yp~  346 (370)
T KOG4567|consen  338 MKLLQNYPT  346 (370)
T ss_pred             HHHHhcCCC
Confidence            777766543

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=80.49  E-value=11  Score=23.42  Aligned_cols=51  Identities=20%  Similarity=0.249  Sum_probs=24.1

Q ss_pred             HHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCC
Q 046446          145 GLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKN  201 (244)
Q Consensus       145 ~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  201 (244)
                      .+.+.|++++|..+.+.+    ..||...|..+-.  .+.|..+....-+.+|...|
T Consensus        48 SLmNrG~Yq~Al~l~~~~----~~pdlepw~ALce--~rlGl~s~l~~rl~rla~sg   98 (115)
T TIGR02508        48 SLMNRGDYQSALQLGNKL----CYPDLEPWLALCE--WRLGLGSALESRLNRLAASG   98 (115)
T ss_pred             HHHccchHHHHHHhcCCC----CCchHHHHHHHHH--HhhccHHHHHHHHHHHHhCC
Confidence            344555555555554433    2355555544422  24454454444444444443

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.

>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B

Probab=80.43  E-value=5.3  Score=22.27  Aligned_cols=19  Identities=16%  Similarity=0.415  Sum_probs=6.9

Q ss_pred             HHHHHhcCChhHHHHHHHH
Q 046446          178 IHGFIRINEPSKVIELLHK  196 (244)
Q Consensus       178 ~~~~~~~g~~~~a~~~~~~  196 (244)
                      |.++...|++++|.+++++
T Consensus        30 I~gllqlg~~~~a~eYi~~   48 (62)
T PF14689_consen   30 IYGLLQLGKYEEAKEYIKE   48 (62)
T ss_dssp             HHHHHHTT-HHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHH
Confidence            3333333333333333333

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=80.07  E-value=18  Score=28.20  Aligned_cols=89  Identities=13%  Similarity=-0.013  Sum_probs=55.6

Q ss_pred             HHHhhhchHHHHHHHHHHHHHcCCCC-ChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCH
Q 046446           39 IGLFEIHQVERAFKLFDEMQRDGVAA-DTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRL  117 (244)
Q Consensus        39 ~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~  117 (244)
                      +-|.+.|.+++|++.|..-...  .| |++++..-..+|.+...+..|+.=.......+ ..-..+|+.-+.+-...|..
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--YPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALD-KLYVKAYSRRMQARESLGNN  181 (536)
T ss_pred             hhhhhccchhHHHHHhhhhhcc--CCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhh-HHHHHHHHHHHHHHHHHhhH
Confidence            4566788999999998876654  44 78888888888888888877766665555433 12233344444444444555


Q ss_pred             HHHHHHHHhcccC
Q 046446          118 EIALELFHSLPRG  130 (244)
Q Consensus       118 ~~a~~~~~~~~~~  130 (244)
                      .+|.+=++.....
T Consensus       182 ~EAKkD~E~vL~L  194 (536)
T KOG4648|consen  182 MEAKKDCETVLAL  194 (536)
T ss_pred             HHHHHhHHHHHhh
Confidence            5555555554443

>COG5108 RPO41 Mitochondrial DNA-directed RNA polymerase [Transcription]

Probab=80.06  E-value=18  Score=30.92  Aligned_cols=74  Identities=16%  Similarity=0.218  Sum_probs=52.0

Q ss_pred             ChhhhhhhcCChhHHHHHHHHHHhC--CCCCChhhHHHHHHHHhhhchHH------HHHHHHHHHHHcCCCCChhHHHHH
Q 046446            1 ILINGYCKNKEIEGALNLYSEMLSK--GIKPDVVIHNTLFIGLFEIHQVE------RAFKLFDEMQRDGVAADTRTYTIF   72 (244)
Q Consensus         1 ~li~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~li~~~~~~~~~~------~a~~~~~~m~~~~~~~~~~~~~~l   72 (244)
                      +|+.+|...|++-++.++++.+...  |-+.=...+|..|+...+.|.++      .+.+.+++..   +.-|.-||..+
T Consensus        33 sl~eacv~n~~~~rs~~ll~s~~~~~~~~k~~l~~~nlyi~~~~q~~sf~l~~~~~~~~~~lq~a~---ln~d~~t~all  109 (1117)
T COG5108          33 SLFEACVYNGDFLRSKQLLKSFIDHNKGDKILLPMINLYIREIIQRGSFELTDVLSNAKELLQQAR---LNGDSLTYALL  109 (1117)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHhcCCcCCeeehhHHHHHHHHHHhcCCccHHHHHHHHHHHHHHhh---cCCcchHHHHH
Confidence            3778999999999999999999876  33334557888888888888754      3444444333   44577777777


Q ss_pred             HHHHH
Q 046446           73 IDGLC   77 (244)
Q Consensus        73 l~~~~   77 (244)
                      +.+-.
T Consensus       110 ~~~sl  114 (1117)
T COG5108         110 CQASL  114 (1117)
T ss_pred             HHhhc
Confidence            66543

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	244
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-15
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	5e-15
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	6e-14
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	5e-08
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-05
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	7e-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 = 74.1 bits (180), Expect = 2e-15
 Identities = 15/133 (11%), Positives = 51/133 (38%), Gaps = 4/133 (3%)

Query: 93  RILKCELDIQAYSCLIDGLCKSGRLEIA---LELFHSLPRGVLVADVVTYSIMIHGLYND 149
              +     Q           + +L +A   L + H   +   +  +  Y+ ++ G    
Sbjct: 119 SQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQ 178

Query: 150 GQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIE-LLHKMKEKNVMPDASI 208
           G   +   +   +++  + P+++++   +    R ++ +  IE  L +M ++ +   A  
Sbjct: 179 GAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALF 238

Query: 209 VSIVVDLLAKNEI 221
            ++++    +  +
Sbjct: 239 TAVLLSEEDRATV 251

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 73.3 bits (178), Expect = 5e-15
 Identities = 17/168 (10%), Positives = 53/168 (31%), Gaps = 4/168 (2%)

Query: 2   LINGYCKNKEIEGA---LNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQ 58
                    ++  A   L ++     K     + ++N + +G       +    +   ++
Sbjct: 133 FFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVK 192

Query: 59  RDGVAADTRTYTIFIDGLCKNGYIVESVE-LFRTLRILKCELDIQAYSCLIDGLCKSGRL 117
             G+  D  +Y   +  + +      ++E     +     +L     + L+    ++  L
Sbjct: 193 DAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVL 252

Query: 118 EIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEEN 165
           +   ++  +      +   V  S ++  +Y          L L ++  
Sbjct: 253 KAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLPLKTL 300

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 70.2 bits (170), Expect = 6e-14
 Identities = 17/188 (9%), Positives = 49/188 (26%), Gaps = 4/188 (2%)

Query: 22  MLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFD---EMQRDGVAADTRTYTIFIDGLCK 78
                +          F       Q+  A  L       ++         Y   + G  +
Sbjct: 118 HSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWAR 177

Query: 79  NGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGR-LEIALELFHSLPRGVLVADVV 137
            G   E V +   ++      D+ +Y+  +  + +  +           + +  L    +
Sbjct: 178 QGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQAL 237

Query: 138 TYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKM 197
             ++++        +   H +          P  +    L+      +      +L   +
Sbjct: 238 FTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLPL 297

Query: 198 KEKNVMPD 205
           K    + +
Sbjct: 298 KTLQCLFE 305

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 52.5 bits (124), Expect = 5e-08
 Identities = 12/130 (9%), Positives = 41/130 (31%), Gaps = 1/130 (0%)

Query: 1   ILINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAF-KLFDEMQR 59
            ++ G+ +    +  + +   +   G+ PD++ +      +    Q      +  ++M +
Sbjct: 170 AVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQ 229

Query: 60  DGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEI 119
           +G+        + +    +   +    ++  T  +          S L+  +        
Sbjct: 230 EGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVS 289

Query: 120 ALELFHSLPR 129
             +L   L  
Sbjct: 290 YPKLHLPLKT 299

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 42.9 bits (100), Expect = 6e-05
 Identities = 35/251 (13%), Positives = 80/251 (31%), Gaps = 53/251 (21%)

Query: 1   ILINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRD 60
           +  + +  N + +   ++   +LSK     +++             V    +LF  +   
Sbjct: 24  VFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIM---------SKDAVSGTLRLFWTLLSK 74

Query: 61  GVAADTRTYTIFIDGLCKNGY--IVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLE 118
                      F++ + +  Y  ++      +T    +  +  + Y    D L    ++ 
Sbjct: 75  Q----EEMVQKFVEEVLRINYKFLMSP---IKT-EQRQPSMMTRMYIEQRDRLYNDNQVF 126

Query: 119 IAL-----ELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDK---AHDLFLDMEENAVAPN 170
                   + +  L + +L        ++I G+   G   K   A D+ L  +       
Sbjct: 127 AKYNVSRLQPYLKLRQALLELRPAKN-VLIDGVLGSG---KTWVALDVCLSYKVQCKMDF 182

Query: 171 VI---TFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLP 227
            I               N P  V+E+L K+          +  I  +  ++++ S N   
Sbjct: 183 KIFWLNLK-------NCNSPETVLEMLQKL----------LYQIDPNWTSRSDHSSN--I 223

Query: 228 SFTVHERQEEV 238
              +H  Q E+
Sbjct: 224 KLRIHSIQAEL 234

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 39.8 bits (92), Expect = 7e-04
 Identities = 21/164 (12%), Positives = 51/164 (31%), Gaps = 25/164 (15%)

Query: 10  KEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLF--EIHQVERAFKLFDEMQRDGVAADTR 67
            E++  L  Y +   + +  +V+  N   + +    I      +  +  +  D +   T 
Sbjct: 301 DEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKL---TT 357

Query: 68  TYTIFIDGLCKNGYIVESVELFRTLRILKCELDI--QAYSCLIDGLCKSGRLEIALELFH 125
                ++ L       E  ++F  L +      I     S +   +     + + +   H
Sbjct: 358 IIESSLNVLEPA----EYRKMFDRLSVFPPSAHIPTILLSLIWFDV-IKSDVMVVVNKLH 412

Query: 126 SLPRGVLVADVVTYSIMIHGLY--------NDGQMDKAHDLFLD 161
                ++       +I I  +Y        N+  +   H   +D
Sbjct: 413 K--YSLVEKQPKESTISIPSIYLELKVKLENEYAL---HRSIVD 451

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	244
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.94
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.94
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.89
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.88
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.88
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.87
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.85
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.85
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.85
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.84
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.84
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.83
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.82
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.82
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.81
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.81
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.81
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.8
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.8
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.8
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.79
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.79
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.78
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.78
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.78
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.77
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.77
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.77
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.77
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.77
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.77
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.76
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.75
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.74
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.74
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.74
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.72
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.72
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.7
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.69
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.69
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.68
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.68
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.65
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.64
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.64
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.63
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.63
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.62
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.6
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.6
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.59
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.59
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.59
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.59
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.59
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.58
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.58
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.55
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.55
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.52
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.52
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.52
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.52
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.51
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.51
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.51
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.5
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.5
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.49
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.47
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.47
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.44
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.44
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.43
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.42
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.41
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.38
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.38
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.37
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.37
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.36
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.36
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.35
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.35
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.35
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.35
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.35
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.34
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.34
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.32
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.31
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.3
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.3
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.3
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.3
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.29
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.28
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.27
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.26
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.26
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.24
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.24
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.24
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.24
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.23
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.21
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.21
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.15
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	99.15
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	99.13
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.11
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	99.1
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	99.09
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	99.09
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.08
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	99.07
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	99.07
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	99.06
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	99.06
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.05
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	99.05
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	99.05
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.04
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	99.03
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	99.03
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	99.02
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	99.01
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	99.01
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	99.01
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.0
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.98
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.98
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.97
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.96
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.95
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.94
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.93
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.92
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	98.91
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.91
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.89
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.89
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.87
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.86
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.86
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.85
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.85
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.83
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.83
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.81
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.81
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.81
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.81
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.8
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.8
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.8
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.8
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.79
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.78
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.77
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.77
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.77
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.76
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.73
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.71
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.7
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.68
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.68
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.68
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.65
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.64
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.63
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.61
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.61
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.58
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.57
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.56
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.55
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.53
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.52
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.51
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.49
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.49
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.48
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.47
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.43
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.42
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.41
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.41
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.38
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.37
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.36
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.31
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.31
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.26
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.26
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.16
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.16
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.15
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	98.08
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.05
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	98.04
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.95
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.94
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.91
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	97.87
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.74
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.7
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.69
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.68
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.68
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.68
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.63
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.62
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.37
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	97.35
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.3
1pc2_A	152	Mitochondria fission protein; unknown function; NM	97.12
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.03
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	97.02
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	97.0
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.91
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.79
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.73
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	96.62
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.61
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	96.23
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	96.18
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	96.18
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	96.1
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	95.93
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	95.78
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	95.7
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	95.68
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	95.65
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	95.57
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	95.33
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	95.21
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	95.03
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	94.75
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	94.54
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	93.79
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	93.58
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	93.54
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	93.32
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	93.14
2zu6_B	307	Programmed cell death protein 4; protein-protein c	92.09
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	92.02
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	91.97
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	91.97
3eiq_C	358	Programmed cell death protein 4; PDCD4, anti-oncog	91.01
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	90.93
1k1a_A	241	B-cell lymphoma 3-encoded protein; BCL-3, NF-kappa	90.54
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	90.2
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	89.14
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	88.4
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	87.92
2p58_C	116	Putative type III secretion protein YSCG; type III	87.17
3esl_A	202	Checkpoint serine/threonine-protein kinase BUB1; m	86.76
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	86.34
2d2s_A	235	Exocyst complex component EXO84; tethering complex	84.62
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	84.2
2p58_C	116	Putative type III secretion protein YSCG; type III	83.57
3hra_A	201	Ankyrin repeat family protein; structural protein;	83.48
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	83.18
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	82.8
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	82.69
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	82.23
2fe3_A	145	Peroxide operon regulator; oxidative stress regula	81.85
3jxi_A	260	Vanilloid receptor-related osmotically activated p	81.85
1mzb_A	136	Ferric uptake regulation protein; ferric uptake re	81.11
2d2s_A	235	Exocyst complex component EXO84; tethering complex	81.1
2w57_A	150	Ferric uptake regulation protein; gene regulation,	80.77
3eyy_A	145	Putative iron uptake regulatory protein; NUR, nick	80.11

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=100.00  E-value=1.2e-40  Score=264.74  Aligned_cols=213  Identities=15%  Similarity=0.210  Sum_probs=186.5

Q ss_pred             hHHHHHHHHHHhCCCCCChh-hHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCc---------H
Q 046446           13 EGALNLYSEMLSKGIKPDVV-IHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGY---------I   82 (244)
Q Consensus        13 ~~a~~~~~~~~~~~~~~~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~---------~   82 (244)
                      ..+..+.+++.+.+..+++. .++.+|.+|++.|++++|+++|++|.+.|+.||..||++||.+|++.+.         .
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            34566777777777665544 6889999999999999999999999999999999999999999987654         6


Q ss_pred             HHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHH
Q 046446           83 VESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDM  162 (244)
Q Consensus        83 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  162 (244)
                      +.|.++|++|.+.|+.||..||+++|.+|++.|++++|.++|++|.+.|+.||..+|+++|.+|++.|++++|.++|++|
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            88999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccc
Q 046446          163 EENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNS  225 (244)
Q Consensus       163 ~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  225 (244)
                      .+.|+.||..||+.||.+|++.|++++|.+++++|.+.|..|+..||+.++..|...+....+
T Consensus       167 ~~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~~a~~~g  229 (501)
T 4g26_A          167 VESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSEVATKTG  229 (501)
T ss_dssp             HHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSHHHHTCC
T ss_pred             HhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcCcchhhh
Confidence            999999999999999999999999999999999999999999999999999999886655433

>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=2.4e-38  Score=251.59  Aligned_cols=183  Identities=16%  Similarity=0.206  Sum_probs=177.3

Q ss_pred             hhhhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhh---------chHHHHHHHHHHHHHcCCCCChhHHHHH
Q 046446            2 LINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEI---------HQVERAFKLFDEMQRDGVAADTRTYTIF   72 (244)
Q Consensus         2 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~---------~~~~~a~~~~~~m~~~~~~~~~~~~~~l   72 (244)
                      +|++|++.|++++|.++|++|.+.|+.||..+||.+|.+|++.         +.++.|.++|++|.+.|+.||..||++|
T Consensus        32 ~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~G~~Pd~~tyn~l  111 (501)
T 4g26_A           32 KLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNEATFTNG  111 (501)
T ss_dssp             HHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHTTCCCCHHHHHHH
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHhCCCCCHHHHHHH
Confidence            5899999999999999999999999999999999999999865         4589999999999999999999999999


Q ss_pred             HHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCCh
Q 046446           73 IDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQM  152 (244)
Q Consensus        73 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~  152 (244)
                      |.+|++.|++++|.++|++|.+.|+.||..+|+++|.+|++.|++++|.++|++|.+.|+.||..||++||.+|++.|++
T Consensus       112 I~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~~~g~~  191 (501)
T 4g26_A          112 ARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDTKNA  191 (501)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhhCCCH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhc
Q 046446          153 DKAHDLFLDMEENAVAPNVITFGTLIHGFIRI  184 (244)
Q Consensus       153 ~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  184 (244)
                      ++|.+++++|.+.|..|+..||+.++..|...
T Consensus       192 d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          192 DKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             HHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSH
T ss_pred             HHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcC
Confidence            99999999999999999999999999988753

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.94  E-value=1e-24  Score=178.08  Aligned_cols=225  Identities=8%  Similarity=0.018  Sum_probs=100.5

Q ss_pred             hhhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcH
Q 046446            3 INGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYI   82 (244)
Q Consensus         3 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~   82 (244)
                      +..|.+.|++++|.++|+++.+.+ +.+..+++.++.++.+.|++++|..+++++.+. .+.+..+++.++.+|.+.|++
T Consensus       312 ~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~  389 (597)
T 2xpi_A          312 ADTLFVRSRFIDVLAITTKILEID-PYNLDVYPLHLASLHESGEKNKLYLISNDLVDR-HPEKAVTWLAVGIYYLCVNKI  389 (597)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-TTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHH-CTTSHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhh-CcccHHHHHHHHHHHHHhccH
Confidence            445556666666666666665442 223344444444444444444444444444432 122344444444444444444


Q ss_pred             HHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHH
Q 046446           83 VESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDM  162 (244)
Q Consensus        83 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  162 (244)
                      ++|.++|+++.+.. +.+..+|+.++.+|.+.|++++|.++|+++.+.+ +.+..+|+.++.+|.+.|++++|.++|+.+
T Consensus       390 ~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  467 (597)
T 2xpi_A          390 SEARRYFSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQHMQLGNILLANEYLQSS  467 (597)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            44444444444432 2334444444444444444444444444444332 223444444444444444444444444444


Q ss_pred             HHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHC----CCCCC--hhhHHHHHHHHHhccccccchhhhhhh
Q 046446          163 EENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEK----NVMPD--ASIVSIVVDLLAKNEISLNSLPSFTVH  232 (244)
Q Consensus       163 ~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~  232 (244)
                      .+.. +.+..+|+.++..|.+.|++++|.++|+++.+.    +..|+  ..++..++.+|.+.|++++|...|+.+
T Consensus       468 ~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  542 (597)
T 2xpi_A          468 YALF-QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQG  542 (597)
T ss_dssp             HHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            4322 113344444444444444444444444444332    33333  334444444444444444444444433

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.94  E-value=1.1e-24  Score=177.92  Aligned_cols=230  Identities=12%  Similarity=0.083  Sum_probs=207.5

Q ss_pred             hhhhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCc
Q 046446            2 LINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGY   81 (244)
Q Consensus         2 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~   81 (244)
                      ++.++.+.|++++|.++++++.+.. +.+..+|+.++..|.+.|++++|.++|+++.+.. +.+..+|+.++.+|.+.|+
T Consensus       345 l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~  422 (597)
T 2xpi_A          345 HLASLHESGEKNKLYLISNDLVDRH-PEKAVTWLAVGIYYLCVNKISEARRYFSKSSTMD-PQFGPAWIGFAHSFAIEGE  422 (597)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-TTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCC
Confidence            5678899999999999999998753 5678899999999999999999999999998863 3367899999999999999


Q ss_pred             HHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHH
Q 046446           82 IVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLD  161 (244)
Q Consensus        82 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  161 (244)
                      +++|.++|+++.+.+ +.+..+|+.++.+|.+.|++++|.++|+++.+.. +.+..+|+.++..|.+.|++++|.++|++
T Consensus       423 ~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  500 (597)
T 2xpi_A          423 HDQAISAYTTAARLF-QGTHLPYLFLGMQHMQLGNILLANEYLQSSYALF-QYDPLLLNELGVVAFNKSDMQTAINHFQN  500 (597)
T ss_dssp             HHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            999999999999875 5688999999999999999999999999998764 45789999999999999999999999999


Q ss_pred             HHHc----CCCCc--HhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchhhhhhhhhh
Q 046446          162 MEEN----AVAPN--VITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFTVHERQ  235 (244)
Q Consensus       162 ~~~~----~~~p~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  235 (244)
                      +.+.    +..|+  ..+|..+..+|.+.|++++|.+.++++.+.+ +.+..+|..+..+|.+.|++++|.+.|+.+.+.
T Consensus       501 ~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~  579 (597)
T 2xpi_A          501 ALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLS-TNDANVHTAIALVYLHKKIPGLAITHLHESLAI  579 (597)
T ss_dssp             HHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHhc
Confidence            9876    66787  7899999999999999999999999998875 347899999999999999999999999988764


Q ss_pred             h
Q 046446          236 E  236 (244)
Q Consensus       236 ~  236 (244)
                      .
T Consensus       580 ~  580 (597)
T 2xpi_A          580 S  580 (597)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=1.8e-23  Score=172.88  Aligned_cols=151  Identities=13%  Similarity=0.184  Sum_probs=128.5

Q ss_pred             hhHHHHHHHHHHhCCcHHHHHHHHHHHH---HhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHH
Q 046446           66 TRTYTIFIDGLCKNGYIVESVELFRTLR---ILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIM  142 (244)
Q Consensus        66 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  142 (244)
                      ..||+++|++|++.|++++|.++|++|.   +.|+.||..|||+||.+|++.|++++|.++|++|.+.|+.||..|||++
T Consensus       127 ~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYntL  206 (1134)
T 3spa_A          127 QQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAA  206 (1134)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHH
Confidence            4589999999999999999999998876   4578999999999999999999999999999999999999999999999


Q ss_pred             HHHHHccCCh-HHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC------hhhHHHHHHH
Q 046446          143 IHGLYNDGQM-DKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPD------ASIVSIVVDL  215 (244)
Q Consensus       143 i~~~~~~~~~-~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~------~~~~~~l~~~  215 (244)
                      |.++++.|+. ++|.++|++|.+.|+.||..+|+.++..+.+.    .+++..+++ ..++.|+      ..+...|.+.
T Consensus       207 I~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~----~vL~~Vrkv-~P~f~p~~~~~~~~~t~~LL~dl  281 (1134)
T 3spa_A          207 LQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRA----TVLKAVHKV-KPTFSLPPQLPPPVNTSKLLRDV  281 (1134)
T ss_dssp             HHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHH----HHHHHHGGG-CCCCCCCCCCCCCCCCCTTTHHH
T ss_pred             HHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHH----HHHHHHHHh-CcccCCCCCCcccccchHHHHHH
Confidence            9999999985 78999999999999999999999998766554    333444443 3355554      5667778888


Q ss_pred             HHhccc
Q 046446          216 LAKNEI  221 (244)
Q Consensus       216 ~~~~g~  221 (244)
                      |.+.+.
T Consensus       282 ~s~d~~  287 (1134)
T 3spa_A          282 YAKDGR  287 (1134)
T ss_dssp             HCCCSC
T ss_pred             HccCCC
Confidence            887663

>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=99.88  E-value=7.3e-20  Score=141.91  Aligned_cols=225  Identities=12%  Similarity=0.023  Sum_probs=158.1

Q ss_pred             hhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHH
Q 046446            5 GYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVE   84 (244)
Q Consensus         5 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~   84 (244)
                      .+...|++++|.+.|+++.+.. +.+..+|..+...+...|++++|...|+++.+.+ +.+...+..+...+...|++++
T Consensus       144 ~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~  221 (388)
T 1w3b_A          144 LLKALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDR  221 (388)
T ss_dssp             HHHTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTH
T ss_pred             HHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHH
Confidence            3444555555555555555442 2234455555555666666666666666655542 1234555566666666666666


Q ss_pred             HHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHH
Q 046446           85 SVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEE  164 (244)
Q Consensus        85 a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  164 (244)
                      |...+++..+.. +.+..++..+..+|...|++++|...|+++.+.+ +.+..+|..+...+.+.|++++|.+.|+.+.+
T Consensus       222 A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  299 (388)
T 1w3b_A          222 AVAAYLRALSLS-PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALR  299 (388)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            666666665554 3456778888888888888888888888887764 33577888888888888999999999888887


Q ss_pred             cCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchhhhhhhhhh
Q 046446          165 NAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFTVHERQ  235 (244)
Q Consensus       165 ~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  235 (244)
                      .. +.+..++..+...+...|++++|...++++.+.. +.+..++..+...|.+.|++++|+..|+.+.+.
T Consensus       300 ~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~  368 (388)
T 1w3b_A          300 LC-PTHADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI  368 (388)
T ss_dssp             HC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTT
T ss_pred             hC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            53 4577788888888888999999999998887753 335678888888999999999999988877653

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.88  E-value=8.2e-23  Score=168.96  Aligned_cols=129  Identities=9%  Similarity=0.175  Sum_probs=115.7

Q ss_pred             CccHHhHHHHHHHHHcCCCHHHHHHHHHhcc---cCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHH
Q 046446           98 ELDIQAYSCLIDGLCKSGRLEIALELFHSLP---RGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITF  174 (244)
Q Consensus        98 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~  174 (244)
                      ..-..|||++|++|++.|++++|.++|++|.   ..|+.||..|||+||.+|++.|++++|.++|++|.+.|+.||..||
T Consensus       124 ~~~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTY  203 (1134)
T 3spa_A          124 SGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSY  203 (1134)
T ss_dssp             CHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHH
T ss_pred             HhHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHH
Confidence            3446789999999999999999999998875   4478999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcCCh-hHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccch
Q 046446          175 GTLIHGFIRINEP-SKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSL  226 (244)
Q Consensus       175 ~~l~~~~~~~g~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  226 (244)
                      +++|.++++.|+. ++|.++|++|.+.|+.||..+|+.++..+.+.+-++...
T Consensus       204 ntLI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~vL~~Vr  256 (1134)
T 3spa_A          204 AAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVH  256 (1134)
T ss_dssp             HHHHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHHHHHHHG
T ss_pred             HHHHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHHHHHHHH
Confidence            9999999999985 789999999999999999999998887766665444333

>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=99.87  E-value=1.4e-19  Score=140.39  Aligned_cols=227  Identities=12%  Similarity=0.014  Sum_probs=133.4

Q ss_pred             hhhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcH
Q 046446            3 INGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYI   82 (244)
Q Consensus         3 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~   82 (244)
                      ...+.+.|++++|...|+++.+.. +.+...|..+..++...|++++|...|+++.+.. +.+...+..+...+...|++
T Consensus        74 g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~  151 (388)
T 1w3b_A           74 GNVYKERGQLQEAIEHYRHALRLK-PDFIDGYINLAAALVAAGDMEGAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRL  151 (388)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCH
Confidence            345666666666666666666542 2233456666666666666666666666655542 11233444555555555555


Q ss_pred             HHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCC-------------------------------
Q 046446           83 VESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGV-------------------------------  131 (244)
Q Consensus        83 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-------------------------------  131 (244)
                      ++|.+.|+++.+.. +.+..+|..+...+...|++++|...|+++.+.+                               
T Consensus       152 ~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al  230 (388)
T 1w3b_A          152 EEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRAL  230 (388)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            55555555555543 2344555555555555555555555555443321                               


Q ss_pred             -c-cccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhH
Q 046446          132 -L-VADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIV  209 (244)
Q Consensus       132 -~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  209 (244)
                       . +.+..++..+...+...|++++|.+.|+.+.+... .+..+|..+...+.+.|++++|...++++.+.. +.+..++
T Consensus       231 ~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~  308 (388)
T 1w3b_A          231 SLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQP-HFPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSL  308 (388)
T ss_dssp             HHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCS-SCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             hhCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHH
Confidence             0 22355666666677777777777777777665431 245566667777777777777777777776653 3456667


Q ss_pred             HHHHHHHHhccccccchhhhhhhhh
Q 046446          210 SIVVDLLAKNEISLNSLPSFTVHER  234 (244)
Q Consensus       210 ~~l~~~~~~~g~~~~a~~~~~~~~~  234 (244)
                      ..+...+.+.|++++|+..++.+.+
T Consensus       309 ~~l~~~~~~~g~~~~A~~~~~~al~  333 (388)
T 1w3b_A          309 NNLANIKREQGNIEEAVRLYRKALE  333 (388)
T ss_dssp             HHHHHHHHTTTCHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            7777777777777777777766544

>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=99.85  E-value=4.8e-19  Score=139.74  Aligned_cols=227  Identities=11%  Similarity=0.061  Sum_probs=192.1

Q ss_pred             hhhhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCc
Q 046446            2 LINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGY   81 (244)
Q Consensus         2 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~   81 (244)
                      +...+.+.|++++|+.+|+++.+.. +.+...|..+..++...|++++|...|+++.+.+ +.+..++..+..+|.+.|+
T Consensus        32 ~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~  109 (450)
T 2y4t_A           32 LGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLK-MDFTAARLQRGHLLLKQGK  109 (450)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCC
Confidence            4567889999999999999998863 4578889999999999999999999999999874 3367889999999999999


Q ss_pred             HHHHHHHHHHHHHhCCCccH---HhHHHH------------HHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHH
Q 046446           82 IVESVELFRTLRILKCELDI---QAYSCL------------IDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGL  146 (244)
Q Consensus        82 ~~~a~~~~~~~~~~~~~~~~---~~~~~l------------l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  146 (244)
                      +++|.+.|+++.+.. +.+.   ..+..+            ...+...|++++|...|+++.+.. +.+...+..+..+|
T Consensus       110 ~~~A~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~  187 (450)
T 2y4t_A          110 LDEAEDDFKKVLKSN-PSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVC-VWDAELRELRAECF  187 (450)
T ss_dssp             HHHHHHHHHHHHTSC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcC-CCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHH
Confidence            999999999998865 3344   566655            444889999999999999988764 45788999999999


Q ss_pred             HccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC-hhhHHHH------------H
Q 046446          147 YNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPD-ASIVSIV------------V  213 (244)
Q Consensus       147 ~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~l------------~  213 (244)
                      ...|++++|.+.|+.+.+.. +.+..++..+...+...|++++|...++++....  |+ ...+..+            .
T Consensus       188 ~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--p~~~~~~~~~~~~~~~~~~~~~~  264 (450)
T 2y4t_A          188 IKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVRECLKLD--QDHKRCFAHYKQVKKLNKLIESA  264 (450)
T ss_dssp             HHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CChHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999988753 3468899999999999999999999999998753  43 3444444            7


Q ss_pred             HHHHhccccccchhhhhhhhhh
Q 046446          214 DLLAKNEISLNSLPSFTVHERQ  235 (244)
Q Consensus       214 ~~~~~~g~~~~a~~~~~~~~~~  235 (244)
                      ..+.+.|++++|+..|+.+...
T Consensus       265 ~~~~~~g~~~~A~~~~~~~l~~  286 (450)
T 2y4t_A          265 EELIRDGRYTDATSKYESVMKT  286 (450)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhc
Confidence            8999999999999999988664

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.85  E-value=2.1e-19  Score=138.24  Aligned_cols=228  Identities=9%  Similarity=-0.053  Sum_probs=189.1

Q ss_pred             hhhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcH
Q 046446            3 INGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYI   82 (244)
Q Consensus         3 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~   82 (244)
                      ...+.+.|++++|..+|+++.+.. +.+...|..+...+...|++++|+..|+++.+.. +.+..++..+..+|...|++
T Consensus        72 ~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~  149 (365)
T 4eqf_A           72 GLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAVSYTNTSHQ  149 (365)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHccccH
Confidence            456788999999999999998864 4577889999999999999999999999999873 34688999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCccHH----------hHHHHHHHHHcCCCHHHHHHHHHhcccCCccc--cHHHHHHHHHHHHccC
Q 046446           83 VESVELFRTLRILKCELDIQ----------AYSCLIDGLCKSGRLEIALELFHSLPRGVLVA--DVVTYSIMIHGLYNDG  150 (244)
Q Consensus        83 ~~a~~~~~~~~~~~~~~~~~----------~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~li~~~~~~~  150 (244)
                      ++|.+.++++.+.. +.+..          .+..+...+...|++++|...++++.+.. +.  +..++..+...+...|
T Consensus       150 ~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~l~~~~~~~g  227 (365)
T 4eqf_A          150 QDACEALKNWIKQN-PKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQN-GDMIDPDLQTGLGVLFHLSG  227 (365)
T ss_dssp             HHHHHHHHHHHHHC-HHHHCC-------------------CCHHHHHHHHHHHHHHHHS-CSSCCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhC-ccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhC-cCccCHHHHHHHHHHHHHCC
Confidence            99999999998764 22222          23445889999999999999999988764 22  6889999999999999


Q ss_pred             ChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchhhhh
Q 046446          151 QMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFT  230 (244)
Q Consensus       151 ~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  230 (244)
                      ++++|...++.+.+.. +.+..+|..+..++...|++++|...++++.+.. +.+..++..+..+|.+.|++++|...|+
T Consensus       228 ~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~  305 (365)
T 4eqf_A          228 EFNRAIDAFNAALTVR-PEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQ-PGFIRSRYNLGISCINLGAYREAVSNFL  305 (365)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            9999999999998764 3468899999999999999999999999998864 2357889999999999999999999999


Q ss_pred             hhhhhh
Q 046446          231 VHERQE  236 (244)
Q Consensus       231 ~~~~~~  236 (244)
                      ...+..
T Consensus       306 ~al~~~  311 (365)
T 4eqf_A          306 TALSLQ  311 (365)
T ss_dssp             HHHHHH
T ss_pred             HHHHhC
Confidence            877654

>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=99.85  E-value=9.1e-19  Score=138.16  Aligned_cols=225  Identities=12%  Similarity=0.150  Sum_probs=141.9

Q ss_pred             hhhhhhcCChhHHHHHHHHHHhCCCCCCh---hhHHHH------------HHHHhhhchHHHHHHHHHHHHHcCCCCChh
Q 046446            3 INGYCKNKEIEGALNLYSEMLSKGIKPDV---VIHNTL------------FIGLFEIHQVERAFKLFDEMQRDGVAADTR   67 (244)
Q Consensus         3 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l------------i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~   67 (244)
                      ...|.+.|++++|...|+++.+.. +.+.   ..+..+            ...+...|++++|+..|+++.+.. +.+..
T Consensus       101 ~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~  178 (450)
T 2y4t_A          101 GHLLLKQGKLDEAEDDFKKVLKSN-PSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVC-VWDAE  178 (450)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTSC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcC-CCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChH
Confidence            345556666666666666666542 1122   333333            223555666666666666666542 23556


Q ss_pred             HHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHH-----
Q 046446           68 TYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIM-----  142 (244)
Q Consensus        68 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-----  142 (244)
                      ++..+..+|.+.|++++|.+.|+++.+.. +.+..++..+..+|...|++++|...|+++.... +.+...+..+     
T Consensus       179 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~~~~~~~  256 (450)
T 2y4t_A          179 LRELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVRECLKLD-QDHKRCFAHYKQVKK  256 (450)
T ss_dssp             HHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CChHHHHHHHHHHHH
Confidence            66667777777777777777777766654 4556677777777777777777777777766542 2233344333     


Q ss_pred             -------HHHHHccCChHHHHHHHHHHHHcCCCCc-----HhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHH
Q 046446          143 -------IHGLYNDGQMDKAHDLFLDMEENAVAPN-----VITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVS  210 (244)
Q Consensus       143 -------i~~~~~~~~~~~a~~~~~~~~~~~~~p~-----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  210 (244)
                             ...+...|++++|...|+.+.+..  |+     ...+..+..++.+.|++++|...++++.+.. +.+...+.
T Consensus       257 ~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~--p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~-p~~~~~~~  333 (450)
T 2y4t_A          257 LNKLIESAEELIRDGRYTDATSKYESVMKTE--PSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQME-PDNVNALK  333 (450)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHH
Confidence                   666777777777777777776532  33     3356667777777777777777777776543 23567777


Q ss_pred             HHHHHHHhccccccchhhhhhhhh
Q 046446          211 IVVDLLAKNEISLNSLPSFTVHER  234 (244)
Q Consensus       211 ~l~~~~~~~g~~~~a~~~~~~~~~  234 (244)
                      .+..+|...|++++|...|+...+
T Consensus       334 ~l~~~~~~~~~~~~A~~~~~~al~  357 (450)
T 2y4t_A          334 DRAEAYLIEEMYDEAIQDYETAQE  357 (450)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHH
Confidence            777777777777777777776654

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.84  E-value=3e-18  Score=129.53  Aligned_cols=226  Identities=10%  Similarity=-0.006  Sum_probs=126.1

Q ss_pred             hhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhc-hHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcH
Q 046446            4 NGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIH-QVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYI   82 (244)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~-~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~   82 (244)
                      ..+...|++++|..+++++.+.. +.+...|..+...+...| ++++|...|++..+.. +.+...+..+...+...|++
T Consensus        64 ~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~  141 (330)
T 3hym_B           64 GTLVELNKANELFYLSHKLVDLY-PSNPVSWFAVGCYYLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVESEH  141 (330)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHHHHHHHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTCH
T ss_pred             HHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccCH
Confidence            34444555555555555555432 223444555555555555 5555555555555442 22344555555555666666


Q ss_pred             HHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHH
Q 046446           83 VESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDM  162 (244)
Q Consensus        83 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  162 (244)
                      ++|.+.+++..+.. +.+...+..+...|...|++++|...+++..+.. +.+...+..+...+...|++++|...++..
T Consensus       142 ~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a  219 (330)
T 3hym_B          142 DQAMAAYFTAAQLM-KGCHLPMLYIGLEYGLTNNSKLAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDA  219 (330)
T ss_dssp             HHHHHHHHHHHHHT-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhc-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHH
Confidence            66666666555543 2334455556666666666666666666655543 334556666666666666666666666665


Q ss_pred             HHcC--------CCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchhhhhhhhh
Q 046446          163 EENA--------VAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFTVHER  234 (244)
Q Consensus       163 ~~~~--------~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  234 (244)
                      .+..        .+.+..++..+..++...|++++|...+++..+.. +.+...+..+..+|.+.|++++|...|+...+
T Consensus       220 ~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  298 (330)
T 3hym_B          220 LEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALDYHRQALVLI-PQNASTYSAIGYIHSLMGNFENAVDYFHTALG  298 (330)
T ss_dssp             HHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTT
T ss_pred             HHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhC-ccchHHHHHHHHHHHHhccHHHHHHHHHHHHc
Confidence            5421        02234456666666666666666666666666543 22455566666666666666666666665443

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.84  E-value=3.8e-18  Score=129.00  Aligned_cols=228  Identities=9%  Similarity=-0.049  Sum_probs=195.7

Q ss_pred             hhhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCC-c
Q 046446            3 INGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNG-Y   81 (244)
Q Consensus         3 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~-~   81 (244)
                      ...+...|++++|.++|+++.+.. +.+...+..++..+...|++++|..+++++.+.. +.+..++..+...+...| +
T Consensus        29 a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~  106 (330)
T 3hym_B           29 AERHYYNCDFKMCYKLTSVVMEKD-PFHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAVGCYYLMVGHK  106 (330)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHHHHHHHHSCSC
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHcC-CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhhhh
Confidence            456778899999999999998864 4456677788888999999999999999999863 346788999999999999 9


Q ss_pred             HHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHH
Q 046446           82 IVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLD  161 (244)
Q Consensus        82 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  161 (244)
                      +++|.+.+++..+.. +.+...|..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|...++.
T Consensus       107 ~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  184 (330)
T 3hym_B          107 NEHARRYLSKATTLE-KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLM-KGCHLPMLYIGLEYGLTNNSKLAERFFSQ  184 (330)
T ss_dssp             HHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT-TTCSHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhc-cccHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            999999999999875 4578889999999999999999999999988764 33567788899999999999999999999


Q ss_pred             HHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCC--------CCCChhhHHHHHHHHHhccccccchhhhhhhh
Q 046446          162 MEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKN--------VMPDASIVSIVVDLLAKNEISLNSLPSFTVHE  233 (244)
Q Consensus       162 ~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~--------~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  233 (244)
                      ..+.. +.+...+..+...+...|++++|...+++..+..        ...+..++..+..+|.+.|++++|+..++...
T Consensus       185 al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~  263 (330)
T 3hym_B          185 ALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALDYHRQAL  263 (330)
T ss_dssp             HHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            98764 3467888999999999999999999999988641        13345788999999999999999999998876


Q ss_pred             hh
Q 046446          234 RQ  235 (244)
Q Consensus       234 ~~  235 (244)
                      +.
T Consensus       264 ~~  265 (330)
T 3hym_B          264 VL  265 (330)
T ss_dssp             HH
T ss_pred             hh
Confidence            54

>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=99.83  E-value=4.6e-18  Score=130.67  Aligned_cols=228  Identities=11%  Similarity=-0.011  Sum_probs=188.8

Q ss_pred             hhhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcH
Q 046446            3 INGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYI   82 (244)
Q Consensus         3 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~   82 (244)
                      ...+.+.|++++|...|+++.+.. +.+...+..+...+...|++++|...|+++.+.. +.+..++..+...+...|++
T Consensus        71 ~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~  148 (368)
T 1fch_A           71 GLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNESLQ  148 (368)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCH
Confidence            356788999999999999999874 4567788899999999999999999999998874 34788899999999999999


Q ss_pred             HHHHHHHHHHHHhCCCccHHhHHH---------------HHHHHHcCCCHHHHHHHHHhcccCCccc--cHHHHHHHHHH
Q 046446           83 VESVELFRTLRILKCELDIQAYSC---------------LIDGLCKSGRLEIALELFHSLPRGVLVA--DVVTYSIMIHG  145 (244)
Q Consensus        83 ~~a~~~~~~~~~~~~~~~~~~~~~---------------ll~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~li~~  145 (244)
                      ++|.+.++++.+.. +.+...+..               .+..+...|++++|...++++.+.. +.  +..++..+...
T Consensus       149 ~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~~l~~~  226 (368)
T 1fch_A          149 RQACEILRDWLRYT-PAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLD-PTSIDPDVQCGLGVL  226 (368)
T ss_dssp             HHHHHHHHHHHHTS-TTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHS-TTSCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-cCcHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhC-cCcccHHHHHHHHHH
Confidence            99999999998765 233333321               2334448899999999999988763 22  57899999999


Q ss_pred             HHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccc
Q 046446          146 LYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNS  225 (244)
Q Consensus       146 ~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  225 (244)
                      +...|++++|...++.+.+.. +.+..++..+...+...|++++|...++++.+.. +.+...+..+..+|.+.|++++|
T Consensus       227 ~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A  304 (368)
T 1fch_A          227 FNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHREA  304 (368)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHH
Confidence            999999999999999988763 3367889999999999999999999999998764 34678889999999999999999


Q ss_pred             hhhhhhhhhhh
Q 046446          226 LPSFTVHERQE  236 (244)
Q Consensus       226 ~~~~~~~~~~~  236 (244)
                      ...|+......
T Consensus       305 ~~~~~~al~~~  315 (368)
T 1fch_A          305 VEHFLEALNMQ  315 (368)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHhC
Confidence            99998876643

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.82  E-value=4.7e-18  Score=121.46  Aligned_cols=200  Identities=14%  Similarity=0.067  Sum_probs=157.4

Q ss_pred             CCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHH
Q 046446           28 KPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCL  107 (244)
Q Consensus        28 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  107 (244)
                      +++...+..+...+.+.|++++|...|++..+.. +.+...+..+..++.+.|++++|+..+++..+.. |.+...+..+
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~l   79 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVL   79 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHH
Confidence            5677788888888999999999999999988763 3367888889999999999999999999998876 5677888889


Q ss_pred             HHHHHcC-----------CCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHH
Q 046446          108 IDGLCKS-----------GRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGT  176 (244)
Q Consensus       108 l~~~~~~-----------~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~  176 (244)
                      ..++...           |++++|...+++..+.. +-+...+..+..++...|++++|...|++..+..  .+...+..
T Consensus        80 g~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~  156 (217)
T 2pl2_A           80 SEAYVALYRQAEDRERGKGYLEQALSVLKDAERVN-PRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSA  156 (217)
T ss_dssp             HHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHH
T ss_pred             HHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHH
Confidence            9999999           99999999999988764 3457888899999999999999999999988876  68888899


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchhhhhhhh
Q 046446          177 LIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFTVHE  233 (244)
Q Consensus       177 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  233 (244)
                      +..++...|++++|...|++..+.. +.+...+..+..++.+.|++++|+..|+...
T Consensus       157 la~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~~  212 (217)
T 2pl2_A          157 LAELYLSMGRLDEALAQYAKALEQA-PKDLDLRVRYASALLLKGKAEEAARAAALEH  212 (217)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTC---------------
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHHh
Confidence            9999999999999999999988764 2356778888899999999999999887654

>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=99.82  E-value=7.7e-18  Score=127.17  Aligned_cols=228  Identities=9%  Similarity=-0.063  Sum_probs=189.9

Q ss_pred             hhhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcH
Q 046446            3 INGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYI   82 (244)
Q Consensus         3 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~   82 (244)
                      ...+...|++++|..+|+++.+.. +.+...+..+...+...|++++|...++++.+.. +.+..++..+...+...|++
T Consensus        28 a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~  105 (327)
T 3cv0_A           28 GLSMLKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHNA  105 (327)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHHHHHHcCCH
Confidence            356788999999999999998863 4467788899999999999999999999998873 34778899999999999999


Q ss_pred             HHHHHHHHHHHHhCCCccHHhHHHH--------------HH-HHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHH
Q 046446           83 VESVELFRTLRILKCELDIQAYSCL--------------ID-GLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLY  147 (244)
Q Consensus        83 ~~a~~~~~~~~~~~~~~~~~~~~~l--------------l~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  147 (244)
                      ++|.+.++++.+.. +.+...+..+              .. .+...|++++|...++++.+.. +.+...+..+...+.
T Consensus       106 ~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~  183 (327)
T 3cv0_A          106 NAALASLRAWLLSQ-PQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMN-PNDAQLHASLGVLYN  183 (327)
T ss_dssp             HHHHHHHHHHHHTS-TTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHH
Confidence            99999999998764 3344444443              22 3778899999999999988764 446889999999999


Q ss_pred             ccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchh
Q 046446          148 NDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLP  227 (244)
Q Consensus       148 ~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  227 (244)
                      ..|++++|.+.++.+.+.. +.+..++..+...+...|++++|...++++.+.. +.+...+..+...|.+.|++++|..
T Consensus       184 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~  261 (327)
T 3cv0_A          184 LSNNYDSAAANLRRAVELR-PDDAQLWNKLGATLANGNRPQEALDAYNRALDIN-PGYVRVMYNMAVSYSNMSQYDLAAK  261 (327)
T ss_dssp             HTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhccHHHHHH
Confidence            9999999999999988764 3367889999999999999999999999988764 3367888999999999999999999


Q ss_pred             hhhhhhhhh
Q 046446          228 SFTVHERQE  236 (244)
Q Consensus       228 ~~~~~~~~~  236 (244)
                      .++...+..
T Consensus       262 ~~~~a~~~~  270 (327)
T 3cv0_A          262 QLVRAIYMQ  270 (327)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHhC
Confidence            998876543

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=99.81  E-value=5.2e-18  Score=128.07  Aligned_cols=228  Identities=12%  Similarity=-0.020  Sum_probs=188.1

Q ss_pred             hhhhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHH---------
Q 046446            2 LINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIF---------   72 (244)
Q Consensus         2 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l---------   72 (244)
                      +...+...|++++|...++++.+.. +.+...+..+...+...|++++|...++++.+.... +...+..+         
T Consensus        61 l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~  138 (327)
T 3cv0_A           61 LGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHNANAALASLRAWLLSQPQ-YEQLGSVNLQADVDIDD  138 (327)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTT-TTTC-------------
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCc-cHHHHHHHhHHHHHHHH
Confidence            3457888999999999999998873 456778999999999999999999999999886322 33334333         


Q ss_pred             -----HH-HHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHH
Q 046446           73 -----ID-GLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGL  146 (244)
Q Consensus        73 -----l~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  146 (244)
                           .. .+...|++++|.+.++++.+.. +.+..++..+...|...|++++|...++++.+.. +.+..++..+...+
T Consensus       139 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~  216 (327)
T 3cv0_A          139 LNVQSEDFFFAAPNEYRECRTLLHAALEMN-PNDAQLHASLGVLYNLSNNYDSAAANLRRAVELR-PDDAQLWNKLGATL  216 (327)
T ss_dssp             -------CCTTSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHhHHHHHcccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHH
Confidence                 22 3778899999999999999876 5678899999999999999999999999988764 44688899999999


Q ss_pred             HccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCC-----------ChhhHHHHHHH
Q 046446          147 YNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMP-----------DASIVSIVVDL  215 (244)
Q Consensus       147 ~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~-----------~~~~~~~l~~~  215 (244)
                      ...|++++|...++.+.+.. +.+..++..+..++...|++++|...++++.+.....           +...+..+..+
T Consensus       217 ~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~  295 (327)
T 3cv0_A          217 ANGNRPQEALDAYNRALDIN-PGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRML  295 (327)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHH
Confidence            99999999999999988764 3367889999999999999999999999988753221           46788899999


Q ss_pred             HHhccccccchhhhhhhhh
Q 046446          216 LAKNEISLNSLPSFTVHER  234 (244)
Q Consensus       216 ~~~~g~~~~a~~~~~~~~~  234 (244)
                      +.+.|+.++|..+++....
T Consensus       296 ~~~~g~~~~A~~~~~~~l~  314 (327)
T 3cv0_A          296 LNVMNRPDLVELTYAQNVE  314 (327)
T ss_dssp             HHHTTCHHHHHHHTTCCSH
T ss_pred             HHhcCCHHHHHHHHHHHHH
Confidence            9999999999988875543

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.81  E-value=1.7e-17  Score=123.70  Aligned_cols=220  Identities=10%  Similarity=0.070  Sum_probs=174.6

Q ss_pred             hhhhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCC-ChhHHHHHHHHHHhCC
Q 046446            2 LINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAA-DTRTYTIFIDGLCKNG   80 (244)
Q Consensus         2 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~~   80 (244)
                      +.++|...|+++.|+..++.   . -+|+..++..+...+...++.++|++.++++...+..| +...+..+...+...|
T Consensus        40 l~r~yi~~g~~~~al~~~~~---~-~~~~~~a~~~la~~~~~~~~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g  115 (291)
T 3mkr_A           40 LYRAYLAQRKYGVVLDEIKP---S-SAPELQAVRMFAEYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQ  115 (291)
T ss_dssp             HHHHHHHTTCHHHHHHHSCT---T-SCHHHHHHHHHHHHHHCSTTHHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHCCCHHHHHHHhcc---c-CChhHHHHHHHHHHHcCCCcHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCC
Confidence            45778889999998886644   2 35677788888888999999999999999998876555 4556667778899999


Q ss_pred             cHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHH---HHHHHHHHccCChHHHHH
Q 046446           81 YIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTY---SIMIHGLYNDGQMDKAHD  157 (244)
Q Consensus        81 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~---~~li~~~~~~~~~~~a~~  157 (244)
                      ++++|++.+++      +.+..++..+...+.+.|++++|.+.|+++.+..  |+....   ..++..+...|++++|..
T Consensus       116 ~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~l~~a~~~l~~~~~~~~eA~~  187 (291)
T 3mkr_A          116 NPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKELKKMQDQD--EDATLTQLATAWVSLAAGGEKLQDAYY  187 (291)
T ss_dssp             CHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCTTHHHHHHH
T ss_pred             CHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--cCcHHHHHHHHHHHHHhCchHHHHHHH
Confidence            99999999987      5678889999999999999999999999988763  443211   223444556689999999


Q ss_pred             HHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcccccc-chhhhhhhhhh
Q 046446          158 LFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLN-SLPSFTVHERQ  235 (244)
Q Consensus       158 ~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~-a~~~~~~~~~~  235 (244)
                      +|+++.+. .+.+...++.+..++.+.|++++|...+++..+.. +-+..++..++..+...|+.++ +.++++.+.+.
T Consensus       188 ~~~~~l~~-~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~-p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~  264 (291)
T 3mkr_A          188 IFQEMADK-CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD-SGHPETLINLVVLSQHLGKPPEVTNRYLSQLKDA  264 (291)
T ss_dssp             HHHHHHHH-SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHh-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh
Confidence            99999876 44578889999999999999999999999988764 2367788889999999999866 46777665543

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.81  E-value=1e-17  Score=128.76  Aligned_cols=228  Identities=15%  Similarity=0.027  Sum_probs=187.6

Q ss_pred             hhhhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHH----------
Q 046446            2 LINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTI----------   71 (244)
Q Consensus         2 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~----------   71 (244)
                      +...+.+.|++++|...|+++.+.. +.+..++..+...+...|++++|...++++.+.... +...+..          
T Consensus       104 l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~  181 (368)
T 1fch_A          104 LGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNESLQRQACEILRDWLRYTPA-YAHLVTPAEEGAGGAGL  181 (368)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTT-TGGGCC-----------
T ss_pred             HHHHHHHCcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHhhhhcc
Confidence            3567889999999999999998874 457788999999999999999999999999886432 2222221          


Q ss_pred             -----HHHHHHhCCcHHHHHHHHHHHHHhCCCc-cHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHH
Q 046446           72 -----FIDGLCKNGYIVESVELFRTLRILKCEL-DIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHG  145 (244)
Q Consensus        72 -----ll~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  145 (244)
                           .+..+...|++++|...++++.+..... +..++..+...|...|++++|...++++.... +.+..++..+...
T Consensus       182 ~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~  260 (368)
T 1fch_A          182 GPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGAT  260 (368)
T ss_dssp             ----CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             cHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHH
Confidence                 2333448899999999999998875221 58899999999999999999999999988763 4468899999999


Q ss_pred             HHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCC----------ChhhHHHHHHH
Q 046446          146 LYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMP----------DASIVSIVVDL  215 (244)
Q Consensus       146 ~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~----------~~~~~~~l~~~  215 (244)
                      +...|++++|...++.+.+.. +.+...+..+..++.+.|++++|...++++.+.....          ...++..+..+
T Consensus       261 ~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~  339 (368)
T 1fch_A          261 LANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLA  339 (368)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHH
Confidence            999999999999999988763 3467889999999999999999999999988642111          26789999999


Q ss_pred             HHhccccccchhhhhhhh
Q 046446          216 LAKNEISLNSLPSFTVHE  233 (244)
Q Consensus       216 ~~~~g~~~~a~~~~~~~~  233 (244)
                      |...|+.++|..++....
T Consensus       340 ~~~~g~~~~A~~~~~~~l  357 (368)
T 1fch_A          340 LSMLGQSDAYGAADARDL  357 (368)
T ss_dssp             HHHHTCGGGHHHHHTTCH
T ss_pred             HHHhCChHhHHHhHHHHH
Confidence            999999999988876443

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.80  E-value=2.3e-17  Score=120.41  Aligned_cols=220  Identities=13%  Similarity=0.114  Sum_probs=187.5

Q ss_pred             hhhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCC--CC----hhHHHHHHHHH
Q 046446            3 INGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVA--AD----TRTYTIFIDGL   76 (244)
Q Consensus         3 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~--~~----~~~~~~ll~~~   76 (244)
                      ...+...|++++|...|++..+..  .+...+..+...+...|++++|+..+++..+....  |+    ..++..+...+
T Consensus        12 g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~   89 (258)
T 3uq3_A           12 GNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFARIGNAY   89 (258)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHHHH
Confidence            457788999999999999999886  78889999999999999999999999998775221  12    57889999999


Q ss_pred             HhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHH
Q 046446           77 CKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAH  156 (244)
Q Consensus        77 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~  156 (244)
                      ...|++++|.+.+++..+..  |+.       ..+...|++++|...++.+.... +.+...+..+...+...|++++|.
T Consensus        90 ~~~~~~~~A~~~~~~a~~~~--~~~-------~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~  159 (258)
T 3uq3_A           90 HKLGDLKKTIEYYQKSLTEH--RTA-------DILTKLRNAEKELKKAEAEAYVN-PEKAEEARLEGKEYFTKSDWPNAV  159 (258)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC--CCH-------HHHHHHHHHHHHHHHHHHHHHCC-HHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHcccHHHHHHHHHHHHhcC--chh-------HHHHHHhHHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHhcCHHHHH
Confidence            99999999999999998864  443       35666788999999999988764 445778899999999999999999


Q ss_pred             HHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchhhhhhhhhhh
Q 046446          157 DLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFTVHERQE  236 (244)
Q Consensus       157 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  236 (244)
                      ..++...+... .+..++..+..++...|++++|...+++..+.. +.+...+..+..+|.+.|++++|...++...+..
T Consensus       160 ~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~  237 (258)
T 3uq3_A          160 KAYTEMIKRAP-EDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIAVKEYASALETLDAARTKD  237 (258)
T ss_dssp             HHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCc-ccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC
Confidence            99999987643 367889999999999999999999999998764 3357888999999999999999999998876654

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.80  E-value=4.1e-18  Score=130.97  Aligned_cols=226  Identities=10%  Similarity=-0.019  Sum_probs=180.7

Q ss_pred             hhhhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCC---------CChhHHHHH
Q 046446            2 LINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVA---------ADTRTYTIF   72 (244)
Q Consensus         2 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~---------~~~~~~~~l   72 (244)
                      +...+...|++++|+..|+++.+.. +.+...|..+...+...|++++|...|+++.+....         .....+..+
T Consensus       105 lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l  183 (365)
T 4eqf_A          105 LGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAVSYTNTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRM  183 (365)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCHHHHCC--------------
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHH
Confidence            4567889999999999999998864 446788999999999999999999999999875211         012233445


Q ss_pred             HHHHHhCCcHHHHHHHHHHHHHhCCCc--cHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccC
Q 046446           73 IDGLCKNGYIVESVELFRTLRILKCEL--DIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDG  150 (244)
Q Consensus        73 l~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~  150 (244)
                      ...+...|++++|.+.++++.+.. +.  +..++..+...|...|++++|...|++..+.. +.+..+|..+..+|...|
T Consensus       184 ~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g  261 (365)
T 4eqf_A          184 SKSPVDSSVLEGVKELYLEAAHQN-GDMIDPDLQTGLGVLFHLSGEFNRAIDAFNAALTVR-PEDYSLWNRLGATLANGD  261 (365)
T ss_dssp             -----CCHHHHHHHHHHHHHHHHS-CSSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHhhhhhHHHHHHHHHHHHHhC-cCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcC
Confidence            888999999999999999999875 33  68899999999999999999999999988764 456889999999999999


Q ss_pred             ChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCC-----------CChhhHHHHHHHHHhc
Q 046446          151 QMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVM-----------PDASIVSIVVDLLAKN  219 (244)
Q Consensus       151 ~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~-----------~~~~~~~~l~~~~~~~  219 (244)
                      ++++|...|+.+.+.. +.+..++..+..++...|++++|...++++.+....           .+...+..+..++...
T Consensus       262 ~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  340 (365)
T 4eqf_A          262 RSEEAVEAYTRALEIQ-PGFIRSRYNLGISCINLGAYREAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLM  340 (365)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHCC------------CHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHc
Confidence            9999999999998763 235788999999999999999999999998864211           1367888999999999


Q ss_pred             cccccchhhhhh
Q 046446          220 EISLNSLPSFTV  231 (244)
Q Consensus       220 g~~~~a~~~~~~  231 (244)
                      |+.+.+....+.
T Consensus       341 g~~~~a~~~~~~  352 (365)
T 4eqf_A          341 DQPELFQAANLG  352 (365)
T ss_dssp             TCHHHHHHHHTT
T ss_pred             CcHHHHHHHHHh
Confidence            998877766654

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.80  E-value=9.5e-17  Score=122.55  Aligned_cols=228  Identities=10%  Similarity=0.038  Sum_probs=188.9

Q ss_pred             hhhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcH
Q 046446            3 INGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYI   82 (244)
Q Consensus         3 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~   82 (244)
                      ...+...|++++|...|+++.+.. +.+...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++
T Consensus        10 ~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~   87 (359)
T 3ieg_A           10 GKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGHLLLKQGKL   87 (359)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHHHHHHcCCh
Confidence            456888999999999999998863 4567789999999999999999999999998873 33678899999999999999


Q ss_pred             HHHHHHHHHHHHhCCC---ccHHhHHHH------------HHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHH
Q 046446           83 VESVELFRTLRILKCE---LDIQAYSCL------------IDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLY  147 (244)
Q Consensus        83 ~~a~~~~~~~~~~~~~---~~~~~~~~l------------l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  147 (244)
                      ++|.+.+++..+.. +   .+...+..+            ...+...|++++|...++++.+.. +.+...+..+...+.
T Consensus        88 ~~A~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~  165 (359)
T 3ieg_A           88 DEAEDDFKKVLKSN-PSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVC-VWDAELRELRAECFI  165 (359)
T ss_dssp             HHHHHHHHHHHTSC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcC-CcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHH
Confidence            99999999998764 3   355555555            578899999999999999988764 456888999999999


Q ss_pred             ccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHH------------HHHHH
Q 046446          148 NDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVS------------IVVDL  215 (244)
Q Consensus       148 ~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~------------~l~~~  215 (244)
                      ..|++++|...++.+.+.. +.+..++..+...+...|++++|...+++..+... .+...+.            .+...
T Consensus       166 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~~~~~~~~~~~~~~a~~  243 (359)
T 3ieg_A          166 KEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQ-DHKRCFAHYKQVKKLNKLIESAEE  243 (359)
T ss_dssp             HTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCc-cchHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999998763 34778899999999999999999999999987532 2333332            23667


Q ss_pred             HHhccccccchhhhhhhhhhh
Q 046446          216 LAKNEISLNSLPSFTVHERQE  236 (244)
Q Consensus       216 ~~~~g~~~~a~~~~~~~~~~~  236 (244)
                      +.+.|++++|+..++......
T Consensus       244 ~~~~~~~~~A~~~~~~~~~~~  264 (359)
T 3ieg_A          244 LIRDGRYTDATSKYESVMKTE  264 (359)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHcCCHHHHHHHHHHHHhcC
Confidence            889999999999998876643

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.79  E-value=1.2e-16  Score=117.80  Aligned_cols=230  Identities=12%  Similarity=0.080  Sum_probs=187.4

Q ss_pred             hhhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCC--hhHHHHHHHHHHhCC
Q 046446            3 INGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAAD--TRTYTIFIDGLCKNG   80 (244)
Q Consensus         3 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~--~~~~~~ll~~~~~~~   80 (244)
                      ...+...|++++|+..|++..+.. +.+...+..+...+...|++++|+..+++..+.+..|+  ..+|..+...+...|
T Consensus        10 a~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~~~~~   88 (272)
T 3u4t_A           10 ADFLFKNNNYAEAIEVFNKLEAKK-YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKILMKKG   88 (272)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHHHTT-CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHHcc
Confidence            356788999999999999999873 34556888999999999999999999999988432222  234889999999999


Q ss_pred             cHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHH
Q 046446           81 YIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFL  160 (244)
Q Consensus        81 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~  160 (244)
                      ++++|.+.+++..+.. +.+..++..+...|...|++++|...|++..+.. +.+...|..+...+...+++++|.+.|+
T Consensus        89 ~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~  166 (272)
T 3u4t_A           89 QDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPT-TTDPKVFYELGQAYYYNKEYVKADSSFV  166 (272)
T ss_dssp             CHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSS-CCCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcC-CCcHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999876 5677899999999999999999999999998874 4467778887734444569999999999


Q ss_pred             HHHHcCCCCcHhHHHHHHHHHHhcCC---hhHHHHHHHHHHHCC-CCCC------hhhHHHHHHHHHhccccccchhhhh
Q 046446          161 DMEENAVAPNVITFGTLIHGFIRINE---PSKVIELLHKMKEKN-VMPD------ASIVSIVVDLLAKNEISLNSLPSFT  230 (244)
Q Consensus       161 ~~~~~~~~p~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~-~~~~------~~~~~~l~~~~~~~g~~~~a~~~~~  230 (244)
                      .+.+... .+...+..+..++...|+   +++|...+++..+.. -.|+      ...+..+...|.+.|++++|...|+
T Consensus       167 ~a~~~~p-~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~  245 (272)
T 3u4t_A          167 KVLELKP-NIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKADAAWK  245 (272)
T ss_dssp             HHHHHST-TCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHhCc-cchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            9987632 246777778888888888   888999998887542 1233      2577889999999999999999998


Q ss_pred             hhhhhh
Q 046446          231 VHERQE  236 (244)
Q Consensus       231 ~~~~~~  236 (244)
                      ...+..
T Consensus       246 ~al~~~  251 (272)
T 3u4t_A          246 NILALD  251 (272)
T ss_dssp             HHHHHC
T ss_pred             HHHhcC
Confidence            876543

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.79  E-value=5.6e-17  Score=115.85  Aligned_cols=191  Identities=10%  Similarity=0.003  Sum_probs=154.8

Q ss_pred             hhhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhC---
Q 046446            3 INGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKN---   79 (244)
Q Consensus         3 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~---   79 (244)
                      -..+.+.|++++|...|++..+.. +.+...+..+...+.+.|++++|+..+++..+.. +.+...+..+..++...   
T Consensus        12 g~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~   89 (217)
T 2pl2_A           12 GVQLYALGRYDAALTLFERALKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVLSEAYVALYRQ   89 (217)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhhhh
Confidence            356788999999999999999874 4567788999999999999999999999999874 33677899999999999   


Q ss_pred             --------CcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCC
Q 046446           80 --------GYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQ  151 (244)
Q Consensus        80 --------~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~  151 (244)
                              |++++|+..+++..+.. |.+...+..+..++...|++++|...|++..+..  .+...+..+..++...|+
T Consensus        90 ~~~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~la~~~~~~g~  166 (217)
T 2pl2_A           90 AEDRERGKGYLEQALSVLKDAERVN-PRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSALAELYLSMGR  166 (217)
T ss_dssp             CSSHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTC
T ss_pred             hhhhcccccCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHHHHHHHHHcCC
Confidence                    99999999999999876 5678889999999999999999999999988776  688899999999999999


Q ss_pred             hHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHH
Q 046446          152 MDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKE  199 (244)
Q Consensus       152 ~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  199 (244)
                      +++|...|+...+.. +.+...+..+...+...|++++|...+++...
T Consensus       167 ~~~A~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~  213 (217)
T 2pl2_A          167 LDEALAQYAKALEQA-PKDLDLRVRYASALLLKGKAEEAARAAALEHH  213 (217)
T ss_dssp             HHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTC----------------
T ss_pred             HHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHHhh
Confidence            999999999998764 23677888899999999999999999887643

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.78  E-value=3.7e-17  Score=121.89  Aligned_cols=219  Identities=8%  Similarity=0.013  Sum_probs=178.7

Q ss_pred             hhhhhhcCChhHHHHHHHHHHhCCCCCCh--hhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCC
Q 046446            3 INGYCKNKEIEGALNLYSEMLSKGIKPDV--VIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNG   80 (244)
Q Consensus         3 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~   80 (244)
                      ++.....|++..|+..++.....  .|+.  .....+.++|...|+++.|+..++.    .-+|+..++..+...+...+
T Consensus         6 ~~~~~~~g~y~~ai~~~~~~~~~--~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~----~~~~~~~a~~~la~~~~~~~   79 (291)
T 3mkr_A            6 VKNAFYIGSYQQCINEAQRVKPS--SPERDVERDVFLYRAYLAQRKYGVVLDEIKP----SSAPELQAVRMFAEYLASHS   79 (291)
T ss_dssp             HHHHHHTTCHHHHHHHHHHSCCC--SHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT----TSCHHHHHHHHHHHHHHCST
T ss_pred             HHHHHHHHHHHHHHHHHHhcccC--CchhhHHHHHHHHHHHHHCCCHHHHHHHhcc----cCChhHHHHHHHHHHHcCCC
Confidence            45667789999999998876554  4443  3556678999999999999987654    24567788899999999999


Q ss_pred             cHHHHHHHHHHHHHhCC-CccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHH
Q 046446           81 YIVESVELFRTLRILKC-ELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLF  159 (244)
Q Consensus        81 ~~~~a~~~~~~~~~~~~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~  159 (244)
                      +.++|++.++++...+. |-+...+..+...+...|++++|++.+++      +.+...+..++..+.+.|++++|.+.+
T Consensus        80 ~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l  153 (291)
T 3mkr_A           80 RRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKEL  153 (291)
T ss_dssp             THHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            99999999999988764 44666777888999999999999999998      357889999999999999999999999


Q ss_pred             HHHHHcCCCCcHhHH---HHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchhhhhhhhhhh
Q 046446          160 LDMEENAVAPNVITF---GTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFTVHERQE  236 (244)
Q Consensus       160 ~~~~~~~~~p~~~~~---~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  236 (244)
                      +.+.+..  |+....   ...+..+...|++++|..+|+++.+. .+.+...+..+..++.+.|++++|...|+......
T Consensus       154 ~~~~~~~--p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~-~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~  230 (291)
T 3mkr_A          154 KKMQDQD--EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK-CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD  230 (291)
T ss_dssp             HHHHHHC--TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH-SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHhhC--cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            9998864  553211   12234444569999999999999987 35688899999999999999999999999876654

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.78  E-value=3.8e-16  Score=119.19  Aligned_cols=190  Identities=11%  Similarity=0.127  Sum_probs=93.0

Q ss_pred             HHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHH
Q 046446           40 GLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEI  119 (244)
Q Consensus        40 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~  119 (244)
                      .+...|++++|...++++.+.. +.+..++..+...+...|++++|...+++..+.. +.+..++..+...+...|++++
T Consensus       129 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~  206 (359)
T 3ieg_A          129 DAFDGADYTAAITFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHEL  206 (359)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHH
Confidence            3344444444444444444331 1234444444444555555555555555544433 3344445555555555555555


Q ss_pred             HHHHHHhcccCCccccHHHHH------------HHHHHHHccCChHHHHHHHHHHHHcCCCCcH----hHHHHHHHHHHh
Q 046446          120 ALELFHSLPRGVLVADVVTYS------------IMIHGLYNDGQMDKAHDLFLDMEENAVAPNV----ITFGTLIHGFIR  183 (244)
Q Consensus       120 a~~~~~~~~~~~~~~~~~~~~------------~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~----~~~~~l~~~~~~  183 (244)
                      |...+++..+.. +.+...+.            .+...+.+.|++++|...++.+.+.... +.    ..+..+..++..
T Consensus       207 A~~~~~~a~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~la~~~~~  284 (359)
T 3ieg_A          207 SLSEVRECLKLD-QDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPS-VAEYTVRSKERICHCFSK  284 (359)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-SHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhC-ccchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-chHHHHHHHHHHHHHHHH
Confidence            555555444331 11122221            1133455555555555555555543211 11    123334556666


Q ss_pred             cCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchhhhhhhhh
Q 046446          184 INEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFTVHER  234 (244)
Q Consensus       184 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  234 (244)
                      .|++++|...+++..+.. +.+..++..+...|.+.|++++|...|+...+
T Consensus       285 ~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~  334 (359)
T 3ieg_A          285 DEKPVEAIRICSEVLQME-PDNVNALKDRAEAYLIEEMYDEAIQDYEAAQE  334 (359)
T ss_dssp             TTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             ccCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            666666666666666542 22455666666666666666666666665544

>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=99.78  E-value=3.5e-16  Score=113.98  Aligned_cols=201  Identities=9%  Similarity=-0.076  Sum_probs=159.9

Q ss_pred             hhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHH
Q 046446           31 VVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDG  110 (244)
Q Consensus        31 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~  110 (244)
                      ...+..+...+...|++++|...|+++.+.. +.+..++..+...+...|++++|.+.++++.+.. +.+...+..+...
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~  114 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGF  114 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHH
Confidence            4667778888888889999999988888763 3367788888888888999999999998888765 4567788888888


Q ss_pred             HHcCCCHHHHHHHHHhcccCCccc-cHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhH
Q 046446          111 LCKSGRLEIALELFHSLPRGVLVA-DVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSK  189 (244)
Q Consensus       111 ~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~  189 (244)
                      |...|++++|.+.++++...+..| +...+..+...+...|++++|...++...+.. +.+...+..+...+...|++++
T Consensus       115 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~  193 (252)
T 2ho1_A          115 LYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN-RNQPSVALEMADLLYKEREYVP  193 (252)
T ss_dssp             HHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCCHHH
Confidence            888999999999988887732233 56677888888888899999999988887754 2356778888888888899999


Q ss_pred             HHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchhhhhhhhhh
Q 046446          190 VIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFTVHERQ  235 (244)
Q Consensus       190 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  235 (244)
                      |...++++.+.. +.+...+..+...+.+.|+.++|.+.++.+.+.
T Consensus       194 A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~  238 (252)
T 2ho1_A          194 ARQYYDLFAQGG-GQNARSLLLGIRLAKVFEDRDTAASYGLQLKRL  238 (252)
T ss_dssp             HHHHHHHHHTTS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-cCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            999988887653 346677778888888889998888888877654

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.77  E-value=4.5e-16  Score=111.19  Aligned_cols=202  Identities=9%  Similarity=-0.043  Sum_probs=134.6

Q ss_pred             ChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHH
Q 046446           30 DVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLID  109 (244)
Q Consensus        30 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  109 (244)
                      +...+..+...+...|++++|...++++.+.. +.+..++..+...+...|++++|.+.+++..+.. +.+..++..+..
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~   84 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGW   84 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHH
Confidence            44556666777777777777777777776652 2346667777777777777777777777776654 345666777777


Q ss_pred             HHHcC-CCHHHHHHHHHhcccCCccc-cHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCCh
Q 046446          110 GLCKS-GRLEIALELFHSLPRGVLVA-DVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEP  187 (244)
Q Consensus       110 ~~~~~-~~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~  187 (244)
                      .+... |++++|...++++.+.+..| +...+..+...+...|++++|...++.+.+... .+...+..+...+...|++
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~  163 (225)
T 2vq2_A           85 FLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQP-QFPPAFKELARTKMLAGQL  163 (225)
T ss_dssp             HHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCchHHHHHHHHHHHcCCH
Confidence            77777 77777777777766622122 355667777777777777777777777665432 2456666777777777777


Q ss_pred             hHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchhhhhhhhh
Q 046446          188 SKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFTVHER  234 (244)
Q Consensus       188 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  234 (244)
                      ++|...++++.+.....+...+..+...+...|+.+.+..+++.+.+
T Consensus       164 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  210 (225)
T 2vq2_A          164 GDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQA  210 (225)
T ss_dssp             HHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence            77777777766643213555666666666777777777777766643

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.77  E-value=1.2e-16  Score=115.70  Aligned_cols=191  Identities=16%  Similarity=0.115  Sum_probs=96.7

Q ss_pred             hhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHH
Q 046446            5 GYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVE   84 (244)
Q Consensus         5 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~   84 (244)
                      .+...|++++|...|+++.+.. +.+...+..+...+...|++++|...++++.+.. +.+..++..+...+...|++++
T Consensus        32 ~~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~  109 (243)
T 2q7f_A           32 RGSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAGNVYVVKEMYKE  109 (243)
T ss_dssp             ----------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHHHHHHhccHHH
Confidence            3445555555555555555542 2344455555555555556666666555555542 2244555555555555556666


Q ss_pred             HHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHH
Q 046446           85 SVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEE  164 (244)
Q Consensus        85 a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  164 (244)
                      |.+.++++.+.. +.+...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|...++.+.+
T Consensus       110 A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  187 (243)
T 2q7f_A          110 AKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN-ENDTEARFQFGMCLANEGMLDEALSQFAAVTE  187 (243)
T ss_dssp             HHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            666555555543 3345555555555555566666655555554432 22445555555555555556656555555554


Q ss_pred             cCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 046446          165 NAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEK  200 (244)
Q Consensus       165 ~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  200 (244)
                      .. +.+..++..+..++...|++++|...++++.+.
T Consensus       188 ~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  222 (243)
T 2q7f_A          188 QD-PGHADAFYNAGVTYAYKENREKALEMLDKAIDI  222 (243)
T ss_dssp             HC-TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHH
T ss_pred             hC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHcc
Confidence            32 123445555555555555555555555555543

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.77  E-value=2.4e-16  Score=126.17  Aligned_cols=225  Identities=11%  Similarity=-0.019  Sum_probs=169.8

Q ss_pred             hhhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcH
Q 046446            3 INGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYI   82 (244)
Q Consensus         3 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~   82 (244)
                      -..+.+.|++++|+..|+++.+..  |+...|..+..++...|++++|+..++++.+.+ +.+..++..+..++...|++
T Consensus        13 g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~   89 (514)
T 2gw1_A           13 GNQFFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELK-PDYSKVLLRRASANEGLGKF   89 (514)
T ss_dssp             HHHHHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC-hHHHHHHHHHHHHHHHHhhH
Confidence            356788999999999999999874  788899999999999999999999999998874 33667889999999999999


Q ss_pred             HHHHHHHHHHHHhCCCcc--------------------------------------------------------------
Q 046446           83 VESVELFRTLRILKCELD--------------------------------------------------------------  100 (244)
Q Consensus        83 ~~a~~~~~~~~~~~~~~~--------------------------------------------------------------  100 (244)
                      ++|...|+++.+.+. ++                                                              
T Consensus        90 ~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  168 (514)
T 2gw1_A           90 ADAMFDLSVLSLNGD-FNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTSMASFF  168 (514)
T ss_dssp             HHHHHHHHHHHHSSS-CCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCC-CccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHHHHHHH
Confidence            999999998876542 11                                                              


Q ss_pred             -----------------HHhHHHHHHHHHc---CCCHHHHHHHHHhccc-----CCc--------cccHHHHHHHHHHHH
Q 046446          101 -----------------IQAYSCLIDGLCK---SGRLEIALELFHSLPR-----GVL--------VADVVTYSIMIHGLY  147 (244)
Q Consensus       101 -----------------~~~~~~ll~~~~~---~~~~~~a~~~~~~~~~-----~~~--------~~~~~~~~~li~~~~  147 (244)
                                       ...+......+..   .|++++|...|+++.+     ...        +.+..++..+...+.
T Consensus       169 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  248 (514)
T 2gw1_A          169 GIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKF  248 (514)
T ss_dssp             TTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             hhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHHHHH
Confidence                             2223333333333   7888888888888766     210        234567777888888


Q ss_pred             ccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchh
Q 046446          148 NDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLP  227 (244)
Q Consensus       148 ~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  227 (244)
                      ..|++++|...++.+.+..  |+...+..+..++...|++++|...++++.... +.+...+..+...|...|++++|+.
T Consensus       249 ~~~~~~~A~~~~~~~l~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~  325 (514)
T 2gw1_A          249 LKNDPLGAHEDIKKAIELF--PRVNSYIYMALIMADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQMNFILQNYDQAGK  325 (514)
T ss_dssp             HSSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHHHHHHTTCTTHHHH
T ss_pred             HCCCHHHHHHHHHHHHhhC--ccHHHHHHHHHHHHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHHHHHHhCCHHHHHH
Confidence            8888888888888877654  336677777777888888888888888777653 2355677777778888888888887


Q ss_pred             hhhhhhh
Q 046446          228 SFTVHER  234 (244)
Q Consensus       228 ~~~~~~~  234 (244)
                      .++....
T Consensus       326 ~~~~~~~  332 (514)
T 2gw1_A          326 DFDKAKE  332 (514)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            7776654

>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=99.77  E-value=4.3e-16  Score=113.52  Aligned_cols=201  Identities=12%  Similarity=-0.011  Sum_probs=171.2

Q ss_pred             hhhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcH
Q 046446            3 INGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYI   82 (244)
Q Consensus         3 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~   82 (244)
                      ...+...|++++|...|+++.+.. +.+...+..+...+...|++++|...++++.+.. +.+..++..+...+...|++
T Consensus        44 a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~  121 (252)
T 2ho1_A           44 GLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGFLYEQKRY  121 (252)
T ss_dssp             HHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHHhHH
Confidence            456788999999999999998863 4467788999999999999999999999998874 33778899999999999999


Q ss_pred             HHHHHHHHHHHHhCC-CccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHH
Q 046446           83 VESVELFRTLRILKC-ELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLD  161 (244)
Q Consensus        83 ~~a~~~~~~~~~~~~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  161 (244)
                      ++|.+.++++.+.+. +.+...+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|...++.
T Consensus       122 ~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~  200 (252)
T 2ho1_A          122 EEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN-RNQPSVALEMADLLYKEREYVPARQYYDL  200 (252)
T ss_dssp             HHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            999999999987322 3467788899999999999999999999988764 34688899999999999999999999999


Q ss_pred             HHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhH
Q 046446          162 MEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIV  209 (244)
Q Consensus       162 ~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  209 (244)
                      +.+.. +.+...+..+...+...|++++|.+.++++.+..  |+...+
T Consensus       201 ~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~--p~~~~~  245 (252)
T 2ho1_A          201 FAQGG-GQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLY--PGSLEY  245 (252)
T ss_dssp             HHTTS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTSHHH
T ss_pred             HHHhC-cCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC--CCCHHH
Confidence            88753 3467778888899999999999999999998764  444433

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.77  E-value=6.3e-16  Score=110.40  Aligned_cols=204  Identities=10%  Similarity=-0.013  Sum_probs=170.8

Q ss_pred             hhhhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhC-C
Q 046446            2 LINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKN-G   80 (244)
Q Consensus         2 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~-~   80 (244)
                      +...+...|++++|...|+++.+.. +.+...+..+...+...|++++|...++++.+.. +.+..++..+...+... |
T Consensus        14 ~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~   91 (225)
T 2vq2_A           14 LAMEYMRGQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGWFLCGRLN   91 (225)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTC
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcC
Confidence            3467889999999999999998863 4467788999999999999999999999998873 34678899999999999 9


Q ss_pred             cHHHHHHHHHHHHHhCC-CccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHH
Q 046446           81 YIVESVELFRTLRILKC-ELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLF  159 (244)
Q Consensus        81 ~~~~a~~~~~~~~~~~~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~  159 (244)
                      ++++|...++++.+.+. +.+...+..+..++...|++++|...++++.+.. +.+...+..+...+...|++++|...+
T Consensus        92 ~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~  170 (225)
T 2vq2_A           92 RPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQ-PQFPPAFKELARTKMLAGQLGDADYYF  170 (225)
T ss_dssp             CHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCchHHHHHHHHHHHcCCHHHHHHHH
Confidence            99999999999988322 2346788999999999999999999999988764 345888999999999999999999999


Q ss_pred             HHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHH
Q 046446          160 LDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVS  210 (244)
Q Consensus       160 ~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  210 (244)
                      +.+.+.....+...+..+...+...|+.+.+..+++.+.+..  |+.....
T Consensus       171 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~--p~~~~~~  219 (225)
T 2vq2_A          171 KKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQANF--PYSEELQ  219 (225)
T ss_dssp             HHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHH
T ss_pred             HHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC--CCCHHHH
Confidence            998876432467778888888899999999999999987643  5544443

>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=99.77  E-value=3.9e-15  Score=109.86  Aligned_cols=216  Identities=8%  Similarity=-0.026  Sum_probs=188.9

Q ss_pred             hhhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhh----hchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHh
Q 046446            3 INGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFE----IHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCK   78 (244)
Q Consensus         3 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~   78 (244)
                      -..+...|++++|...|++..+.   .+...+..+...+..    .+++++|...|++..+.+   +...+..+...|..
T Consensus        13 g~~~~~~~~~~~A~~~~~~a~~~---~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~   86 (273)
T 1ouv_A           13 GAKSYKEKDFTQAKKYFEKACDL---KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHLLGNLYYS   86 (273)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHH
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHhC
Confidence            34677889999999999999984   356678888888998    999999999999999875   77889999999999


Q ss_pred             ----CCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHc----CCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHc--
Q 046446           79 ----NGYIVESVELFRTLRILKCELDIQAYSCLIDGLCK----SGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYN--  148 (244)
Q Consensus        79 ----~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~--  148 (244)
                          .+++++|++.|++..+.+   +..++..+...|..    .+++++|...|++..+.+   +...+..+...|..  
T Consensus        87 g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~  160 (273)
T 1ouv_A           87 GQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTILGSLYDAGR  160 (273)
T ss_dssp             TSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTS
T ss_pred             CCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHHHHHHHcCC
Confidence                999999999999998875   67888899999999    999999999999998875   56778888888888  


Q ss_pred             --cCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHh----cCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHh----
Q 046446          149 --DGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIR----INEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAK----  218 (244)
Q Consensus       149 --~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----  218 (244)
                        .+++++|...|+...+.+   +...+..+...+..    .+++++|...+++..+.+   +...+..+...|.+    
T Consensus       161 ~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l~~~~~~g~~~  234 (273)
T 1ouv_A          161 GTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGAMQYNGEGV  234 (273)
T ss_dssp             SSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHTTSSS
T ss_pred             CCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC---CHHHHHHHHHHHHcCCCc
Confidence              999999999999988764   56778888889999    999999999999999875   36677888899998    


Q ss_pred             ccccccchhhhhhhhhhh
Q 046446          219 NEISLNSLPSFTVHERQE  236 (244)
Q Consensus       219 ~g~~~~a~~~~~~~~~~~  236 (244)
                      .++.++|+..|+...+.+
T Consensus       235 ~~~~~~A~~~~~~a~~~~  252 (273)
T 1ouv_A          235 TRNEKQAIENFKKGCKLG  252 (273)
T ss_dssp             SCCSTTHHHHHHHHHHHT
T ss_pred             ccCHHHHHHHHHHHHHcC
Confidence            999999999998876654

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.76  E-value=5.4e-17  Score=129.92  Aligned_cols=228  Identities=11%  Similarity=0.003  Sum_probs=195.3

Q ss_pred             hhhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcH
Q 046446            3 INGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYI   82 (244)
Q Consensus         3 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~   82 (244)
                      ...+...|++++|...|+++.+..  |+...+..+...+...|++++|...++++.+.. +.+..++..+...+...|++
T Consensus       244 ~~~~~~~~~~~~A~~~~~~~l~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~  320 (514)
T 2gw1_A          244 GIFKFLKNDPLGAHEDIKKAIELF--PRVNSYIYMALIMADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQMNFILQNY  320 (514)
T ss_dssp             HHHHHHSSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHHHHHHTTCT
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhC--ccHHHHHHHHHHHHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHHHHHHhCCH
Confidence            456788999999999999998874  447788999999999999999999999998863 34678899999999999999


Q ss_pred             HHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHH
Q 046446           83 VESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDM  162 (244)
Q Consensus        83 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  162 (244)
                      ++|...+++..+.. +.+..++..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|...++.+
T Consensus       321 ~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a  398 (514)
T 2gw1_A          321 DQAGKDFDKAKELD-PENIFPYIQLACLAYRENKFDDCETLFSEAKRKF-PEAPEVPNFFAEILTDKNDFDKALKQYDLA  398 (514)
T ss_dssp             THHHHHHHHHHHTC-SSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            99999999998875 4577889999999999999999999999987653 346788999999999999999999999998


Q ss_pred             HHcCCC-Cc----HhHHHHHHHHHHh---cCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchhhhhhhhh
Q 046446          163 EENAVA-PN----VITFGTLIHGFIR---INEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFTVHER  234 (244)
Q Consensus       163 ~~~~~~-p~----~~~~~~l~~~~~~---~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  234 (244)
                      .+.... ++    ...+..+...+..   .|++++|...++++.+.. +.+..++..+...|.+.|++++|...|+...+
T Consensus       399 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  477 (514)
T 2gw1_A          399 IELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLD-PRSEQAKIGLAQMKLQQEDIDEAITLFEESAD  477 (514)
T ss_dssp             HHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            764211 12    3378899999999   999999999999998764 33677888999999999999999999987766


Q ss_pred             hh
Q 046446          235 QE  236 (244)
Q Consensus       235 ~~  236 (244)
                      ..
T Consensus       478 ~~  479 (514)
T 2gw1_A          478 LA  479 (514)
T ss_dssp             HC
T ss_pred             hc
Confidence            43

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.75  E-value=2.5e-16  Score=113.99  Aligned_cols=203  Identities=11%  Similarity=-0.005  Sum_probs=159.3

Q ss_pred             CChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHH
Q 046446           29 PDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLI  108 (244)
Q Consensus        29 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll  108 (244)
                      .+...|..+...+...|++++|...|+++.+.. +.+..++..+...+...|++++|.+.+++..+.. +.+..++..+.
T Consensus        21 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la   98 (243)
T 2q7f_A           21 MASMTGGQQMGRGSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAG   98 (243)
T ss_dssp             ---------------------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHH
Confidence            456677788888999999999999999998863 3468889999999999999999999999998875 56788899999


Q ss_pred             HHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChh
Q 046446          109 DGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPS  188 (244)
Q Consensus       109 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~  188 (244)
                      ..+...|++++|...++++.+.. +.+...+..+...+...|++++|...++.+.+.. +.+...+..+...+...|+++
T Consensus        99 ~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~  176 (243)
T 2q7f_A           99 NVYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN-ENDTEARFQFGMCLANEGMLD  176 (243)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCH
T ss_pred             HHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHcCCHH
Confidence            99999999999999999988764 4467889999999999999999999999988763 336778889999999999999


Q ss_pred             HHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchhhhhhhhhhh
Q 046446          189 KVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFTVHERQE  236 (244)
Q Consensus       189 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  236 (244)
                      +|...++++.+.. +.+..++..+..+|.+.|++++|...++...+..
T Consensus       177 ~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  223 (243)
T 2q7f_A          177 EALSQFAAVTEQD-PGHADAFYNAGVTYAYKENREKALEMLDKAIDIQ  223 (243)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHccC
Confidence            9999999998764 3467788999999999999999999999876643

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.74  E-value=2.1e-16  Score=116.48  Aligned_cols=224  Identities=10%  Similarity=-0.045  Sum_probs=172.0

Q ss_pred             hhhcCChhHHHHHHHHHHhCCC---CCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcH
Q 046446            6 YCKNKEIEGALNLYSEMLSKGI---KPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYI   82 (244)
Q Consensus         6 ~~~~~~~~~a~~~~~~~~~~~~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~   82 (244)
                      ....|++++|+..|+++.+...   +.+...+..+...+...|++++|...|+++.+.. +.+..++..+...+...|++
T Consensus        15 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~   93 (275)
T 1xnf_A           15 LQPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNF   93 (275)
T ss_dssp             CCCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCH
T ss_pred             cCccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCH
Confidence            4567899999999999988632   1246678888999999999999999999998873 33688899999999999999


Q ss_pred             HHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHH
Q 046446           83 VESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDM  162 (244)
Q Consensus        83 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  162 (244)
                      ++|.+.+++..+.. +.+..++..+..+|...|++++|...|+++.+.  .|+.......+..+...|++++|...++..
T Consensus        94 ~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  170 (275)
T 1xnf_A           94 DAAYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQH  170 (275)
T ss_dssp             HHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            99999999999875 457888999999999999999999999998875  345444555555667779999999999877


Q ss_pred             HHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCC---ChhhHHHHHHHHHhccccccchhhhhhhhhh
Q 046446          163 EENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMP---DASIVSIVVDLLAKNEISLNSLPSFTVHERQ  235 (244)
Q Consensus       163 ~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  235 (244)
                      .... +++...+ .++..+...++.++|...+.+........   +...+..+...|.+.|++++|...|+.....
T Consensus       171 ~~~~-~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  244 (275)
T 1xnf_A          171 FEKS-DKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVAN  244 (275)
T ss_dssp             HHHS-CCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HhcC-CcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhC
Confidence            6642 2333333 35566667777777888777766542111   1466777788888888888888888766553

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=99.74  E-value=5.6e-16  Score=124.80  Aligned_cols=227  Identities=15%  Similarity=0.023  Sum_probs=191.8

Q ss_pred             hhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHH
Q 046446            4 NGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIV   83 (244)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   83 (244)
                      ..+...|++++|...|+...+.  .|+...+..+...+...|++++|...++++.+.. +.+..++..+...+...|+++
T Consensus       251 ~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~  327 (537)
T 3fp2_A          251 IFHFLKNNLLDAQVLLQESINL--HPTPNSYIFLALTLADKENSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYK  327 (537)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHhcccHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHhcCHHHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHH
Confidence            4677889999999999999987  5668889999999999999999999999998874 346888999999999999999


Q ss_pred             HHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHH
Q 046446           84 ESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDME  163 (244)
Q Consensus        84 ~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~  163 (244)
                      +|.+.+++..+.. +.+..++..+..++...|++++|...++++.+.. +.+...+..+...+...|++++|...++.+.
T Consensus       328 ~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~  405 (537)
T 3fp2_A          328 NAKEDFQKAQSLN-PENVYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIAK  405 (537)
T ss_dssp             HHHHHHHHHHHHC-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            9999999999876 4567889999999999999999999999988764 4467789999999999999999999999987


Q ss_pred             HcCC-----CCcHhHHHHHHHHHHhc----------CChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchhh
Q 046446          164 ENAV-----APNVITFGTLIHGFIRI----------NEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPS  228 (244)
Q Consensus       164 ~~~~-----~p~~~~~~~l~~~~~~~----------g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~  228 (244)
                      +...     ......+......+...          |++++|...+++..+.. +.+...+..+..+|.+.|++++|...
T Consensus       406 ~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~  484 (537)
T 3fp2_A          406 RLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELD-PRSEQAKIGLAQLKLQMEKIDEAIEL  484 (537)
T ss_dssp             HHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHH
Confidence            5421     11122244445667777          99999999999998864 33678889999999999999999999


Q ss_pred             hhhhhhhh
Q 046446          229 FTVHERQE  236 (244)
Q Consensus       229 ~~~~~~~~  236 (244)
                      |+...+..
T Consensus       485 ~~~al~~~  492 (537)
T 3fp2_A          485 FEDSAILA  492 (537)
T ss_dssp             HHHHHHHC
T ss_pred             HHHHHHhC
Confidence            98876643

>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=99.74  E-value=6.7e-16  Score=119.04  Aligned_cols=222  Identities=10%  Similarity=0.056  Sum_probs=187.1

Q ss_pred             hhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhch-HHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcH
Q 046446            4 NGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQ-VERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYI   82 (244)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~-~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~   82 (244)
                      ..+...|++++|+..+++.+... +-+...|+.+..++...|+ +++|+..|++..+.... +...|..+..++...|++
T Consensus       105 ~~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~-~~~a~~~~g~~~~~~g~~  182 (382)
T 2h6f_A          105 AVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPK-NYQVWHHRRVLVEWLRDP  182 (382)
T ss_dssp             HHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCC
T ss_pred             HHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHccCH
Confidence            45677899999999999999873 3457789999999999997 99999999999997433 788999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHc-cCChHHH-----H
Q 046446           83 VESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYN-DGQMDKA-----H  156 (244)
Q Consensus        83 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~-~~~~~~a-----~  156 (244)
                      ++|+..|+++.+.. +-+..+|..+..++...|++++|+..++++.+.. +-+...|+.+..++.. .|..++|     +
T Consensus       183 ~eAl~~~~kal~ld-P~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~-P~~~~a~~~lg~~l~~l~~~~~eA~~~~el  260 (382)
T 2h6f_A          183 SQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYNDRAVLEREV  260 (382)
T ss_dssp             TTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSCSHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCcchHHHHHHHH
Confidence            99999999999987 5788999999999999999999999999998875 4478899999999999 6665777     4


Q ss_pred             HHHHHHHHcCCCCcHhHHHHHHHHHHhcC--ChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcc---------ccccc
Q 046446          157 DLFLDMEENAVAPNVITFGTLIHGFIRIN--EPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNE---------ISLNS  225 (244)
Q Consensus       157 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~g--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---------~~~~a  225 (244)
                      ..++...+... -+...|..+...+...|  ++++|.+.+.++ +. -..+...+..+...|.+.|         ..++|
T Consensus       261 ~~~~~Al~l~P-~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~-~p~~~~al~~La~~~~~~~~~~~~~~~~~~~~A  337 (382)
T 2h6f_A          261 QYTLEMIKLVP-HNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QP-SHSSPYLIAFLVDIYEDMLENQCDNKEDILNKA  337 (382)
T ss_dssp             HHHHHHHHHST-TCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TT-TCCCHHHHHHHHHHHHHHHHTTCSSHHHHHHHH
T ss_pred             HHHHHHHHHCC-CCHHHHHHHHHHHHccCccchHHHHHHHHHh-cc-CCCCHHHHHHHHHHHHHHhcccccchHHHHHHH
Confidence            88888877542 26778888888888888  689999999887 33 2346678889999998875         25889


Q ss_pred             hhhhhhh
Q 046446          226 LPSFTVH  232 (244)
Q Consensus       226 ~~~~~~~  232 (244)
                      +.+|+.+
T Consensus       338 ~~~~~~l  344 (382)
T 2h6f_A          338 LELCEIL  344 (382)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9999887

>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=99.72  E-value=1.2e-17  Score=128.46  Aligned_cols=198  Identities=12%  Similarity=0.056  Sum_probs=74.5

Q ss_pred             hhhhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCc
Q 046446            2 LINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGY   81 (244)
Q Consensus         2 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~   81 (244)
                      |..++.+.|++++|++.|.+      .+|...|..++..+...|++++|+.+++..++.  .+++.+.+.++.+|.+.|+
T Consensus        38 La~A~l~~g~~~eAIdsfik------a~D~~~y~~V~~~ae~~g~~EeAi~yl~~ark~--~~~~~i~~~Li~~Y~Klg~  109 (449)
T 1b89_A           38 LAKAQLQKGMVKEAIDSYIK------ADDPSSYMEVVQAANTSGNWEELVKYLQMARKK--ARESYVETELIFALAKTNR  109 (449)
T ss_dssp             -------------------------------------------------------------------------------C
T ss_pred             HHHHHHHcCCHHHHHHHHHc------CCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CccchhHHHHHHHHHHhCC
Confidence            34556666666666666643      235556666666666666666666655554442  3345566666666666666


Q ss_pred             HHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHH
Q 046446           82 IVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLD  161 (244)
Q Consensus        82 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  161 (244)
                      ++++.++++       .|+..+|..+...|...|.+++|..+|..+         ..|..++.++.+.|++++|.+.+..
T Consensus       110 l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~~~LA~~L~~Lg~yq~AVea~~K  173 (449)
T 1b89_A          110 LAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARK  173 (449)
T ss_dssp             HHHHTTTTT-------CC----------------CTTTHHHHHHHT---------TCHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             HHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhHHHHHHHHHHhccHHHHHHHHHH
Confidence            666666553       255567777777777777777777777655         2567777777777777777777776


Q ss_pred             HHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchhhhhhhhh
Q 046446          162 MEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFTVHER  234 (244)
Q Consensus       162 ~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  234 (244)
                      +      .++.+|..++.+|...|+++.|......     +...+.-...++..|.+.|++++++.+++....
T Consensus       174 A------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~-----L~~~ad~l~~lv~~Yek~G~~eEai~lLe~aL~  235 (449)
T 1b89_A          174 A------NSTRTWKEVCFACVDGKEFRLAQMCGLH-----IVVHADELEELINYYQDRGYFEELITMLEAALG  235 (449)
T ss_dssp             H------TCHHHHHHHHHHHHHTTCHHHHHHTTTT-----TTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTT
T ss_pred             c------CCchhHHHHHHHHHHcCcHHHHHHHHHH-----HHhCHhhHHHHHHHHHHCCCHHHHHHHHHHHhC
Confidence            6      2677778888888888888777544332     223333455677788888888888877776543

>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=99.72  E-value=3.6e-15  Score=120.09  Aligned_cols=162  Identities=10%  Similarity=0.015  Sum_probs=96.0

Q ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHc
Q 046446           69 YTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYN  148 (244)
Q Consensus        69 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  148 (244)
                      +..+...+...|++++|.+.+++..+..  |+..++..+...+...|++++|...+++..+.. +.+..++..+...+..
T Consensus       246 ~~~~g~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~  322 (537)
T 3fp2_A          246 LCYTGIFHFLKNNLLDAQVLLQESINLH--PTPNSYIFLALTLADKENSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYFI  322 (537)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHhcCHHHHHHHHHHHhccC-CCCHHHHHHHHHHHHh
Confidence            3333444455555555555555555543  335555556666666666666666666655442 2345566666666666


Q ss_pred             cCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchhh
Q 046446          149 DGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPS  228 (244)
Q Consensus       149 ~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~  228 (244)
                      .|++++|...++...+... .+...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|+..
T Consensus       323 ~~~~~~A~~~~~~a~~~~~-~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~  400 (537)
T 3fp2_A          323 LQDYKNAKEDFQKAQSLNP-ENVYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQ  400 (537)
T ss_dssp             TTCHHHHHHHHHHHHHHCT-TCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHH
Confidence            6666666666666665432 234556666666666777777777776666543 22445666666677777777777777


Q ss_pred             hhhhhhh
Q 046446          229 FTVHERQ  235 (244)
Q Consensus       229 ~~~~~~~  235 (244)
                      |+...+.
T Consensus       401 ~~~a~~~  407 (537)
T 3fp2_A          401 YDIAKRL  407 (537)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHc
Confidence            6665543

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.70  E-value=1.6e-15  Score=111.72  Aligned_cols=218  Identities=10%  Similarity=-0.108  Sum_probs=170.2

Q ss_pred             hhhhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCc
Q 046446            2 LINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGY   81 (244)
Q Consensus         2 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~   81 (244)
                      +...+...|++++|...|+++.+.. +.+...|..+...+...|++++|...|++..+.. +.+..++..+...+.+.|+
T Consensus        49 l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~g~  126 (275)
T 1xnf_A           49 RGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAHLNRGIALYYGGR  126 (275)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC-ccccHHHHHHHHHHHHhcc
Confidence            3467888999999999999998874 4467889999999999999999999999999873 3367889999999999999


Q ss_pred             HHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHH
Q 046446           82 IVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLD  161 (244)
Q Consensus        82 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  161 (244)
                      +++|.+.++++.+..  |+.......+..+...|++++|...+++..... +++...+ .++..+...++.++|...+..
T Consensus       127 ~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~-~~~~~~~~~~~~~~a~~~~~~  202 (275)
T 1xnf_A          127 DKLAQDDLLAFYQDD--PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKS-DKEQWGW-NIVEFYLGNISEQTLMERLKA  202 (275)
T ss_dssp             HHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHS-CCCSTHH-HHHHHHTTSSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC--CCChHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CcchHHH-HHHHHHHHhcCHHHHHHHHHH
Confidence            999999999998864  444444455556677799999999998776553 3344444 477778888899999999988


Q ss_pred             HHHcCCCC---cHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchhhh
Q 046446          162 MEENAVAP---NVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSF  229 (244)
Q Consensus       162 ~~~~~~~p---~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  229 (244)
                      ..+.....   +..++..+...+...|++++|...+++.....  |+.  +.....++...|++++|++.+
T Consensus       203 ~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--p~~--~~~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          203 DATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN--VHN--FVEHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             HCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--CTT--CHHHHHHHHHHHHHHHC----
T ss_pred             HhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC--chh--HHHHHHHHHHHHHHHhhHHHH
Confidence            76532111   25778889999999999999999999998764  432  223356778889999998876

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.69  E-value=4e-15  Score=118.36  Aligned_cols=218  Identities=11%  Similarity=-0.065  Sum_probs=184.4

Q ss_pred             ChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchH-HHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHH
Q 046446           11 EIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQV-ERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELF   89 (244)
Q Consensus        11 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~-~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~   89 (244)
                      .+++++..++...... +.+...+..+...+...|++ ++|+..|++..+.. +-+..+|..+..+|...|++++|.+.|
T Consensus        83 ~~~~al~~l~~~~~~~-~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~  160 (474)
T 4abn_A           83 EMEKTLQQMEEVLGSA-QVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTCF  160 (474)
T ss_dssp             HHHHHHHHHHHHHTTC-CCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccC-chhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            3566777777666552 34677889999999999999 99999999998873 336789999999999999999999999


Q ss_pred             HHHHHhCCCccHHhHHHHHHHHHcC---------CCHHHHHHHHHhcccCCccccHHHHHHHHHHHHcc--------CCh
Q 046446           90 RTLRILKCELDIQAYSCLIDGLCKS---------GRLEIALELFHSLPRGVLVADVVTYSIMIHGLYND--------GQM  152 (244)
Q Consensus        90 ~~~~~~~~~~~~~~~~~ll~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~--------~~~  152 (244)
                      ++..+..  |+..++..+...|...         |++++|...|++..+.. +.+...|..+..+|...        |++
T Consensus       161 ~~al~~~--p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~~~~g~~  237 (474)
T 4abn_A          161 SGALTHC--KNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD-VLDGRSWYILGNAYLSLYFNTGQNPKIS  237 (474)
T ss_dssp             HHHHTTC--CCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHTTCCHHHH
T ss_pred             HHHHhhC--CCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhhccccchH
Confidence            9999864  6678999999999999         99999999999988764 44688999999999988        999


Q ss_pred             HHHHHHHHHHHHcCCC--CcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchhhhh
Q 046446          153 DKAHDLFLDMEENAVA--PNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFT  230 (244)
Q Consensus       153 ~~a~~~~~~~~~~~~~--p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  230 (244)
                      ++|...|+...+....  .+...|..+..++...|++++|...|++..+.. +-+...+..+..++...|++++|++.+.
T Consensus       238 ~~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~a~~~l~~~~~~lg~~~eAi~~~~  316 (474)
T 4abn_A          238 QQALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALD-PAWPEPQQREQQLLEFLSRLTSLLESKG  316 (474)
T ss_dssp             HHHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            9999999999875320  378889999999999999999999999998764 2256678889999999999999998777


Q ss_pred             hhhh
Q 046446          231 VHER  234 (244)
Q Consensus       231 ~~~~  234 (244)
                      .+..
T Consensus       317 ~~~~  320 (474)
T 4abn_A          317 KTKP  320 (474)
T ss_dssp             TCCH
T ss_pred             cccC
Confidence            6544

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.69  E-value=3.6e-14  Score=98.40  Aligned_cols=167  Identities=11%  Similarity=0.051  Sum_probs=140.9

Q ss_pred             ChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHH
Q 046446           30 DVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLID  109 (244)
Q Consensus        30 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  109 (244)
                      ++.+|..+...+...|++++|+..|++..+... -+..++..+..++.+.|++++|...+....... +.+...+..+..
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~   81 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKADP-NNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILGS   81 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHHH
Confidence            667888899999999999999999999888743 367788889999999999999999999988775 456777888888


Q ss_pred             HHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhH
Q 046446          110 GLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSK  189 (244)
Q Consensus       110 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~  189 (244)
                      .+...++++.|...+.+..... +.+...+..+...+...|++++|.+.|+...+... .+..+|..+..++.+.|++++
T Consensus        82 ~~~~~~~~~~a~~~~~~a~~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p-~~~~~~~~lg~~~~~~g~~~~  159 (184)
T 3vtx_A           82 ANFMIDEKQAAIDALQRAIALN-TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKP-GFIRAYQSIGLAYEGKGLRDE  159 (184)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcc-hhhhHHHHHHHHHHHCCCHHH
Confidence            8999999999999998877654 44677888889999999999999999998887642 367788888899999999999


Q ss_pred             HHHHHHHHHHC
Q 046446          190 VIELLHKMKEK  200 (244)
Q Consensus       190 a~~~~~~~~~~  200 (244)
                      |...|++..+.
T Consensus       160 A~~~~~~al~~  170 (184)
T 3vtx_A          160 AVKYFKKALEK  170 (184)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHhC
Confidence            99999988875

>1b89_A Protein (clathrin heavy chain); triskelion, coated vesicles, endocytosis, SELF- assembly, alpha-alpha superhelix; 2.60A {Bos taurus} SCOP: a.118.1.3

Probab=99.68  E-value=2.1e-17  Score=127.18  Aligned_cols=188  Identities=14%  Similarity=0.110  Sum_probs=67.4

Q ss_pred             hhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHH
Q 046446            7 CKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESV   86 (244)
Q Consensus         7 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~   86 (244)
                      -+.|+.++|.+.++++.      ++.+|..++.++.+.|++++|++.|.+.      +|..+|..++.++...|++++|+
T Consensus        14 ~~~~~ld~A~~fae~~~------~~~vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~~g~~EeAi   81 (449)
T 1b89_A           14 EHIGNLDRAYEFAERCN------EPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELV   81 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHccCHHHHHHHHHhCC------ChHHHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCCCHHHHH
Confidence            45688999999998882      3359999999999999999999999652      58889999999999999999999


Q ss_pred             HHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcC
Q 046446           87 ELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENA  166 (244)
Q Consensus        87 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~  166 (244)
                      .+++..++.  .+++.+.+.++.+|.+.|+++++.++++       .|+..+|+.+...|...|.+++|..+|..+    
T Consensus        82 ~yl~~ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a----  148 (449)
T 1b89_A           82 KYLQMARKK--ARESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV----  148 (449)
T ss_dssp             -----------------------------CHHHHTTTTT-------CC----------------CTTTHHHHHHHT----
T ss_pred             HHHHHHHHh--CccchhHHHHHHHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh----
Confidence            988877764  4567889999999999999999887774       367789999999999999999999999976    


Q ss_pred             CCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchhhhh
Q 046446          167 VAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFT  230 (244)
Q Consensus       167 ~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  230 (244)
                           ..|..++.++.+.|++++|.+.+.++      .+..+|..++.+|...|+++.|.....
T Consensus       149 -----~n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l  201 (449)
T 1b89_A          149 -----SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGL  201 (449)
T ss_dssp             -----TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTT
T ss_pred             -----hhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHH
Confidence                 47999999999999999999999988      378999999999999999988865443

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.68  E-value=5.9e-14  Score=105.50  Aligned_cols=219  Identities=10%  Similarity=0.017  Sum_probs=173.8

Q ss_pred             hHHHHHHHHHHhCCCCCChhhHHHHHHHHhh-------hchH-------HHHHHHHHHHHHcCCCC-ChhHHHHHHHHHH
Q 046446           13 EGALNLYSEMLSKGIKPDVVIHNTLFIGLFE-------IHQV-------ERAFKLFDEMQRDGVAA-DTRTYTIFIDGLC   77 (244)
Q Consensus        13 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~-------~~~~-------~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~   77 (244)
                      ++|..+|++..... +.+...|..++..+..       .|++       ++|..+|++..+. +.| +...|..++..+.
T Consensus        33 ~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~-~~p~~~~~~~~~~~~~~  110 (308)
T 2ond_A           33 KRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAIST-LLKKNMLLYFAYADYEE  110 (308)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTT-TTTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHH-hCcccHHHHHHHHHHHH
Confidence            68889999998863 4567788887777653       4664       8999999999884 234 5568999999999


Q ss_pred             hCCcHHHHHHHHHHHHHhCCCccHH-hHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHH-ccCChHHH
Q 046446           78 KNGYIVESVELFRTLRILKCELDIQ-AYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLY-NDGQMDKA  155 (244)
Q Consensus        78 ~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~-~~~~~~~a  155 (244)
                      +.|++++|.++|++..+.. +.+.. +|..+...+.+.|++++|..+|++..+.. +++...|........ ..|++++|
T Consensus       111 ~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~a~~~~~~~~~~~~A  188 (308)
T 2ond_A          111 SRMKYEKVHSIYNRLLAIE-DIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVA  188 (308)
T ss_dssp             HTTCHHHHHHHHHHHHTSS-SSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-TCCTHHHHHHHHHHHHTSCCHHHH
T ss_pred             hcCCHHHHHHHHHHHHhcc-ccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHcCCHHHH
Confidence            9999999999999999853 22344 89999999999999999999999998764 344555654444322 37999999


Q ss_pred             HHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCC-CCC--ChhhHHHHHHHHHhccccccchhhhhhh
Q 046446          156 HDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKN-VMP--DASIVSIVVDLLAKNEISLNSLPSFTVH  232 (244)
Q Consensus       156 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-~~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~~  232 (244)
                      ..+|+...+.. +-+...|..++..+.+.|++++|..+|++..... +.|  ....|..++..+.+.|+.++|..+++.+
T Consensus       189 ~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a  267 (308)
T 2ond_A          189 FKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRR  267 (308)
T ss_dssp             HHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            99999988753 2367888899999999999999999999999863 455  3567888899999999999999998877


Q ss_pred             hhhh
Q 046446          233 ERQE  236 (244)
Q Consensus       233 ~~~~  236 (244)
                      .+..
T Consensus       268 ~~~~  271 (308)
T 2ond_A          268 FTAF  271 (308)
T ss_dssp             HHHT
T ss_pred             HHHc
Confidence            6543

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.65  E-value=5.6e-14  Score=97.44  Aligned_cols=167  Identities=11%  Similarity=0.001  Sum_probs=147.1

Q ss_pred             ChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHH
Q 046446           65 DTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIH  144 (244)
Q Consensus        65 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  144 (244)
                      ++.+|..+...|.+.|++++|++.|++..+.. |-+..++..+..+|...|++++|...+....... +.+...+..+..
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~   81 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILGS   81 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHHH
Confidence            67889999999999999999999999999886 5688899999999999999999999999987664 346778888889


Q ss_pred             HHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcccccc
Q 046446          145 GLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLN  224 (244)
Q Consensus       145 ~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  224 (244)
                      .+...++++.+...+....+.. +.+...+..+..++.+.|++++|++.|++..+.. +.+...+..+..+|.+.|++++
T Consensus        82 ~~~~~~~~~~a~~~~~~a~~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~~~g~~~~  159 (184)
T 3vtx_A           82 ANFMIDEKQAAIDALQRAIALN-TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYEGKGLRDE  159 (184)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHHHCCCHHH
Confidence            9999999999999999988764 3367788899999999999999999999998864 2367889999999999999999


Q ss_pred             chhhhhhhhhh
Q 046446          225 SLPSFTVHERQ  235 (244)
Q Consensus       225 a~~~~~~~~~~  235 (244)
                      |+..|+...+.
T Consensus       160 A~~~~~~al~~  170 (184)
T 3vtx_A          160 AVKYFKKALEK  170 (184)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHhC
Confidence            99999877654

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.64  E-value=1.1e-14  Score=109.06  Aligned_cols=31  Identities=6%  Similarity=-0.122  Sum_probs=26.1

Q ss_pred             ChhhHHHHHHHHHhccccccchhhhhhhhhh
Q 046446          205 DASIVSIVVDLLAKNEISLNSLPSFTVHERQ  235 (244)
Q Consensus       205 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  235 (244)
                      +..++..+..+|.+.|++++|...|+...+.
T Consensus       277 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~l  307 (311)
T 3nf1_A          277 VTTTLKNLGALYRRQGKFEAAETLEEAAMRS  307 (311)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            4567888999999999999999999877653

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.64  E-value=3.1e-14  Score=103.66  Aligned_cols=187  Identities=11%  Similarity=0.072  Sum_probs=158.3

Q ss_pred             hhhhhhhcCChhHHHHHHHHHHhCC--CCCC----hhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHH
Q 046446            2 LINGYCKNKEIEGALNLYSEMLSKG--IKPD----VVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDG   75 (244)
Q Consensus         2 li~~~~~~~~~~~a~~~~~~~~~~~--~~~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~   75 (244)
                      +...+...|++++|...+++..+..  ..++    ...+..+...+...|++++|...|++..+.  .|+.       ..
T Consensus        44 ~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~-------~~  114 (258)
T 3uq3_A           44 RAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFARIGNAYHKLGDLKKTIEYYQKSLTE--HRTA-------DI  114 (258)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCH-------HH
T ss_pred             HHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhc--Cchh-------HH
Confidence            3457889999999999999988752  1112    578889999999999999999999999885  3443       34


Q ss_pred             HHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHH
Q 046446           76 LCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKA  155 (244)
Q Consensus        76 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a  155 (244)
                      +...|++++|.+.++++.... +.+...+..+...+...|++++|...+++..... +.+...+..+...+...|++++|
T Consensus       115 ~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A  192 (258)
T 3uq3_A          115 LTKLRNAEKELKKAEAEAYVN-PEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEA  192 (258)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCC-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHhHHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHhCCHHHH
Confidence            666788999999999998865 4567789999999999999999999999988764 44688999999999999999999


Q ss_pred             HHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 046446          156 HDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEK  200 (244)
Q Consensus       156 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  200 (244)
                      ...++...+.. +.+...+..+..++...|++++|...+++..+.
T Consensus       193 ~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~  236 (258)
T 3uq3_A          193 IADCNKAIEKD-PNFVRAYIRKATAQIAVKEYASALETLDAARTK  236 (258)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhC-HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh
Confidence            99999998764 335788999999999999999999999998764

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.63  E-value=1e-14  Score=109.23  Aligned_cols=198  Identities=14%  Similarity=0.039  Sum_probs=158.6

Q ss_pred             hhhhhhhcCChhHHHHHHHHHHhC-------CCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHc------CC-CCChh
Q 046446            2 LINGYCKNKEIEGALNLYSEMLSK-------GIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRD------GV-AADTR   67 (244)
Q Consensus         2 li~~~~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------~~-~~~~~   67 (244)
                      +...+...|++++|..+++++.+.       ..+.....+..+...+...|++++|...+++..+.      +. +....
T Consensus        33 l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~  112 (311)
T 3nf1_A           33 LVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKDHPAVAA  112 (311)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHH
Confidence            356788999999999999998873       22334567888999999999999999999998764      22 22456


Q ss_pred             HHHHHHHHHHhCCcHHHHHHHHHHHHHh------C-CCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccC------C-cc
Q 046446           68 TYTIFIDGLCKNGYIVESVELFRTLRIL------K-CELDIQAYSCLIDGLCKSGRLEIALELFHSLPRG------V-LV  133 (244)
Q Consensus        68 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~------~-~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~------~-~~  133 (244)
                      ++..+...+...|++++|.+.+++..+.      + .+....++..+...+...|++++|..++++....      + .+
T Consensus       113 ~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~  192 (311)
T 3nf1_A          113 TLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDP  192 (311)
T ss_dssp             HHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCH
Confidence            7888999999999999999999998764      2 1334567888999999999999999999987653      1 12


Q ss_pred             ccHHHHHHHHHHHHccCChHHHHHHHHHHHHc------------------------------------------------
Q 046446          134 ADVVTYSIMIHGLYNDGQMDKAHDLFLDMEEN------------------------------------------------  165 (244)
Q Consensus       134 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~------------------------------------------------  165 (244)
                      ....++..+...|...|++++|.+.++.+.+.                                                
T Consensus       193 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  272 (311)
T 3nf1_A          193 NVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKV  272 (311)
T ss_dssp             HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCCC--------
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCC
Confidence            34567889999999999999999999988752                                                


Q ss_pred             CCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHH
Q 046446          166 AVAPNVITFGTLIHGFIRINEPSKVIELLHKMKE  199 (244)
Q Consensus       166 ~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  199 (244)
                      ..+.+..++..+..+|.+.|++++|...+++..+
T Consensus       273 ~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          273 DSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             -CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             CCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            1122456688889999999999999999998765

>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=99.63  E-value=7.9e-13  Score=97.45  Aligned_cols=192  Identities=10%  Similarity=-0.041  Sum_probs=168.4

Q ss_pred             ChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHh----CCcHHHHHHHHHHHHHhCCCccHHhHH
Q 046446           30 DVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCK----NGYIVESVELFRTLRILKCELDIQAYS  105 (244)
Q Consensus        30 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~  105 (244)
                      +...+..+...+...|++++|...|++..+.   -+..++..+...|..    .+++++|.+.|++..+.+   +..++.
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~---~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~   78 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDL---KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCH   78 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            5667888888899999999999999999883   356788889999999    999999999999998875   678888


Q ss_pred             HHHHHHHc----CCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHc----cCChHHHHHHHHHHHHcCCCCcHhHHHHH
Q 046446          106 CLIDGLCK----SGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYN----DGQMDKAHDLFLDMEENAVAPNVITFGTL  177 (244)
Q Consensus       106 ~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~~~~~~~~p~~~~~~~l  177 (244)
                      .+...|..    .+++++|...|++..+.+   +...+..+...|..    .+++++|...|+...+.+   +...+..+
T Consensus        79 ~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l  152 (273)
T 1ouv_A           79 LLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTIL  152 (273)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHH
T ss_pred             HHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHH
Confidence            89999999    999999999999998875   77889999999999    999999999999998865   56677888


Q ss_pred             HHHHHh----cCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHh----ccccccchhhhhhhhhhh
Q 046446          178 IHGFIR----INEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAK----NEISLNSLPSFTVHERQE  236 (244)
Q Consensus       178 ~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~  236 (244)
                      ...+..    .+++++|...+++..+.+   +...+..+...|..    .+++++|+..|+...+.+
T Consensus       153 g~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~  216 (273)
T 1ouv_A          153 GSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE  216 (273)
T ss_dssp             HHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC
Confidence            888887    899999999999998875   56778889999999    999999999998776543

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.62  E-value=2.5e-13  Score=99.85  Aligned_cols=202  Identities=11%  Similarity=-0.017  Sum_probs=162.0

Q ss_pred             hhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCc--cHHhHHHHH
Q 046446           31 VVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCEL--DIQAYSCLI  108 (244)
Q Consensus        31 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~ll  108 (244)
                      ...+......+...|++++|+..|++..+.. +.+...+..+..++...|++++|++.+++..+.+..+  ...+|..+.
T Consensus         3 ~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg   81 (272)
T 3u4t_A            3 DDVEFRYADFLFKNNNYAEAIEVFNKLEAKK-YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYG   81 (272)
T ss_dssp             --CHHHHHHHHHTTTCHHHHHHHHHHHHHTT-CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHH
Confidence            4456667778889999999999999998863 2356689999999999999999999999998843111  133488999


Q ss_pred             HHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChh
Q 046446          109 DGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPS  188 (244)
Q Consensus       109 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~  188 (244)
                      ..+...|++++|...|++..+.. +.+..++..+...|...|++++|...++...+.. +.+...+..+...+...++++
T Consensus        82 ~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~  159 (272)
T 3u4t_A           82 KILMKKGQDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPT-TTDPKVFYELGQAYYYNKEYV  159 (272)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSS-CCCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcC-CCcHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999988764 3467899999999999999999999999988752 335667777773444566999


Q ss_pred             HHHHHHHHHHHCCCCCChhhHHHHHHHHHhccc---cccchhhhhhhhhhh
Q 046446          189 KVIELLHKMKEKNVMPDASIVSIVVDLLAKNEI---SLNSLPSFTVHERQE  236 (244)
Q Consensus       189 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~  236 (244)
                      +|...+++..+.. +.+...+..+..++...|+   .++|...++...+..
T Consensus       160 ~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~  209 (272)
T 3u4t_A          160 KADSSFVKVLELK-PNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVC  209 (272)
T ss_dssp             HHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHH
Confidence            9999999998864 2346777788888888888   888998888776654

>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=99.60  E-value=2.6e-13  Score=93.68  Aligned_cols=166  Identities=13%  Similarity=0.064  Sum_probs=128.2

Q ss_pred             hhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHH
Q 046446           31 VVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDG  110 (244)
Q Consensus        31 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~  110 (244)
                      ...+..+...+...|++++|...++++.+.. +.+..++..+...+...|++++|.+.++++.+.. +.+...+..+...
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~   85 (186)
T 3as5_A            8 QVYYRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLT   85 (186)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHH
Confidence            3456667777888888888888888877652 3366778888888888888888888888887764 4567778888888


Q ss_pred             HHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHH
Q 046446          111 LCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKV  190 (244)
Q Consensus       111 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a  190 (244)
                      +...|++++|...++++.... +.+...+..+...+...|++++|...++...+.. +.+...+..+...+...|++++|
T Consensus        86 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A  163 (186)
T 3as5_A           86 YVQVQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQMGRHEEA  163 (186)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCHHHH
Confidence            888888888888888877653 3467778888888888888888888888877653 33567777888888888888888


Q ss_pred             HHHHHHHHHC
Q 046446          191 IELLHKMKEK  200 (244)
Q Consensus       191 ~~~~~~~~~~  200 (244)
                      ...+++..+.
T Consensus       164 ~~~~~~~~~~  173 (186)
T 3as5_A          164 LPHFKKANEL  173 (186)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHc
Confidence            8888877654

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.60  E-value=4.5e-14  Score=112.29  Aligned_cols=188  Identities=11%  Similarity=-0.058  Sum_probs=163.3

Q ss_pred             hhhhhhcCCh-hHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhC--
Q 046446            3 INGYCKNKEI-EGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKN--   79 (244)
Q Consensus         3 i~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~--   79 (244)
                      -..+...|++ ++|++.|++..+.. +.+...|..+...|...|++++|...|++..+.  .|+...+..+...+...  
T Consensus       109 g~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~lg~~~~~~~~  185 (474)
T 4abn_A          109 GKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTCFSGALTH--CKNKVSLQNLSMVLRQLQT  185 (474)
T ss_dssp             HHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT--CCCHHHHHHHHHHHTTCCC
T ss_pred             HHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCHHHHHHHHHHHHHhcc
Confidence            3567788999 99999999998873 345788999999999999999999999999886  47788999999999999  


Q ss_pred             -------CcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcC--------CCHHHHHHHHHhcccCCcc---ccHHHHHH
Q 046446           80 -------GYIVESVELFRTLRILKCELDIQAYSCLIDGLCKS--------GRLEIALELFHSLPRGVLV---ADVVTYSI  141 (244)
Q Consensus        80 -------~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~--------~~~~~a~~~~~~~~~~~~~---~~~~~~~~  141 (244)
                             |++++|++.+++..+.. +.+...|..+..+|...        |++++|...|++..+.. +   .+...|..
T Consensus       186 ~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~  263 (474)
T 4abn_A          186 DSGDEHSRHVMDSVRQAKLAVQMD-VLDGRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKVD-RKASSNPDLHLN  263 (474)
T ss_dssp             SCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHC-GGGGGCHHHHHH
T ss_pred             CChhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhC-CCcccCHHHHHH
Confidence                   99999999999999876 56788999999999998        99999999999988763 3   47889999


Q ss_pred             HHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHH
Q 046446          142 MIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHK  196 (244)
Q Consensus       142 li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~  196 (244)
                      +..+|...|++++|.+.|+...+... .+...+..+..++...|++++|.+.+.+
T Consensus       264 lg~~~~~~g~~~~A~~~~~~al~l~p-~~~~a~~~l~~~~~~lg~~~eAi~~~~~  317 (474)
T 4abn_A          264 RATLHKYEESYGEALEGFSQAAALDP-AWPEPQQREQQLLEFLSRLTSLLESKGK  317 (474)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            99999999999999999999887642 3566788888889999999888876544

>2h6f_A Protein farnesyltransferase/geranylgeranyltransferase type I alpha subunit; ftase, farnesyltransferase, farnesyl transferase, prenyltransferase, CAAX, RAS, lipid modification, prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP: a.118.6.1 PDB: 1jcq_A* 1ld7_A* 1mzc_A* 1s63_A* 1sa4_A* 1tn6_A* 1ld8_A* 2h6g_A* 2h6h_A* 2h6i_A* 2iej_A* 3e37_A* 2f0y_A* 3ksl_A* 2zir_A* 2zis_A* 1o5m_A* 3ksq_A* 1o1t_A* 1o1s_A* ...

Probab=99.59  E-value=2.4e-13  Score=104.86  Aligned_cols=197  Identities=11%  Similarity=-0.026  Sum_probs=167.7

Q ss_pred             hhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCc-HHHHHHHHHHHHHhCCCccHHhHHHHHH
Q 046446           31 VVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGY-IVESVELFRTLRILKCELDIQAYSCLID  109 (244)
Q Consensus        31 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~ll~  109 (244)
                      ...|..+...+...|++++|+..+++..+... -+..+|+.+..++...|+ +++|+..|++..+.. +-+..+|..+..
T Consensus        97 ~~a~~~lg~~~~~~g~~~~Al~~~~~al~l~P-~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~-P~~~~a~~~~g~  174 (382)
T 2h6f_A           97 RDVYDYFRAVLQRDERSERAFKLTRDAIELNA-ANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRV  174 (382)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHHhCc-cCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC-CCCHHHHHHHHH
Confidence            45678888888999999999999999998743 367889999999999996 999999999999987 568899999999


Q ss_pred             HHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHh-cCChh
Q 046446          110 GLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIR-INEPS  188 (244)
Q Consensus       110 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~-~g~~~  188 (244)
                      ++...|++++|+..|+++.+.. +-+...|..+..++...|++++|+..++.+.+.... +...|+.+..++.. .|..+
T Consensus       175 ~~~~~g~~~eAl~~~~kal~ld-P~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P~-~~~a~~~lg~~l~~l~~~~~  252 (382)
T 2h6f_A          175 LVEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISNTTGYND  252 (382)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCSCS
T ss_pred             HHHHccCHHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCcch
Confidence            9999999999999999998775 457899999999999999999999999999986543 77889999999988 66657


Q ss_pred             HH-----HHHHHHHHHCCCCCChhhHHHHHHHHHhcc--ccccchhhhhhh
Q 046446          189 KV-----IELLHKMKEKNVMPDASIVSIVVDLLAKNE--ISLNSLPSFTVH  232 (244)
Q Consensus       189 ~a-----~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~~~a~~~~~~~  232 (244)
                      +|     +..+++...... -+...|..+...+.+.|  ++++|++.+..+
T Consensus       253 eA~~~~el~~~~~Al~l~P-~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~  302 (382)
T 2h6f_A          253 RAVLEREVQYTLEMIKLVP-HNESAWNYLKGILQDRGLSKYPNLLNQLLDL  302 (382)
T ss_dssp             HHHHHHHHHHHHHHHHHST-TCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHccCccchHHHHHHHHHh
Confidence            77     478888877542 25678888888888888  578888887766

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.59  E-value=1.4e-13  Score=106.51  Aligned_cols=230  Identities=11%  Similarity=0.036  Sum_probs=175.2

Q ss_pred             hhhhhcCChhHHHHHHHHHHhC----CCCC-ChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCC-C-----ChhHHHHH
Q 046446            4 NGYCKNKEIEGALNLYSEMLSK----GIKP-DVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVA-A-----DTRTYTIF   72 (244)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-~-----~~~~~~~l   72 (244)
                      ..+...|++++|...|++..+.    +-++ ...++..+...+...|+++.|+..+++..+.... +     ...+++.+
T Consensus       111 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~l  190 (383)
T 3ulq_A          111 MYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHSLF  190 (383)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHHHH
Confidence            3567889999999999999874    2112 3467888899999999999999999988764111 1     23578889


Q ss_pred             HHHHHhCCcHHHHHHHHHHHHHhCC-----CccHHhHHHHHHHHHcCCCHHHHHHHHHhccc-----CCccccHHHHHHH
Q 046446           73 IDGLCKNGYIVESVELFRTLRILKC-----ELDIQAYSCLIDGLCKSGRLEIALELFHSLPR-----GVLVADVVTYSIM  142 (244)
Q Consensus        73 l~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~~l  142 (244)
                      ...|...|++++|.+.+++..+...     +....++..+..+|...|++++|...+++..+     ...+....++..+
T Consensus       191 g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l  270 (383)
T 3ulq_A          191 ATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFLI  270 (383)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHHHH
Confidence            9999999999999999998875421     11234788899999999999999999998776     3223457788999


Q ss_pred             HHHHHccCChHHHHHHHHHHHHc----CCCCcHhHHHHHHHHHHhcCC---hhHHHHHHHHHHHCCCCC-ChhhHHHHHH
Q 046446          143 IHGLYNDGQMDKAHDLFLDMEEN----AVAPNVITFGTLIHGFIRINE---PSKVIELLHKMKEKNVMP-DASIVSIVVD  214 (244)
Q Consensus       143 i~~~~~~~~~~~a~~~~~~~~~~----~~~p~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~~~~-~~~~~~~l~~  214 (244)
                      ...|...|++++|...++...+.    +-+.....+..+...+...|+   +++|..++++.   +..| ....+..+..
T Consensus       271 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~---~~~~~~~~~~~~la~  347 (383)
T 3ulq_A          271 TQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK---MLYADLEDFAIDVAK  347 (383)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC---cCHHHHHHHHHHHHH
Confidence            99999999999999999987643    111123335667778888888   66677766654   3333 3456778999


Q ss_pred             HHHhccccccchhhhhhhhhhh
Q 046446          215 LLAKNEISLNSLPSFTVHERQE  236 (244)
Q Consensus       215 ~~~~~g~~~~a~~~~~~~~~~~  236 (244)
                      .|.+.|++++|...++......
T Consensus       348 ~y~~~g~~~~A~~~~~~al~~~  369 (383)
T 3ulq_A          348 YYHERKNFQKASAYFLKVEQVR  369 (383)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHH
Confidence            9999999999999998876644

>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=99.59  E-value=2.4e-13  Score=93.87  Aligned_cols=159  Identities=15%  Similarity=0.077  Sum_probs=139.4

Q ss_pred             hhhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcH
Q 046446            3 INGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYI   82 (244)
Q Consensus         3 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~   82 (244)
                      ...+...|++++|...++++.+.. +.+...+..+...+...|++++|...++++.+.. +.+..++..+...+...|++
T Consensus        15 ~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~   92 (186)
T 3as5_A           15 GISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTYVQVQKY   92 (186)
T ss_dssp             HHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCH
Confidence            456788999999999999988763 4467788899999999999999999999998873 34678889999999999999


Q ss_pred             HHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHH
Q 046446           83 VESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDM  162 (244)
Q Consensus        83 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  162 (244)
                      ++|.+.++++.+.. +.+...+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|...++..
T Consensus        93 ~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~  170 (186)
T 3as5_A           93 DLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQMGRHEEALPHFKKA  170 (186)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            99999999998875 5678889999999999999999999999987764 446789999999999999999999999998


Q ss_pred             HHc
Q 046446          163 EEN  165 (244)
Q Consensus       163 ~~~  165 (244)
                      .+.
T Consensus       171 ~~~  173 (186)
T 3as5_A          171 NEL  173 (186)
T ss_dssp             HHH
T ss_pred             HHc
Confidence            754

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.59  E-value=1e-12  Score=98.67  Aligned_cols=190  Identities=11%  Similarity=0.055  Sum_probs=155.5

Q ss_pred             hcCCh-------hHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCC-hh-HHHHHHHHHHh
Q 046446            8 KNKEI-------EGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAAD-TR-TYTIFIDGLCK   78 (244)
Q Consensus         8 ~~~~~-------~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~-~~~~ll~~~~~   78 (244)
                      +.|++       ++|..+|++....-.+-+...|..++..+...|++++|..+|++..+.  .|+ .. +|..++..+.+
T Consensus        69 ~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~  146 (308)
T 2ond_A           69 EKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARR  146 (308)
T ss_dssp             HTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS--SSSCTHHHHHHHHHHHHH
T ss_pred             hccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc--cccCccHHHHHHHHHHHH
Confidence            45776       899999999998311335668999999999999999999999999984  454 33 89999999999


Q ss_pred             CCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHH-cCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHH
Q 046446           79 NGYIVESVELFRTLRILKCELDIQAYSCLIDGLC-KSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHD  157 (244)
Q Consensus        79 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~  157 (244)
                      .|++++|..+|++..+.. +.+...|........ ..|++++|..+|++..+.. +.+...|..++..+.+.|++++|..
T Consensus       147 ~~~~~~A~~~~~~a~~~~-p~~~~~~~~~a~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~A~~  224 (308)
T 2ond_A          147 AEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRV  224 (308)
T ss_dssp             HHCHHHHHHHHHHHHTST-TCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHH
T ss_pred             hcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHH
Confidence            999999999999999865 345556654444432 3799999999999987653 3468899999999999999999999


Q ss_pred             HHHHHHHcC-CCC--cHhHHHHHHHHHHhcCChhHHHHHHHHHHHCC
Q 046446          158 LFLDMEENA-VAP--NVITFGTLIHGFIRINEPSKVIELLHKMKEKN  201 (244)
Q Consensus       158 ~~~~~~~~~-~~p--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  201 (244)
                      +|+...... ..|  ....|..++....+.|+.+.|..+++++.+..
T Consensus       225 ~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~~~~  271 (308)
T 2ond_A          225 LFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAF  271 (308)
T ss_dssp             HHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc
Confidence            999999863 355  35678888999899999999999999988753

>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=99.59  E-value=2.8e-13  Score=112.32  Aligned_cols=166  Identities=14%  Similarity=0.017  Sum_probs=145.0

Q ss_pred             ChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHH
Q 046446           30 DVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLID  109 (244)
Q Consensus        30 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  109 (244)
                      +...|+.+...+.+.|++++|+..|++..+... -+..++..+..+|.+.|++++|++.|++..+.. +-+..+|..+..
T Consensus         8 ~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~P-~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~-P~~~~a~~nLg~   85 (723)
T 4gyw_A            8 HADSLNNLANIKREQGNIEEAVRLYRKALEVFP-EFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYSNMGN   85 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            467899999999999999999999999988632 257889999999999999999999999999876 567889999999


Q ss_pred             HHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhH
Q 046446          110 GLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSK  189 (244)
Q Consensus       110 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~  189 (244)
                      +|...|++++|.+.|++..+.. +-+...|+.+..+|...|++++|.+.|++..+... -+...+..+..++...|++++
T Consensus        86 ~l~~~g~~~~A~~~~~kAl~l~-P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P-~~~~a~~~L~~~l~~~g~~~~  163 (723)
T 4gyw_A           86 TLKEMQDVQGALQCYTRAIQIN-PAFADAHSNLASIHKDSGNIPEAIASYRTALKLKP-DFPDAYCNLAHCLQIVCDWTD  163 (723)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHTTCCTT
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CChHHHhhhhhHHHhcccHHH
Confidence            9999999999999999988764 34688999999999999999999999999887642 257788999999999999999


Q ss_pred             HHHHHHHHHH
Q 046446          190 VIELLHKMKE  199 (244)
Q Consensus       190 a~~~~~~~~~  199 (244)
                      |.+.++++.+
T Consensus       164 A~~~~~kal~  173 (723)
T 4gyw_A          164 YDERMKKLVS  173 (723)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9998888764

>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=99.58  E-value=6.9e-14  Score=103.12  Aligned_cols=228  Identities=10%  Similarity=-0.038  Sum_probs=160.4

Q ss_pred             hhhcCChhHHHHHHHHHHhC-------CCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHc------CCCC-ChhHHHH
Q 046446            6 YCKNKEIEGALNLYSEMLSK-------GIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRD------GVAA-DTRTYTI   71 (244)
Q Consensus         6 ~~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------~~~~-~~~~~~~   71 (244)
                      ....|++++|+..|++..+.       ..+....++..+...+...|++++|+..+++..+.      +..| ...++..
T Consensus        11 ~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~   90 (283)
T 3edt_B           11 SSGLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNN   90 (283)
T ss_dssp             --CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHH
T ss_pred             cCCCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHH
Confidence            34568888888888877652       21234567888999999999999999999998765      2222 3567889


Q ss_pred             HHHHHHhCCcHHHHHHHHHHHHHhC-------CCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccC------C-ccccHH
Q 046446           72 FIDGLCKNGYIVESVELFRTLRILK-------CELDIQAYSCLIDGLCKSGRLEIALELFHSLPRG------V-LVADVV  137 (244)
Q Consensus        72 ll~~~~~~~~~~~a~~~~~~~~~~~-------~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~------~-~~~~~~  137 (244)
                      +...+...|++++|.+.+++..+..       .+....++..+...|...|++++|...+++..+.      + .+....
T Consensus        91 l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~  170 (283)
T 3edt_B           91 LAVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAK  170 (283)
T ss_dssp             HHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHH
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHH
Confidence            9999999999999999999987641       1345677899999999999999999999987654      1 123467


Q ss_pred             HHHHHHHHHHccCChHHHHHHHHHHHHc-------CCCCc-HhHHHHHHHHHHhcCChhHHHHHHHHHHH---C-C--CC
Q 046446          138 TYSIMIHGLYNDGQMDKAHDLFLDMEEN-------AVAPN-VITFGTLIHGFIRINEPSKVIELLHKMKE---K-N--VM  203 (244)
Q Consensus       138 ~~~~li~~~~~~~~~~~a~~~~~~~~~~-------~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~-~--~~  203 (244)
                      ++..+...|...|++++|...+++..+.       ...+. ...+..+.......+....+.. +..+..   . +  ..
T Consensus       171 ~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~  249 (283)
T 3edt_B          171 TKNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAP-YGEYGSWYKACKVDSP  249 (283)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC-------------CCCCCCH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHH-HHHHHHHHHhcCCCCH
Confidence            8889999999999999999999988753       12222 2333333334443333333322 222111   1 1  12


Q ss_pred             CChhhHHHHHHHHHhccccccchhhhhhhhh
Q 046446          204 PDASIVSIVVDLLAKNEISLNSLPSFTVHER  234 (244)
Q Consensus       204 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  234 (244)
                      ....++..+...|.+.|++++|...|+...+
T Consensus       250 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  280 (283)
T 3edt_B          250 TVNTTLRSLGALYRRQGKLEAAHTLEDCASR  280 (283)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            2345778899999999999999999987654

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.58  E-value=5e-14  Score=109.80  Aligned_cols=231  Identities=12%  Similarity=0.035  Sum_probs=174.7

Q ss_pred             hhhhhcCChhHHHHHHHHHHhCCCCCCh----hhHHHHHHHHhhhchHHHHHHHHHHHHHc----C-CCCChhHHHHHHH
Q 046446            4 NGYCKNKEIEGALNLYSEMLSKGIKPDV----VIHNTLFIGLFEIHQVERAFKLFDEMQRD----G-VAADTRTYTIFID   74 (244)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~-~~~~~~~~~~ll~   74 (244)
                      ..+...|++++|+..|++..+.+ +.+.    ..+..+...+...|++++|...+++..+.    + .+....++..+..
T Consensus        56 ~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~  134 (411)
T 4a1s_A           56 ERLCNAGDCRAGVAFFQAAIQAG-TEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGNLGN  134 (411)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhCcHHHHHHHHHHHHHhc-ccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHHHHH
Confidence            46788899999999999998863 2232    46888888999999999999999987654    1 1223567888899


Q ss_pred             HHHhCCcHHHHHHHHHHHHHhC-----CCccHHhHHHHHHHHHcCCC-----------------HHHHHHHHHhcccC--
Q 046446           75 GLCKNGYIVESVELFRTLRILK-----CELDIQAYSCLIDGLCKSGR-----------------LEIALELFHSLPRG--  130 (244)
Q Consensus        75 ~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~ll~~~~~~~~-----------------~~~a~~~~~~~~~~--  130 (244)
                      .|...|++++|...+++..+..     .+....++..+...|...|+                 +++|...+++..+.  
T Consensus       135 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~  214 (411)
T 4a1s_A          135 TLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMR  214 (411)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999876541     12345578888899999999                 99999888876432  


Q ss_pred             --C-ccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCC-Cc----HhHHHHHHHHHHhcCChhHHHHHHHHHHHCCC
Q 046446          131 --V-LVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVA-PN----VITFGTLIHGFIRINEPSKVIELLHKMKEKNV  202 (244)
Q Consensus       131 --~-~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~-p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  202 (244)
                        + ......++..+...+...|++++|...+++..+.... ++    ..++..+...+...|++++|...+++......
T Consensus       215 ~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~  294 (411)
T 4a1s_A          215 DLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAV  294 (411)
T ss_dssp             HHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHH
Confidence              1 1223457888889999999999999999887643110 11    23677888899999999999999988775311


Q ss_pred             --C---CChhhHHHHHHHHHhccccccchhhhhhhhhh
Q 046446          203 --M---PDASIVSIVVDLLAKNEISLNSLPSFTVHERQ  235 (244)
Q Consensus       203 --~---~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  235 (244)
                        .   ....++..+...|...|++++|...++.....
T Consensus       295 ~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  332 (411)
T 4a1s_A          295 ELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAI  332 (411)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence              0   12467778888999999999999988876553

>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=99.55  E-value=3.5e-12  Score=91.44  Aligned_cols=123  Identities=15%  Similarity=0.010  Sum_probs=57.5

Q ss_pred             hhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHH
Q 046446            6 YCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVES   85 (244)
Q Consensus         6 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   85 (244)
                      +...|++++|+..|+...+...+++...+..+..++...|++++|+..|++..+... -+..++..+..++...|++++|
T Consensus        17 ~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~~~~~~A   95 (228)
T 4i17_A           17 ALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNY-NLANAYIGKSAAYRDMKNNQEY   95 (228)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC-SHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCc-chHHHHHHHHHHHHHcccHHHH
Confidence            444455555555555554442113444444444445555555555555555544321 1334444455555555555555


Q ss_pred             HHHHHHHHHhCCCccH-------HhHHHHHHHHHcCCCHHHHHHHHHhcccC
Q 046446           86 VELFRTLRILKCELDI-------QAYSCLIDGLCKSGRLEIALELFHSLPRG  130 (244)
Q Consensus        86 ~~~~~~~~~~~~~~~~-------~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  130 (244)
                      ++.+++..+.. +.+.       ..|..+...+...|++++|...|++..+.
T Consensus        96 ~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~  146 (228)
T 4i17_A           96 IATLTEGIKAV-PGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV  146 (228)
T ss_dssp             HHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS
T ss_pred             HHHHHHHHHHC-CCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc
Confidence            55555554433 2222       23444444445555555555555554443

>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=99.55  E-value=8.6e-13  Score=109.41  Aligned_cols=166  Identities=14%  Similarity=-0.025  Sum_probs=146.9

Q ss_pred             ChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHH
Q 046446           65 DTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIH  144 (244)
Q Consensus        65 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  144 (244)
                      +..+++.|...+.+.|++++|++.|++..+.. +-+..+|..+..+|.+.|++++|...|++..+.. +-+...|..+..
T Consensus         8 ~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~-P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~-P~~~~a~~nLg~   85 (723)
T 4gyw_A            8 HADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYSNMGN   85 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            46789999999999999999999999999876 5678899999999999999999999999988764 345889999999


Q ss_pred             HHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcccccc
Q 046446          145 GLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLN  224 (244)
Q Consensus       145 ~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  224 (244)
                      ++...|++++|.+.|++..+... -+...|..+..++...|++++|+..|++..+... -+...+..+..+|...|++++
T Consensus        86 ~l~~~g~~~~A~~~~~kAl~l~P-~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P-~~~~a~~~L~~~l~~~g~~~~  163 (723)
T 4gyw_A           86 TLKEMQDVQGALQCYTRAIQINP-AFADAHSNLASIHKDSGNIPEAIASYRTALKLKP-DFPDAYCNLAHCLQIVCDWTD  163 (723)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHTTCCTT
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CChHHHhhhhhHHHhcccHHH
Confidence            99999999999999999887642 2678899999999999999999999999988642 256788999999999999999


Q ss_pred             chhhhhhhhh
Q 046446          225 SLPSFTVHER  234 (244)
Q Consensus       225 a~~~~~~~~~  234 (244)
                      |.+.++...+
T Consensus       164 A~~~~~kal~  173 (723)
T 4gyw_A          164 YDERMKKLVS  173 (723)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9998887654

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=99.52  E-value=1.9e-13  Score=100.69  Aligned_cols=158  Identities=11%  Similarity=0.016  Sum_probs=121.9

Q ss_pred             hhchHHHHHHHHHHHHH-------cCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHh------C-CCccHHhHHHHH
Q 046446           43 EIHQVERAFKLFDEMQR-------DGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRIL------K-CELDIQAYSCLI  108 (244)
Q Consensus        43 ~~~~~~~a~~~~~~m~~-------~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~------~-~~~~~~~~~~ll  108 (244)
                      ..|+++.|+.++++..+       ...+....++..+...+...|++++|...+++..+.      + .+....++..+.
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            34555555555555443       222334678889999999999999999999998764      2 234566789999


Q ss_pred             HHHHcCCCHHHHHHHHHhcccC------C-ccccHHHHHHHHHHHHccCChHHHHHHHHHHHHc------CCCC-cHhHH
Q 046446          109 DGLCKSGRLEIALELFHSLPRG------V-LVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEEN------AVAP-NVITF  174 (244)
Q Consensus       109 ~~~~~~~~~~~a~~~~~~~~~~------~-~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~------~~~p-~~~~~  174 (244)
                      ..|...|++++|...+++....      . .+....++..+...|...|++++|...+++..+.      +..| ...++
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            9999999999999999987653      1 1334678889999999999999999999998764      1122 35678


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHC
Q 046446          175 GTLIHGFIRINEPSKVIELLHKMKEK  200 (244)
Q Consensus       175 ~~l~~~~~~~g~~~~a~~~~~~~~~~  200 (244)
                      ..+...+...|++++|...+++..+.
T Consensus       173 ~~la~~~~~~g~~~~A~~~~~~~l~~  198 (283)
T 3edt_B          173 NNLASCYLKQGKYQDAETLYKEILTR  198 (283)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            88899999999999999999998753

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.52  E-value=2.1e-13  Score=102.82  Aligned_cols=231  Identities=14%  Similarity=0.063  Sum_probs=173.0

Q ss_pred             hhhhhcCChhHHHHHHHHHHhCCCCCC----hhhHHHHHHHHhhhchHHHHHHHHHHHHHc----CCCC-ChhHHHHHHH
Q 046446            4 NGYCKNKEIEGALNLYSEMLSKGIKPD----VVIHNTLFIGLFEIHQVERAFKLFDEMQRD----GVAA-DTRTYTIFID   74 (244)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~~-~~~~~~~ll~   74 (244)
                      ..+...|++++|...|+++.+.. +.+    ...+..+...+...|++++|...+++..+.    +..| ...++..+..
T Consensus        13 ~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~   91 (338)
T 3ro2_A           13 ERLCKSGDCRAGVSFFEAAVQVG-TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGN   91 (338)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHhccHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHHHHH
Confidence            46788999999999999998863 223    357788889999999999999999987543    2222 2567888899


Q ss_pred             HHHhCCcHHHHHHHHHHHHHhCC-Cc----cHHhHHHHHHHHHcCCC--------------------HHHHHHHHHhccc
Q 046446           75 GLCKNGYIVESVELFRTLRILKC-EL----DIQAYSCLIDGLCKSGR--------------------LEIALELFHSLPR  129 (244)
Q Consensus        75 ~~~~~~~~~~a~~~~~~~~~~~~-~~----~~~~~~~ll~~~~~~~~--------------------~~~a~~~~~~~~~  129 (244)
                      .+...|++++|...+++..+... .+    ...++..+...+...|+                    +++|...+++...
T Consensus        92 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~  171 (338)
T 3ro2_A           92 TLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLS  171 (338)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHHHH
Confidence            99999999999999998765321 11    13478888899999999                    9999988887643


Q ss_pred             C----C-ccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCC-CC----cHhHHHHHHHHHHhcCChhHHHHHHHHHHH
Q 046446          130 G----V-LVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAV-AP----NVITFGTLIHGFIRINEPSKVIELLHKMKE  199 (244)
Q Consensus       130 ~----~-~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~-~p----~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  199 (244)
                      .    + .+.....+..+...+...|++++|...++...+... .+    ...++..+...+...|++++|...+++..+
T Consensus       172 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  251 (338)
T 3ro2_A          172 LVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLL  251 (338)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            2    1 122245778888899999999999999988764210 01    123677888889999999999999988764


Q ss_pred             CCCC-CC----hhhHHHHHHHHHhccccccchhhhhhhhhh
Q 046446          200 KNVM-PD----ASIVSIVVDLLAKNEISLNSLPSFTVHERQ  235 (244)
Q Consensus       200 ~~~~-~~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  235 (244)
                      .... ++    ..++..+...|...|++++|...++.....
T Consensus       252 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  292 (338)
T 3ro2_A          252 LARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAI  292 (338)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            3110 11    557778888999999999999988876543

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.52  E-value=4.7e-11  Score=95.35  Aligned_cols=207  Identities=10%  Similarity=0.054  Sum_probs=116.5

Q ss_pred             cCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhh----hchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHh----CC
Q 046446            9 NKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFE----IHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCK----NG   80 (244)
Q Consensus         9 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~----~~   80 (244)
                      .+++++|...|++..+.|   +...+..+...|..    .+++++|..+|++..+.|   ++..+..|...|..    .+
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            566677777777666653   44555556666665    666777777776666553   44555556666665    56


Q ss_pred             cHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHc----CCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHc----cCCh
Q 046446           81 YIVESVELFRTLRILKCELDIQAYSCLIDGLCK----SGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYN----DGQM  152 (244)
Q Consensus        81 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~~~~  152 (244)
                      ++++|.+.|++..+.+   +...+..|...|..    .+++++|...|++..+.+   +...+..+...|..    .++.
T Consensus       130 ~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~  203 (490)
T 2xm6_A          130 DKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWSCNQLGYMYSRGLGVERND  203 (490)
T ss_dssp             CHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCH
T ss_pred             CHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCCCcCH
Confidence            6666666666666544   34455555555554    556666666666655543   45555555555555    5666


Q ss_pred             HHHHHHHHHHHHcCCCCcHhHHHHHHHHHHh----cCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHh----cccccc
Q 046446          153 DKAHDLFLDMEENAVAPNVITFGTLIHGFIR----INEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAK----NEISLN  224 (244)
Q Consensus       153 ~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~  224 (244)
                      ++|.+.|+...+.|   +...+..+...|..    .+++++|..+|++..+.|   +...+..+...|..    .++.++
T Consensus       204 ~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~~~~~d~~~  277 (490)
T 2xm6_A          204 AISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NSIAQFRLGYILEQGLAGAKEPLK  277 (490)
T ss_dssp             HHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHTTTSSCCHHH
T ss_pred             HHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHCCCCCCCCHHH
Confidence            66666666555542   33444444444443    455555555555555443   23334444444444    445555


Q ss_pred             chhhhhhhh
Q 046446          225 SLPSFTVHE  233 (244)
Q Consensus       225 a~~~~~~~~  233 (244)
                      |+..|+...
T Consensus       278 A~~~~~~a~  286 (490)
T 2xm6_A          278 ALEWYRKSA  286 (490)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            555554443

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.52  E-value=5.4e-14  Score=109.60  Aligned_cols=233  Identities=14%  Similarity=0.023  Sum_probs=177.5

Q ss_pred             hhhhhhcCChhHHHHHHHHHHhC----CC-CCChhhHHHHHHHHhhhchHHHHHHHHHHHHHc----C-CCCChhHHHHH
Q 046446            3 INGYCKNKEIEGALNLYSEMLSK----GI-KPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRD----G-VAADTRTYTIF   72 (244)
Q Consensus         3 i~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~-~~~~~~~~~~l   72 (244)
                      ...|...|++++|...+++..+.    +- +.....+..+...+...|++++|...+++..+.    + .+....++..+
T Consensus        93 g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l  172 (411)
T 4a1s_A           93 GNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNL  172 (411)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHH
Confidence            45678899999999999987653    11 223457788889999999999999999987654    1 11234578888


Q ss_pred             HHHHHhCCc-----------------HHHHHHHHHHHHHh----CC-CccHHhHHHHHHHHHcCCCHHHHHHHHHhcccC
Q 046446           73 IDGLCKNGY-----------------IVESVELFRTLRIL----KC-ELDIQAYSCLIDGLCKSGRLEIALELFHSLPRG  130 (244)
Q Consensus        73 l~~~~~~~~-----------------~~~a~~~~~~~~~~----~~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  130 (244)
                      ...|...|+                 +++|.+.+++..+.    +. +....++..+...|...|++++|...+++..+.
T Consensus       173 ~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  252 (411)
T 4a1s_A          173 GNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRI  252 (411)
T ss_dssp             HHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence            999999999                 99999998887542    11 223457888899999999999999999987653


Q ss_pred             C-----ccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCC-----CcHhHHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 046446          131 V-----LVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVA-----PNVITFGTLIHGFIRINEPSKVIELLHKMKEK  200 (244)
Q Consensus       131 ~-----~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~-----p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  200 (244)
                      .     .......+..+...|...|++++|...+++..+....     ....++..+...+...|++++|...+++....
T Consensus       253 ~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  332 (411)
T 4a1s_A          253 AREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAI  332 (411)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            1     0111337888999999999999999999987653110     12467788889999999999999999988753


Q ss_pred             C----C-CCChhhHHHHHHHHHhccccccchhhhhhhhhh
Q 046446          201 N----V-MPDASIVSIVVDLLAKNEISLNSLPSFTVHERQ  235 (244)
Q Consensus       201 ~----~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  235 (244)
                      .    - .....++..+...|.+.|++++|...++...+.
T Consensus       333 ~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  372 (411)
T 4a1s_A          333 AQELGDRIGEARACWSLGNAHSAIGGHERALKYAEQHLQL  372 (411)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence            1    1 112457788999999999999999999876543

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.51  E-value=5.5e-11  Score=94.96  Aligned_cols=207  Identities=15%  Similarity=0.095  Sum_probs=114.2

Q ss_pred             cCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhh----hchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHh----CC
Q 046446            9 NKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFE----IHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCK----NG   80 (244)
Q Consensus         9 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~----~~   80 (244)
                      .+++++|...|++..+.|   +...+..+...|..    .+++++|..+|++..+.|   +...+..+...|..    .+
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            566777777777766654   44455555555555    566777777776666553   44555556666655    55


Q ss_pred             cHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHc----CCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHc----cCCh
Q 046446           81 YIVESVELFRTLRILKCELDIQAYSCLIDGLCK----SGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYN----DGQM  152 (244)
Q Consensus        81 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~~~~  152 (244)
                      +.++|.+.|++..+.+   +...+..+...|..    .+++++|...|++..+.+   +...+..+...|..    .+++
T Consensus       166 d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~  239 (490)
T 2xm6_A          166 DYVMAREWYSKAAEQG---NVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDY  239 (490)
T ss_dssp             CHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCH
T ss_pred             CHHHHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCH
Confidence            6666666666665543   44555555555555    566666666666655543   34445555555543    5556


Q ss_pred             HHHHHHHHHHHHcCCCCcHhHHHHHHHHHHh----cCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhc-----cccc
Q 046446          153 DKAHDLFLDMEENAVAPNVITFGTLIHGFIR----INEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKN-----EISL  223 (244)
Q Consensus       153 ~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----g~~~  223 (244)
                      ++|.++|+...+.|   +...+..+...+..    .+++++|..+|++..+.|   +...+..+...|...     ++.+
T Consensus       240 ~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~  313 (490)
T 2xm6_A          240 TQSRVLFSQSAEQG---NSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNRE  313 (490)
T ss_dssp             HHHHHHHHHHHTTT---CHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHH
T ss_pred             HHHHHHHHHHHHCC---CHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHH
Confidence            66666665555432   33344444444444    455555555555555443   233444444444444     4555


Q ss_pred             cchhhhhhhh
Q 046446          224 NSLPSFTVHE  233 (244)
Q Consensus       224 ~a~~~~~~~~  233 (244)
                      +|+..|+...
T Consensus       314 ~A~~~~~~a~  323 (490)
T 2xm6_A          314 QAISWYTKSA  323 (490)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            5555554443

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.51  E-value=2e-12  Score=99.82  Aligned_cols=227  Identities=10%  Similarity=0.010  Sum_probs=171.8

Q ss_pred             hhhhcCChhHHHHHHHHHHhCCC-CC----ChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCC-----CC-ChhHHHHHH
Q 046446            5 GYCKNKEIEGALNLYSEMLSKGI-KP----DVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGV-----AA-DTRTYTIFI   73 (244)
Q Consensus         5 ~~~~~~~~~~a~~~~~~~~~~~~-~~----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-----~~-~~~~~~~ll   73 (244)
                      .+...|++++|+..|++..+... .+    ...++..+...+...|+++.|...+++..+...     .+ ...+++.+.
T Consensus       110 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg  189 (378)
T 3q15_A          110 YEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFVIA  189 (378)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHH
T ss_pred             HHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHHHH
Confidence            45688999999999999886511 12    245778888999999999999999998876311     11 245788899


Q ss_pred             HHHHhCCcHHHHHHHHHHHHHh----CCC-ccHHhHHHHHHHHHcCCCHHHHHHHHHhccc-----CCccccHHHHHHHH
Q 046446           74 DGLCKNGYIVESVELFRTLRIL----KCE-LDIQAYSCLIDGLCKSGRLEIALELFHSLPR-----GVLVADVVTYSIMI  143 (244)
Q Consensus        74 ~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~~li  143 (244)
                      ..|...|++++|.+.+++..+.    +-+ ....++..+..+|...|++++|...+++...     .. +....++..+.
T Consensus       190 ~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~-~~~~~~~~~la  268 (378)
T 3q15_A          190 GNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVP-DLLPKVLFGLS  268 (378)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCG-GGHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCC-hhHHHHHHHHH
Confidence            9999999999999999987653    111 2245688899999999999999999998876     43 33477888999


Q ss_pred             HHHHccCChHHHHHHHHHHHHcCC----CCcHhHHHHHHHHHHhcCC---hhHHHHHHHHHHHCCCCC-ChhhHHHHHHH
Q 046446          144 HGLYNDGQMDKAHDLFLDMEENAV----APNVITFGTLIHGFIRINE---PSKVIELLHKMKEKNVMP-DASIVSIVVDL  215 (244)
Q Consensus       144 ~~~~~~~~~~~a~~~~~~~~~~~~----~p~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~  215 (244)
                      ..+.+.|++++|...++...+...    +.....+..+...+...++   +.+|...+++   .+..| ....+..+...
T Consensus       269 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~---~~~~~~~~~~~~~la~~  345 (378)
T 3q15_A          269 WTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEK---KNLHAYIEACARSAAAV  345 (378)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHH---TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHh---CCChhHHHHHHHHHHHH
Confidence            999999999999999999876422    2223445566666777788   6667766665   33222 34566789999


Q ss_pred             HHhccccccchhhhhhhhhh
Q 046446          216 LAKNEISLNSLPSFTVHERQ  235 (244)
Q Consensus       216 ~~~~g~~~~a~~~~~~~~~~  235 (244)
                      |.+.|++++|...|+.....
T Consensus       346 y~~~g~~~~A~~~~~~al~~  365 (378)
T 3q15_A          346 FESSCHFEQAAAFYRKVLKA  365 (378)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHH
Confidence            99999999999999877653

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.51  E-value=2.1e-13  Score=105.78  Aligned_cols=231  Identities=13%  Similarity=0.059  Sum_probs=170.8

Q ss_pred             hhhhhcCChhHHHHHHHHHHhCCCCCC----hhhHHHHHHHHhhhchHHHHHHHHHHHHHc----CCCC-ChhHHHHHHH
Q 046446            4 NGYCKNKEIEGALNLYSEMLSKGIKPD----VVIHNTLFIGLFEIHQVERAFKLFDEMQRD----GVAA-DTRTYTIFID   74 (244)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~~-~~~~~~~ll~   74 (244)
                      ..+...|++++|...|++..+.+ +.+    ...+..+...+...|++++|...+++....    +..| ...++..+..
T Consensus        17 ~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~   95 (406)
T 3sf4_A           17 ERLCKSGDCRAGVSFFEAAVQVG-TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGN   95 (406)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHH
Confidence            46778899999999999998863 223    356788888999999999999999987543    2222 2457788888


Q ss_pred             HHHhCCcHHHHHHHHHHHHHhCC-----CccHHhHHHHHHHHHcCCC--------------------HHHHHHHHHhccc
Q 046446           75 GLCKNGYIVESVELFRTLRILKC-----ELDIQAYSCLIDGLCKSGR--------------------LEIALELFHSLPR  129 (244)
Q Consensus        75 ~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~~~~~ll~~~~~~~~--------------------~~~a~~~~~~~~~  129 (244)
                      .+...|++++|...+++..+...     .....++..+...|...|+                    +++|...+++...
T Consensus        96 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~  175 (406)
T 3sf4_A           96 TLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLS  175 (406)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHHHHHHHHHH
Confidence            99999999999999988765321     1124478888889999999                    9999888877543


Q ss_pred             C----C-ccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCC-CCc----HhHHHHHHHHHHhcCChhHHHHHHHHHHH
Q 046446          130 G----V-LVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAV-APN----VITFGTLIHGFIRINEPSKVIELLHKMKE  199 (244)
Q Consensus       130 ~----~-~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~-~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  199 (244)
                      .    + .+....++..+...+...|++++|...+++..+... .++    ..++..+...+...|++++|...+++...
T Consensus       176 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  255 (406)
T 3sf4_A          176 LVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLL  255 (406)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence            2    1 122245778888889999999999999988764210 112    23677888888899999999999988764


Q ss_pred             C----CCCC-ChhhHHHHHHHHHhccccccchhhhhhhhhh
Q 046446          200 K----NVMP-DASIVSIVVDLLAKNEISLNSLPSFTVHERQ  235 (244)
Q Consensus       200 ~----~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  235 (244)
                      .    +-.+ ...++..+...|...|++++|...++.....
T Consensus       256 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  296 (406)
T 3sf4_A          256 LARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAI  296 (406)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHH
Confidence            3    1111 1457778888899999999998888876553

>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=99.50  E-value=9.9e-12  Score=89.06  Aligned_cols=173  Identities=12%  Similarity=0.009  Sum_probs=147.2

Q ss_pred             CChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHH
Q 046446           29 PDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLI  108 (244)
Q Consensus        29 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll  108 (244)
                      .++..+......+...|++++|+..|++..+...+++...+..+..++...|++++|++.+++..+.. +.+..+|..+.
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~   83 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKN-YNLANAYIGKS   83 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-CSHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhC-cchHHHHHHHH
Confidence            45678888889999999999999999999988654788888889999999999999999999999876 45788899999


Q ss_pred             HHHHcCCCHHHHHHHHHhcccCCccccH-------HHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCc---HhHHHHHH
Q 046446          109 DGLCKSGRLEIALELFHSLPRGVLVADV-------VTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPN---VITFGTLI  178 (244)
Q Consensus       109 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~---~~~~~~l~  178 (244)
                      .+|...|++++|...+++..+.. +.+.       ..|..+...+...|++++|.+.|+...+.  .|+   ...+..+.
T Consensus        84 ~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~l~  160 (228)
T 4i17_A           84 AAYRDMKNNQEYIATLTEGIKAV-PGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSKKWKTDALYSLG  160 (228)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHHHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCCcccHHHHHHHH
Confidence            99999999999999999988753 2234       56888999999999999999999998874  454   56777888


Q ss_pred             HHHHhcCCh---------------------------hHHHHHHHHHHHCCCCCChh
Q 046446          179 HGFIRINEP---------------------------SKVIELLHKMKEKNVMPDAS  207 (244)
Q Consensus       179 ~~~~~~g~~---------------------------~~a~~~~~~~~~~~~~~~~~  207 (244)
                      .++...|+.                           ++|...+++..+..  |+..
T Consensus       161 ~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~l~--p~~~  214 (228)
T 4i17_A          161 VLFYNNGADVLRKATPLASSNKEKYASEKAKADAAFKKAVDYLGEAVTLS--PNRT  214 (228)
T ss_dssp             HHHHHHHHHHHHHHGGGTTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHC--TTCH
T ss_pred             HHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcC--CCCH
Confidence            888888877                           89999999998864  5443

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.50  E-value=1.5e-13  Score=106.71  Aligned_cols=233  Identities=12%  Similarity=0.002  Sum_probs=176.0

Q ss_pred             hhhhhhcCChhHHHHHHHHHHhC----CCCC-ChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCC-CC----hhHHHHH
Q 046446            3 INGYCKNKEIEGALNLYSEMLSK----GIKP-DVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVA-AD----TRTYTIF   72 (244)
Q Consensus         3 i~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-~~----~~~~~~l   72 (244)
                      ...+...|++++|...+++....    +-.| ....+..+...+...|++++|...+++..+.... ++    ..++..+
T Consensus        54 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l  133 (406)
T 3sf4_A           54 GNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNL  133 (406)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHH
Confidence            45788899999999999987543    2122 2456788888999999999999999988654110 12    4478888


Q ss_pred             HHHHHhCCc--------------------HHHHHHHHHHHHHh----C-CCccHHhHHHHHHHHHcCCCHHHHHHHHHhc
Q 046446           73 IDGLCKNGY--------------------IVESVELFRTLRIL----K-CELDIQAYSCLIDGLCKSGRLEIALELFHSL  127 (244)
Q Consensus        73 l~~~~~~~~--------------------~~~a~~~~~~~~~~----~-~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~  127 (244)
                      ...+...|+                    +++|.+.+++..+.    + .+....++..+...|...|++++|...+++.
T Consensus       134 ~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a  213 (406)
T 3sf4_A          134 GNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQR  213 (406)
T ss_dssp             HHHHHHHHHTCC-------CCCCHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHH
T ss_pred             HHHHHHcCCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            999999999                    99999999887543    1 1223456888899999999999999999887


Q ss_pred             ccC----Cc-cccHHHHHHHHHHHHccCChHHHHHHHHHHHHcC----CCC-cHhHHHHHHHHHHhcCChhHHHHHHHHH
Q 046446          128 PRG----VL-VADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENA----VAP-NVITFGTLIHGFIRINEPSKVIELLHKM  197 (244)
Q Consensus       128 ~~~----~~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~----~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~  197 (244)
                      .+.    +. .....++..+...+...|++++|...++...+..    ..+ ...++..+...+...|++++|...+++.
T Consensus       214 l~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a  293 (406)
T 3sf4_A          214 LLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKH  293 (406)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHH
Confidence            643    11 1123478889999999999999999999876421    111 1457788889999999999999999987


Q ss_pred             HHCCC----CC-ChhhHHHHHHHHHhccccccchhhhhhhhhh
Q 046446          198 KEKNV----MP-DASIVSIVVDLLAKNEISLNSLPSFTVHERQ  235 (244)
Q Consensus       198 ~~~~~----~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  235 (244)
                      .+...    .+ ...++..+...|.+.|++++|...++...+.
T Consensus       294 ~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  336 (406)
T 3sf4_A          294 LAIAQELNDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEI  336 (406)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            75311    11 1557788999999999999999998876543

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.49  E-value=2.5e-13  Score=102.42  Aligned_cols=233  Identities=13%  Similarity=0.018  Sum_probs=175.9

Q ss_pred             hhhhhhcCChhHHHHHHHHHHhC----CCCC-ChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCC-CCC----hhHHHHH
Q 046446            3 INGYCKNKEIEGALNLYSEMLSK----GIKP-DVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGV-AAD----TRTYTIF   72 (244)
Q Consensus         3 i~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~~~----~~~~~~l   72 (244)
                      ...+...|++++|.+.+++....    +..| ....+..+...+...|++++|...+++..+... .++    ..++..+
T Consensus        50 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l  129 (338)
T 3ro2_A           50 GNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNL  129 (338)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHH
Confidence            45778899999999999987553    2122 255778888899999999999999998765411 112    3478888


Q ss_pred             HHHHHhCCc--------------------HHHHHHHHHHHHHh----C-CCccHHhHHHHHHHHHcCCCHHHHHHHHHhc
Q 046446           73 IDGLCKNGY--------------------IVESVELFRTLRIL----K-CELDIQAYSCLIDGLCKSGRLEIALELFHSL  127 (244)
Q Consensus        73 l~~~~~~~~--------------------~~~a~~~~~~~~~~----~-~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~  127 (244)
                      ...+...|+                    +++|.+.+++..+.    + .+....++..+...+...|++++|...+++.
T Consensus       130 ~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a  209 (338)
T 3ro2_A          130 GNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQR  209 (338)
T ss_dssp             HHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            899999999                    99999999886542    1 1223457888889999999999999999887


Q ss_pred             ccCC-----ccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCC-CCc----HhHHHHHHHHHHhcCChhHHHHHHHHH
Q 046446          128 PRGV-----LVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAV-APN----VITFGTLIHGFIRINEPSKVIELLHKM  197 (244)
Q Consensus       128 ~~~~-----~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~-~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~  197 (244)
                      .+..     ......++..+...+...|++++|...++...+... .++    ..++..+...+...|++++|...+++.
T Consensus       210 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a  289 (338)
T 3ro2_A          210 LLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKH  289 (338)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            6431     111234788889999999999999999998764211 011    456778888999999999999999987


Q ss_pred             HHCC-----CCCChhhHHHHHHHHHhccccccchhhhhhhhhh
Q 046446          198 KEKN-----VMPDASIVSIVVDLLAKNEISLNSLPSFTVHERQ  235 (244)
Q Consensus       198 ~~~~-----~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  235 (244)
                      ....     ......++..+...|.+.|++++|...++...+.
T Consensus       290 ~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  332 (338)
T 3ro2_A          290 LAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEI  332 (338)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHC
T ss_pred             HHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence            6531     1112457778999999999999999999877654

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.47  E-value=2.6e-11  Score=97.83  Aligned_cols=219  Identities=10%  Similarity=0.016  Sum_probs=168.8

Q ss_pred             hHHHHHHHHHHhCCCCCChhhHHHHHHHHhh-------hchHH-------HHHHHHHHHHHcCCCCChhHHHHHHHHHHh
Q 046446           13 EGALNLYSEMLSKGIKPDVVIHNTLFIGLFE-------IHQVE-------RAFKLFDEMQRDGVAADTRTYTIFIDGLCK   78 (244)
Q Consensus        13 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~-------~~~~~-------~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~   78 (244)
                      ++|..+|++..... +.+...|......+.+       .|+++       +|..+|++..+.-.+-+...|..++..+.+
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            36777888887752 4467788888887765       68876       899999998863233457889999999999


Q ss_pred             CCcHHHHHHHHHHHHHhCCCccH-HhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHH-HHccCChHHHH
Q 046446           79 NGYIVESVELFRTLRILKCELDI-QAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHG-LYNDGQMDKAH  156 (244)
Q Consensus        79 ~~~~~~a~~~~~~~~~~~~~~~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~-~~~~~~~~~a~  156 (244)
                      .|++++|.++|+++.+.. +.+. ..|..++..+.+.|++++|..+|++..+.. +.+...|...... +...|+.++|.
T Consensus       334 ~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~-~~~~~~~~~~a~~~~~~~~~~~~A~  411 (530)
T 2ooe_A          334 RMKYEKVHSIYNRLLAIE-DIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAF  411 (530)
T ss_dssp             TTCHHHHHHHHHHHHHSS-SSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCT-TCCTHHHHHHHHHHHHHTCCHHHHH
T ss_pred             cCCHHHHHHHHHHHhCcc-ccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhcc-CCchHHHHHHHHHHHHHcCChhHHH
Confidence            999999999999999853 2233 589999999999999999999999998763 2233333332222 33689999999


Q ss_pred             HHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCC-CCC--hhhHHHHHHHHHhccccccchhhhhhhh
Q 046446          157 DLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNV-MPD--ASIVSIVVDLLAKNEISLNSLPSFTVHE  233 (244)
Q Consensus       157 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~-~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~  233 (244)
                      .+|+...+.. +.+...|..++..+.+.|+.++|..+|++....+. .|+  ...|...+....+.|+.+.+..+++.+.
T Consensus       412 ~~~e~al~~~-p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~  490 (530)
T 2ooe_A          412 KIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRF  490 (530)
T ss_dssp             HHHHHHHHHH-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHC-CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            9999987653 23678899999999999999999999999998642 332  3477777888888999999888887765


Q ss_pred             hh
Q 046446          234 RQ  235 (244)
Q Consensus       234 ~~  235 (244)
                      +.
T Consensus       491 ~~  492 (530)
T 2ooe_A          491 TA  492 (530)
T ss_dssp             HH
T ss_pred             HH
Confidence            54

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.47  E-value=5.8e-12  Score=93.87  Aligned_cols=198  Identities=12%  Similarity=0.029  Sum_probs=142.7

Q ss_pred             HHHHHHHHhhhchHHHHHHHHHHHHHc----CCCCC-hhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCC---Cc--cHHh
Q 046446           34 HNTLFIGLFEIHQVERAFKLFDEMQRD----GVAAD-TRTYTIFIDGLCKNGYIVESVELFRTLRILKC---EL--DIQA  103 (244)
Q Consensus        34 ~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~---~~--~~~~  103 (244)
                      |......|...|++++|...|.+..+.    |.+++ ..+|+.+..+|.+.|++++|+..+++..+...   .+  -..+
T Consensus        40 ~~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~  119 (292)
T 1qqe_A           40 CVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANF  119 (292)
T ss_dssp             HHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            333456677889999999999887653    32222 56889999999999999999999998875421   11  1457


Q ss_pred             HHHHHHHHHcC-CCHHHHHHHHHhcccCC----ccc-cHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcH------
Q 046446          104 YSCLIDGLCKS-GRLEIALELFHSLPRGV----LVA-DVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNV------  171 (244)
Q Consensus       104 ~~~ll~~~~~~-~~~~~a~~~~~~~~~~~----~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~------  171 (244)
                      ++.+...|... |++++|...|++..+..    ..+ ...+++.+...+...|++++|...|+...+.......      
T Consensus       120 ~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  199 (292)
T 1qqe_A          120 KFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLK  199 (292)
T ss_dssp             HHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHH
T ss_pred             HHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHH
Confidence            88899999996 99999999999876531    011 1456888999999999999999999998875433222      


Q ss_pred             hHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCh------hhHHHHHHHHH--hccccccchhhhhhhh
Q 046446          172 ITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDA------SIVSIVVDLLA--KNEISLNSLPSFTVHE  233 (244)
Q Consensus       172 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~------~~~~~l~~~~~--~~g~~~~a~~~~~~~~  233 (244)
                      ..|..+..++...|++++|...+++..+.  .|+.      ..+..++.+|.  ..+++++|+..|+.+.
T Consensus       200 ~~~~~lg~~~~~~g~~~~A~~~~~~al~l--~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~  267 (292)
T 1qqe_A          200 DYFLKKGLCQLAATDAVAAARTLQEGQSE--DPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFM  267 (292)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHGGGCC-----------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSS
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCC
Confidence            15677778888999999999999998764  2321      23445566664  3456777777776543

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.44  E-value=2.1e-11  Score=96.62  Aligned_cols=192  Identities=10%  Similarity=-0.050  Sum_probs=100.9

Q ss_pred             hHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcC-----------
Q 046446           46 QVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKS-----------  114 (244)
Q Consensus        46 ~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~-----------  114 (244)
                      ++++|...+++..... +.+..++..+...|...|++++|...+++..+.. |.+..++..+..+|...           
T Consensus       228 ~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~y~~~~~~~~~~~~~~  305 (472)
T 4g1t_A          228 EEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYI-PNNAYLHCQIGCCYRAKVFQVMNLRENG  305 (472)
T ss_dssp             --CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHC----
T ss_pred             HHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC-CChHHHHHHHHHHHHHHHHHhhhHHHHH
Confidence            3444555555444432 2244445555555555566666666665555543 23344444444433211           


Q ss_pred             --------CCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHh--HHHHHHH-HHHh
Q 046446          115 --------GRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVI--TFGTLIH-GFIR  183 (244)
Q Consensus       115 --------~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~--~~~~l~~-~~~~  183 (244)
                              +..++|...++...... +.+..++..+...|...|++++|...|+...+....|...  .+..+.. ....
T Consensus       306 ~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~  384 (472)
T 4g1t_A          306 MYGKRKLLELIGHAVAHLKKADEAN-DNLFRVCSILASLHALADQYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQ  384 (472)
T ss_dssp             --CHHHHHHHHHHHHHHHHHHHHHC-TTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhhHHHHHHHHHHHhhcC-CchhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHH
Confidence                    12344444444444332 2234456777888889999999999999988754433221  2222222 2346


Q ss_pred             cCChhHHHHHHHHHHHCC-----------------------CCCChhhHHHHHHHHHhccccccchhhhhhhhhhhcccc
Q 046446          184 INEPSKVIELLHKMKEKN-----------------------VMPDASIVSIVVDLLAKNEISLNSLPSFTVHERQEEVDE  240 (244)
Q Consensus       184 ~g~~~~a~~~~~~~~~~~-----------------------~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  240 (244)
                      .|++++|+..|.+..+..                       -+.+..++..+..+|...|++++|++.|+...+.+...|
T Consensus       385 ~~~~~~Ai~~y~kal~i~~~~~~~~~~~~~l~~~~~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~~p  464 (472)
T 4g1t_A          385 MKCEDKAIHHFIEGVKINQKSREKEKMKDKLQKIAKMRLSKNGADSEALHVLAFLQELNEKMQQADEDSERGLESGSLIP  464 (472)
T ss_dssp             SSCHHHHHHHHHHHHHSCCCCHHHHHHHHHHHHHHHHHHHHCC-CTTHHHHHHHHHHHHHHCC-----------------
T ss_pred             CCCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCC
Confidence            789999999888776532                       123567888999999999999999999998877665444

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.44  E-value=2.9e-11  Score=88.46  Aligned_cols=197  Identities=9%  Similarity=-0.013  Sum_probs=142.9

Q ss_pred             CChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCC---hhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCC--CccHHh
Q 046446           29 PDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAAD---TRTYTIFIDGLCKNGYIVESVELFRTLRILKC--ELDIQA  103 (244)
Q Consensus        29 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~---~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~  103 (244)
                      .+...+......+.+.|++++|+..|+++.+.... +   ...+..+..++.+.|++++|...|++..+...  +....+
T Consensus        13 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a   91 (261)
T 3qky_A           13 SSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRT-HEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQA   91 (261)
T ss_dssp             SSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSC-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCC-CcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHH
Confidence            35566667777788889999999999988876322 3   56777888888899999999999998887631  123456


Q ss_pred             HHHHHHHHHc--------CCCHHHHHHHHHhcccCCccccHHHH-----------------HHHHHHHHccCChHHHHHH
Q 046446          104 YSCLIDGLCK--------SGRLEIALELFHSLPRGVLVADVVTY-----------------SIMIHGLYNDGQMDKAHDL  158 (244)
Q Consensus       104 ~~~ll~~~~~--------~~~~~~a~~~~~~~~~~~~~~~~~~~-----------------~~li~~~~~~~~~~~a~~~  158 (244)
                      +..+..++..        .|++++|...|+++.+.. +.+....                 ..+...|...|++++|...
T Consensus        92 ~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~  170 (261)
T 3qky_A           92 EYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY-PNHELVDDATQKIRELRAKLARKQYEAARLYERRELYEAAAVT  170 (261)
T ss_dssp             HHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC-TTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHC-cCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHH
Confidence            6777778877        889999999998887652 1122222                 5567889999999999999


Q ss_pred             HHHHHHcCCCC--cHhHHHHHHHHHHhc----------CChhHHHHHHHHHHHCCCCCCh----hhHHHHHHHHHhcccc
Q 046446          159 FLDMEENAVAP--NVITFGTLIHGFIRI----------NEPSKVIELLHKMKEKNVMPDA----SIVSIVVDLLAKNEIS  222 (244)
Q Consensus       159 ~~~~~~~~~~p--~~~~~~~l~~~~~~~----------g~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~g~~  222 (244)
                      |+.+.+.....  ....+..+..++...          |++++|...++++.+..  |+.    .....+-..+.+.++.
T Consensus       171 ~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~a~~~l~~~~~~~~~~  248 (261)
T 3qky_A          171 YEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIF--PDSPLLRTAEELYTRARQRLTEL  248 (261)
T ss_dssp             HHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHC--TTCTHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHC--CCChHHHHHHHHHHHHHHHHHHh
Confidence            99988753221  245677777788766          88899999999998763  443    3455566666667777


Q ss_pred             ccchhhh
Q 046446          223 LNSLPSF  229 (244)
Q Consensus       223 ~~a~~~~  229 (244)
                      +++....
T Consensus       249 ~~~~~~~  255 (261)
T 3qky_A          249 EGDASLA  255 (261)
T ss_dssp             HTCTTCC
T ss_pred             hhhhHHh
Confidence            6665543

>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=99.43  E-value=2.7e-11  Score=78.81  Aligned_cols=128  Identities=14%  Similarity=0.189  Sum_probs=67.8

Q ss_pred             HHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHc
Q 046446           34 HNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCK  113 (244)
Q Consensus        34 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~  113 (244)
                      |..+...+...|++++|..+++++.+.+ +.+...+..+...+...|++++|...++++.+.+ +.+...+..+...+..
T Consensus         4 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~   81 (136)
T 2fo7_A            4 WYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYK   81 (136)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHHHH
Confidence            4445555555566666666666555542 2244455555555555566666666666555543 3344455555555555


Q ss_pred             CCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHH
Q 046446          114 SGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEE  164 (244)
Q Consensus       114 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  164 (244)
                      .|++++|...++++.... +.+...+..+...+...|++++|...++.+.+
T Consensus        82 ~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  131 (136)
T 2fo7_A           82 QGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALE  131 (136)
T ss_dssp             TTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHHc
Confidence            555555555555554432 22344455555555555555555555555443

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.42  E-value=1.4e-10  Score=89.20  Aligned_cols=231  Identities=10%  Similarity=-0.055  Sum_probs=163.4

Q ss_pred             hhhhhcCChhHHHHHHHHHHhCCCCCChh----hHHHHHHHHhhhchHHHHHHHHHHHHHcCC-CCC----hhHHHHHHH
Q 046446            4 NGYCKNKEIEGALNLYSEMLSKGIKPDVV----IHNTLFIGLFEIHQVERAFKLFDEMQRDGV-AAD----TRTYTIFID   74 (244)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~~~----~~~~~~ll~   74 (244)
                      ..+...|++++|...+++........+..    .++.+...+...|++++|...+++...... .++    ..++..+..
T Consensus        22 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~  101 (373)
T 1hz4_A           22 QVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSE  101 (373)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence            34567899999999999988763222222    456666778889999999999998765311 112    233567788


Q ss_pred             HHHhCCcHHHHHHHHHHHHHh----CCC--c-cHHhHHHHHHHHHcCCCHHHHHHHHHhcccC----CccccHHHHHHHH
Q 046446           75 GLCKNGYIVESVELFRTLRIL----KCE--L-DIQAYSCLIDGLCKSGRLEIALELFHSLPRG----VLVADVVTYSIMI  143 (244)
Q Consensus        75 ~~~~~~~~~~a~~~~~~~~~~----~~~--~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~li  143 (244)
                      .+...|++++|.+.+++..+.    +.+  | ....+..+...+...|++++|...+++....    +......++..+.
T Consensus       102 ~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la  181 (373)
T 1hz4_A          102 ILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLI  181 (373)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHHH
Confidence            889999999999999987653    221  2 3445677888899999999999999886532    2111345678888


Q ss_pred             HHHHccCChHHHHHHHHHHHHcCCCCcH-hHHH-----HHHHHHHhcCChhHHHHHHHHHHHCCCCCC---hhhHHHHHH
Q 046446          144 HGLYNDGQMDKAHDLFLDMEENAVAPNV-ITFG-----TLIHGFIRINEPSKVIELLHKMKEKNVMPD---ASIVSIVVD  214 (244)
Q Consensus       144 ~~~~~~~~~~~a~~~~~~~~~~~~~p~~-~~~~-----~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~  214 (244)
                      ..+...|++++|...++........++. ..+.     ..+..+...|++++|...+++.......+.   ...+..+..
T Consensus       182 ~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la~  261 (373)
T 1hz4_A          182 QCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIAR  261 (373)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHHHHH
Confidence            8999999999999999987653212211 1122     233447789999999999988765432211   224567788


Q ss_pred             HHHhccccccchhhhhhhhh
Q 046446          215 LLAKNEISLNSLPSFTVHER  234 (244)
Q Consensus       215 ~~~~~g~~~~a~~~~~~~~~  234 (244)
                      .+...|++++|...++....
T Consensus       262 ~~~~~g~~~~A~~~l~~a~~  281 (373)
T 1hz4_A          262 AQILLGEFEPAEIVLEELNE  281 (373)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHH
Confidence            89999999999988887654

>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=99.41  E-value=3.3e-11  Score=78.44  Aligned_cols=130  Identities=16%  Similarity=0.202  Sum_probs=105.1

Q ss_pred             HHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHH
Q 046446           68 TYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLY  147 (244)
Q Consensus        68 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  147 (244)
                      .+..+...+...|++++|..+++++.+.. +.+...+..+...+...|++++|...++++...+ +.+...+..+...+.
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~   80 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYY   80 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHHH
Confidence            56677888888899999999999888765 4567778888888888899999999998887654 345777888888888


Q ss_pred             ccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 046446          148 NDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEK  200 (244)
Q Consensus       148 ~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  200 (244)
                      ..|++++|.+.++.+.+.. +.+...+..+...+...|++++|...++++...
T Consensus        81 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  132 (136)
T 2fo7_A           81 KQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL  132 (136)
T ss_dssp             TTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHHcc
Confidence            9999999999998887753 235677778888888889999998888887764

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.38  E-value=1.8e-10  Score=92.85  Aligned_cols=188  Identities=11%  Similarity=0.053  Sum_probs=150.2

Q ss_pred             cCChh-------HHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCC-h-hHHHHHHHHHHhC
Q 046446            9 NKEIE-------GALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAAD-T-RTYTIFIDGLCKN   79 (244)
Q Consensus         9 ~~~~~-------~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~-~~~~~ll~~~~~~   79 (244)
                      .|+++       +|..+|++..+.-.+.+...|..++..+.+.|++++|..+|+++.+.  .|+ . ..|...+..+.+.
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            68887       89999999987322446778999999999999999999999999985  454 2 4788899999999


Q ss_pred             CcHHHHHHHHHHHHHhCCCccHHhHHHHHHH-HHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHH
Q 046446           80 GYIVESVELFRTLRILKCELDIQAYSCLIDG-LCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDL  158 (244)
Q Consensus        80 ~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~  158 (244)
                      |++++|.++|++..+.. +.+...|...... +...|+.++|..+|+...+.. +.+...|..++..+.+.|+.++|..+
T Consensus       370 ~~~~~A~~~~~~Al~~~-~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~-p~~~~~~~~~~~~~~~~g~~~~Ar~~  447 (530)
T 2ooe_A          370 EGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVL  447 (530)
T ss_dssp             HHHHHHHHHHHHHHTCT-TCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHTTTTCHHHHHHH
T ss_pred             cCHHHHHHHHHHHHhcc-CCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhCCCHhhHHHH
Confidence            99999999999998753 2333333332222 346899999999999987653 34688999999999999999999999


Q ss_pred             HHHHHHcCC-CCc--HhHHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 046446          159 FLDMEENAV-APN--VITFGTLIHGFIRINEPSKVIELLHKMKEK  200 (244)
Q Consensus       159 ~~~~~~~~~-~p~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  200 (244)
                      |+.....+. .|+  ...|...+......|+.+.+..++.++.+.
T Consensus       448 ~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~~~  492 (530)
T 2ooe_A          448 FERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  492 (530)
T ss_dssp             HHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHH
T ss_pred             HHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            999987642 232  447888888888899999999999998764

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.38  E-value=6.6e-11  Score=83.66  Aligned_cols=105  Identities=9%  Similarity=0.118  Sum_probs=55.2

Q ss_pred             hhhhcCChhHHHHHHHHHHhCCCCCC-hhhHHH----------------HHHHHhhhchHHHHHHHHHHHHHcCCCCChh
Q 046446            5 GYCKNKEIEGALNLYSEMLSKGIKPD-VVIHNT----------------LFIGLFEIHQVERAFKLFDEMQRDGVAADTR   67 (244)
Q Consensus         5 ~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~----------------li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~   67 (244)
                      .+.+.|++++|+..|++..+.  .|+ ...|..                +..++.+.|++++|+..|++..+.. +-+..
T Consensus        13 ~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~   89 (208)
T 3urz_A           13 AAIEAGQNGQAVSYFRQTIAL--NIDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQKA-PNNVD   89 (208)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH--CHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHh--CCCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHH
Confidence            456778888888888887775  343 333444                4444455555555555555554432 11344


Q ss_pred             HHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHc
Q 046446           68 TYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCK  113 (244)
Q Consensus        68 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~  113 (244)
                      .+..+..++...|++++|.+.|++..+.. |.+..++..+..+|..
T Consensus        90 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~  134 (208)
T 3urz_A           90 CLEACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYYYL  134 (208)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHH
Confidence            44455555555555555555555554443 2344444444444433

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=99.37  E-value=4e-10  Score=79.90  Aligned_cols=178  Identities=12%  Similarity=-0.016  Sum_probs=145.5

Q ss_pred             hHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCC----cHHHHHHH
Q 046446           13 EGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNG----YIVESVEL   88 (244)
Q Consensus        13 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~----~~~~a~~~   88 (244)
                      .+|.+.|++..+.|   ++..+..+...|...+++++|..+|++..+.|   ++..+..|...|.. +    ++++|.+.
T Consensus         3 ~eA~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~   75 (212)
T 3rjv_A            3 TEPGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQL   75 (212)
T ss_dssp             -CTTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHH
T ss_pred             chHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHH
Confidence            45788888888875   77788888888989999999999999998875   66788888888887 6    89999999


Q ss_pred             HHHHHHhCCCccHHhHHHHHHHHHc----CCCHHHHHHHHHhcccCCcc-ccHHHHHHHHHHHHc----cCChHHHHHHH
Q 046446           89 FRTLRILKCELDIQAYSCLIDGLCK----SGRLEIALELFHSLPRGVLV-ADVVTYSIMIHGLYN----DGQMDKAHDLF  159 (244)
Q Consensus        89 ~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~-~~~~~~~~li~~~~~----~~~~~~a~~~~  159 (244)
                      |++..+.|   +..++..|...|..    .+++++|...|++..+.+.. .+...+..|...|..    .+++++|...|
T Consensus        76 ~~~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~  152 (212)
T 3rjv_A           76 AEKAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYF  152 (212)
T ss_dssp             HHHHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHH
T ss_pred             HHHHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHH
Confidence            99998765   56778888888887    88999999999999988621 127788888888888    88999999999


Q ss_pred             HHHHHcCCCCcHhHHHHHHHHHHhc-C-----ChhHHHHHHHHHHHCCC
Q 046446          160 LDMEENAVAPNVITFGTLIHGFIRI-N-----EPSKVIELLHKMKEKNV  202 (244)
Q Consensus       160 ~~~~~~~~~p~~~~~~~l~~~~~~~-g-----~~~~a~~~~~~~~~~~~  202 (244)
                      +...+.  ..+...+..+...|... |     ++++|..+|++..+.|.
T Consensus       153 ~~A~~~--~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~  199 (212)
T 3rjv_A          153 KGSSSL--SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGF  199 (212)
T ss_dssp             HHHHHT--SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHc--CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCC
Confidence            998876  23455677777777643 3     89999999999988874

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.37  E-value=2.1e-11  Score=94.21  Aligned_cols=196  Identities=10%  Similarity=-0.066  Sum_probs=149.1

Q ss_pred             HHHHHhhhchHHHHHHHHHHHHHc----CCCC-ChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhC--C----CccHHhHH
Q 046446           37 LFIGLFEIHQVERAFKLFDEMQRD----GVAA-DTRTYTIFIDGLCKNGYIVESVELFRTLRILK--C----ELDIQAYS  105 (244)
Q Consensus        37 li~~~~~~~~~~~a~~~~~~m~~~----~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~--~----~~~~~~~~  105 (244)
                      ....+...|++++|...|++..+.    +..+ ...++..+...|...|+++.|...+++..+..  .    +....+++
T Consensus       109 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  188 (383)
T 3ulq_A          109 RGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHS  188 (383)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHH
Confidence            456677889999999999998764    1112 34678899999999999999999999887641  1    12245788


Q ss_pred             HHHHHHHcCCCHHHHHHHHHhcccC----C-ccccHHHHHHHHHHHHccCChHHHHHHHHHHHHc----CC-CCcHhHHH
Q 046446          106 CLIDGLCKSGRLEIALELFHSLPRG----V-LVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEEN----AV-APNVITFG  175 (244)
Q Consensus       106 ~ll~~~~~~~~~~~a~~~~~~~~~~----~-~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~-~p~~~~~~  175 (244)
                      .+...|...|++++|...+++..+.    + ......++..+...|...|++++|.+.+++..+.    +. +....++.
T Consensus       189 ~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  268 (383)
T 3ulq_A          189 LFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYF  268 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHH
Confidence            8999999999999999999887643    1 1112357888999999999999999999987762    23 33466788


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHC----CCCCChhhHHHHHHHHHhccc---cccchhhhhhh
Q 046446          176 TLIHGFIRINEPSKVIELLHKMKEK----NVMPDASIVSIVVDLLAKNEI---SLNSLPSFTVH  232 (244)
Q Consensus       176 ~l~~~~~~~g~~~~a~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~g~---~~~a~~~~~~~  232 (244)
                      .+...+...|++++|...+++..+.    +-+.....+..+...|...|+   .++|+.+++..
T Consensus       269 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~  332 (383)
T 3ulq_A          269 LITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK  332 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC
Confidence            8999999999999999999987753    111122335677888888888   67777777655

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.36  E-value=7.6e-11  Score=83.34  Aligned_cols=174  Identities=10%  Similarity=0.022  Sum_probs=128.9

Q ss_pred             hHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHH----------------HHHHHHhCCcHHHHHHHHHHHHHhC
Q 046446           33 IHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTI----------------FIDGLCKNGYIVESVELFRTLRILK   96 (244)
Q Consensus        33 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~----------------ll~~~~~~~~~~~a~~~~~~~~~~~   96 (244)
                      .+-.....+...|++++|+..|++..+.... +...+..                +..++.+.|++++|+..|++..+..
T Consensus         6 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~   84 (208)
T 3urz_A            6 EMLQKVSAAIEAGQNGQAVSYFRQTIALNID-RTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQKA   84 (208)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCHH-HHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-ChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC
Confidence            3344455677889999999999999886321 4456666                8899999999999999999999886


Q ss_pred             CCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCC--hHHHHHHHHHHHHcCCCCcHhHH
Q 046446           97 CELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQ--MDKAHDLFLDMEENAVAPNVITF  174 (244)
Q Consensus        97 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~--~~~a~~~~~~~~~~~~~p~~~~~  174 (244)
                       |.+...+..+..++...|++++|...|++..+.. +.+..+|..+..+|...|+  .+.+...+.....  ..|....+
T Consensus        85 -p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~a~  160 (208)
T 3urz_A           85 -PNNVDCLEACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYYYLTAEQEKKKLETDYKKLSS--PTKMQYAR  160 (208)
T ss_dssp             -TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHC---C--CCHHHHHH
T ss_pred             -CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhC--CCchhHHH
Confidence             5678899999999999999999999999998764 4467888888888866554  3445555555432  22333334


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHH
Q 046446          175 GTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVV  213 (244)
Q Consensus       175 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~  213 (244)
                      .....++...|++++|...|++..+.  .|+......+.
T Consensus       161 ~~~g~~~~~~~~~~~A~~~~~~al~l--~P~~~~~~~l~  197 (208)
T 3urz_A          161 YRDGLSKLFTTRYEKARNSLQKVILR--FPSTEAQKTLD  197 (208)
T ss_dssp             HHHHHHHHHHHTHHHHHHHHHHHTTT--SCCHHHHHHHH
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHh--CCCHHHHHHHH
Confidence            44555667789999999999998875  57765444433

>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=99.36  E-value=1.2e-11  Score=102.60  Aligned_cols=173  Identities=8%  Similarity=-0.054  Sum_probs=142.5

Q ss_pred             hhcCChhHHHHHHHHHH--------hCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHh
Q 046446            7 CKNKEIEGALNLYSEML--------SKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCK   78 (244)
Q Consensus         7 ~~~~~~~~a~~~~~~~~--------~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~   78 (244)
                      ...|++++|++.+++..        +.. +.+...+..+...+...|++++|+..|++..+.. +-+...|..+..++..
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~  479 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDF-SESVELPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAELL  479 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CC-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhccccccccc-ccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHHH
Confidence            56799999999999998        432 4456778888899999999999999999998863 3367889999999999


Q ss_pred             CCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHH
Q 046446           79 NGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDL  158 (244)
Q Consensus        79 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~  158 (244)
                      .|++++|.+.|++..+.. +.+...|..+..+|...|++++ ...|++..+.+ +.+...|..+..++.+.|++++|.+.
T Consensus       480 ~g~~~~A~~~~~~al~l~-P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~  556 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLDTF-PGELAPKLALAATAELAGNTDE-HKFYQTVWSTN-DGVISAAFGLARARSAEGDRVGAVRT  556 (681)
T ss_dssp             HTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhC-CchHHHHHHHHHHHHHcCCHHHHHHH
Confidence            999999999999999876 5678889999999999999999 99999988764 44678899999999999999999999


Q ss_pred             HHHHHHcCCCCc-HhHHHHHHHHHHhcCC
Q 046446          159 FLDMEENAVAPN-VITFGTLIHGFIRINE  186 (244)
Q Consensus       159 ~~~~~~~~~~p~-~~~~~~l~~~~~~~g~  186 (244)
                      |+...+.  .|+ ...+..+..++...++
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            9988764  344 5667777777766554

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.35  E-value=4e-10  Score=89.34  Aligned_cols=125  Identities=9%  Similarity=-0.125  Sum_probs=78.8

Q ss_pred             hhhhhhcCChhHHHHHHHHHHhC--------CCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHc-----C-CCC-Chh
Q 046446            3 INGYCKNKEIEGALNLYSEMLSK--------GIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRD-----G-VAA-DTR   67 (244)
Q Consensus         3 i~~~~~~~~~~~a~~~~~~~~~~--------~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----~-~~~-~~~   67 (244)
                      -..+...|++++|++.|++..+.        ..+....+|+.+..+|...|++++|...+++..+.     + ..+ ...
T Consensus        58 g~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~~~~~~~~~  137 (472)
T 4g1t_A           58 AYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSSPYRIESPE  137 (472)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCSSCCCCHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcccccchhhHH
Confidence            34567789999999999887542        11234567888899999999999999999887642     1 111 245


Q ss_pred             HHHHHHHHHHh--CCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHH---HcCCCHHHHHHHHHhcc
Q 046446           68 TYTIFIDGLCK--NGYIVESVELFRTLRILKCELDIQAYSCLIDGL---CKSGRLEIALELFHSLP  128 (244)
Q Consensus        68 ~~~~ll~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~---~~~~~~~~a~~~~~~~~  128 (244)
                      ++..+..++..  .+++++|++.|++..+.. |-+...+..+..++   ...++.++|++.+++..
T Consensus       138 ~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~-p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al  202 (472)
T 4g1t_A          138 LDCEEGWTRLKCGGNQNERAKVCFEKALEKK-PKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAI  202 (472)
T ss_dssp             HHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHH
T ss_pred             HHHHHHHHHHHHccccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHh
Confidence            56655555544  457889999998887664 33444444443332   23344444555544443

>1xi4_A Clathrin heavy chain; alpha-ZIG-ZAG, beta-propeller, endocytosis-exocyto complex; 7.90A {Bos taurus} SCOP: i.23.1.1 PDB: 1xi5_A 3iyv_A

Probab=99.35  E-value=2.8e-10  Score=98.35  Aligned_cols=195  Identities=14%  Similarity=0.171  Sum_probs=105.0

Q ss_pred             hcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHH
Q 046446            8 KNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVE   87 (244)
Q Consensus         8 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~   87 (244)
                      ..|++++|.++.++.      -+..+|..+..++...|++++|++.|.+.      -|...|..++.++.+.|++++|.+
T Consensus      1088 ~i~nldrAiE~Aerv------n~p~vWsqLAKAql~~G~~kEAIdsYiKA------dD~say~eVa~~~~~lGkyEEAIe 1155 (1630)
T 1xi4_A         1088 HIGNLDRAYEFAERC------NEPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVK 1155 (1630)
T ss_pred             HHhhHHHHHHHHHhc------CCHHHHHHHHHHHHhCCCHHHHHHHHHhc------CChHHHHHHHHHHHHcCCHHHHHH
Confidence            456666666666543      23556666666666677777777666442      255666666667777777777777


Q ss_pred             HHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCC
Q 046446           88 LFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAV  167 (244)
Q Consensus        88 ~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~  167 (244)
                      .+...++..  ++....+.++.+|++.+++++...+.    +   .++...|..+...|...|++++|..+|...     
T Consensus      1156 yL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI----~---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA----- 1221 (1630)
T 1xi4_A         1156 YLQMARKKA--RESYVETELIFALAKTNRLAELEEFI----N---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV----- 1221 (1630)
T ss_pred             HHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH----h---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh-----
Confidence            666555433  22222233555555555555333222    1   123334444444445555555555555442     


Q ss_pred             CCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHC------------------------CCCCChhhHHHHHHHHHhccccc
Q 046446          168 APNVITFGTLIHGFIRINEPSKVIELLHKMKEK------------------------NVMPDASIVSIVVDLLAKNEISL  223 (244)
Q Consensus       168 ~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~------------------------~~~~~~~~~~~l~~~~~~~g~~~  223 (244)
                          ..|..+..++.+.|++++|.+.+++....                        ++..+...+..++..|.+.|.++
T Consensus      1222 ----~ny~rLA~tLvkLge~q~AIEaarKA~n~~aWkev~~acve~~Ef~LA~~cgl~Iiv~~deLeeli~yYe~~G~fe 1297 (1630)
T 1xi4_A         1222 ----SNFGRLASTLVHLGEYQAAVDGARKANSTRTWKEVCFACVDGKEFRLAQMCGLHIVVHADELEELINYYQDRGYFE 1297 (1630)
T ss_pred             ----hHHHHHHHHHHHhCCHHHHHHHHHHhCCHHHHHHHHHHHhhhhHHHHHHHHHHhhhcCHHHHHHHHHHHHHcCCHH
Confidence                13444444444444444444444332110                        12234556667777788888888


Q ss_pred             cchhhhhhh
Q 046446          224 NSLPSFTVH  232 (244)
Q Consensus       224 ~a~~~~~~~  232 (244)
                      +|+.+++..
T Consensus      1298 EAI~LlE~a 1306 (1630)
T 1xi4_A         1298 ELITMLEAA 1306 (1630)
T ss_pred             HHHHHHHHH
Confidence            888777654

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.35  E-value=1.5e-10  Score=85.61  Aligned_cols=178  Identities=7%  Similarity=0.034  Sum_probs=92.5

Q ss_pred             HHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCC-CccHHhHHHHHHHHHcCCCHHHHHHHHHhcc
Q 046446           50 AFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKC-ELDIQAYSCLIDGLCKSGRLEIALELFHSLP  128 (244)
Q Consensus        50 a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  128 (244)
                      ++..|++....+ .++..++..+..++...|++++|++++.+....+. .-+...+..++..+.+.|+.+.|.+.+++|.
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            555555555443 33444445666666666666666666666554431 1355556666666666666666666666665


Q ss_pred             cCCccc-----cHHHHHHHHHHHH--c--cCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHH
Q 046446          129 RGVLVA-----DVVTYSIMIHGLY--N--DGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKE  199 (244)
Q Consensus       129 ~~~~~~-----~~~~~~~li~~~~--~--~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  199 (244)
                      +.  .|     +..+...++.++.  .  .++..+|..+|+++.+.  .|+..+-..++.++.+.|++++|.+.++.+.+
T Consensus       164 ~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~  239 (310)
T 3mv2_B          164 NA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVELLLS  239 (310)
T ss_dssp             HH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHS
T ss_pred             hc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            54  33     2344444444422  2  22666666666666543  23322223333356666666666666665443


Q ss_pred             C-----CC----CCChhhHHHHHHHHHhccccccchhhhhhhhh
Q 046446          200 K-----NV----MPDASIVSIVVDLLAKNEISLNSLPSFTVHER  234 (244)
Q Consensus       200 ~-----~~----~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  234 (244)
                      .     +.    +-+..++..+|......|+  ++.++++++.+
T Consensus       240 ~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~  281 (310)
T 3mv2_B          240 DYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVK  281 (310)
T ss_dssp             HHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHH
T ss_pred             hcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHH
Confidence            2     00    1244444344444444454  55555555443

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.35  E-value=1.1e-10  Score=85.34  Aligned_cols=160  Identities=7%  Similarity=-0.049  Sum_probs=127.3

Q ss_pred             hhhhhcCChhHHHHHHHHHHhCCCCCC---hhhHHHHHHHHhhhchHHHHHHHHHHHHHcCC-CC-ChhHHHHHHHHHHh
Q 046446            4 NGYCKNKEIEGALNLYSEMLSKGIKPD---VVIHNTLFIGLFEIHQVERAFKLFDEMQRDGV-AA-DTRTYTIFIDGLCK   78 (244)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~~-~~~~~~~ll~~~~~   78 (244)
                      ..+.+.|++++|+..|+.+.+.. +.+   ...+..+..++...|++++|+..|++..+... .| ...++..+..++..
T Consensus        23 ~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~  101 (261)
T 3qky_A           23 MEFYNQGKYDRAIEYFKAVFTYG-RTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEYERAMCYYK  101 (261)
T ss_dssp             HHHHHTTCHHHHHHHHHHHGGGC-SCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHHhC-CCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHHHHHHHHHH
Confidence            46778999999999999999863 223   56788888999999999999999999988632 12 24567788888888


Q ss_pred             --------CCcHHHHHHHHHHHHHhCCCccHHhH-----------------HHHHHHHHcCCCHHHHHHHHHhcccCCc-
Q 046446           79 --------NGYIVESVELFRTLRILKCELDIQAY-----------------SCLIDGLCKSGRLEIALELFHSLPRGVL-  132 (244)
Q Consensus        79 --------~~~~~~a~~~~~~~~~~~~~~~~~~~-----------------~~ll~~~~~~~~~~~a~~~~~~~~~~~~-  132 (244)
                              .|++++|...|+++.+.. |.+....                 ..+...|...|++++|...|+++.+... 
T Consensus       102 ~~~~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~  180 (261)
T 3qky_A          102 LSPPYELDQTDTRKAIEAFQLFIDRY-PNHELVDDATQKIRELRAKLARKQYEAARLYERRELYEAAAVTYEAVFDAYPD  180 (261)
T ss_dssp             HCCCTTSCCHHHHHHHHHHHHHHHHC-TTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             hcccccccchhHHHHHHHHHHHHHHC-cCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCC
Confidence                    999999999999998864 3333333                 4568889999999999999999876531 


Q ss_pred             -cccHHHHHHHHHHHHcc----------CChHHHHHHHHHHHHc
Q 046446          133 -VADVVTYSIMIHGLYND----------GQMDKAHDLFLDMEEN  165 (244)
Q Consensus       133 -~~~~~~~~~li~~~~~~----------~~~~~a~~~~~~~~~~  165 (244)
                       ......+..+..+|...          |++++|...|+.+.+.
T Consensus       181 ~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~  224 (261)
T 3qky_A          181 TPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQI  224 (261)
T ss_dssp             STTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHH
T ss_pred             CchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHH
Confidence             11345777888888766          8899999999998875

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.35  E-value=8e-11  Score=90.57  Aligned_cols=231  Identities=12%  Similarity=0.007  Sum_probs=164.4

Q ss_pred             hhhhhcCChhHHHHHHHHHHhCCC-CCC----hhhHHHHHHHHhhhchHHHHHHHHHHHHHc----CCC--C-ChhHHHH
Q 046446            4 NGYCKNKEIEGALNLYSEMLSKGI-KPD----VVIHNTLFIGLFEIHQVERAFKLFDEMQRD----GVA--A-DTRTYTI   71 (244)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~--~-~~~~~~~   71 (244)
                      ..+...|++++|...+++...... .++    ..++..+...+...|++++|...+++..+.    +..  | ...++..
T Consensus        61 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~  140 (373)
T 1hz4_A           61 EVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRI  140 (373)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHH
T ss_pred             HHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHH
Confidence            456788999999999998765310 111    223566777888999999999999988653    222  2 2345677


Q ss_pred             HHHHHHhCCcHHHHHHHHHHHHHhCCC----ccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccc-cHHHHH-----H
Q 046446           72 FIDGLCKNGYIVESVELFRTLRILKCE----LDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVA-DVVTYS-----I  141 (244)
Q Consensus        72 ll~~~~~~~~~~~a~~~~~~~~~~~~~----~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~-----~  141 (244)
                      +...+...|++++|...+++.......    ....++..+...+...|++++|...+++.......+ ....+.     .
T Consensus       141 la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~  220 (373)
T 1hz4_A          141 RAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKV  220 (373)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHH
Confidence            888999999999999999998764321    123567788889999999999999999875321011 111222     2


Q ss_pred             HHHHHHccCChHHHHHHHHHHHHcCCCC---cHhHHHHHHHHHHhcCChhHHHHHHHHHHHC----CCCCCh-hhHHHHH
Q 046446          142 MIHGLYNDGQMDKAHDLFLDMEENAVAP---NVITFGTLIHGFIRINEPSKVIELLHKMKEK----NVMPDA-SIVSIVV  213 (244)
Q Consensus       142 li~~~~~~~~~~~a~~~~~~~~~~~~~p---~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~~~~~~-~~~~~l~  213 (244)
                      .+..+...|++++|...++........+   ....+..+...+...|++++|...+++....    |..++. ..+..+.
T Consensus       221 ~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la  300 (373)
T 1hz4_A          221 RVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLN  300 (373)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHH
Confidence            3345778999999999998876543221   1234567778889999999999999987643    222222 3666778


Q ss_pred             HHHHhccccccchhhhhhhhh
Q 046446          214 DLLAKNEISLNSLPSFTVHER  234 (244)
Q Consensus       214 ~~~~~~g~~~~a~~~~~~~~~  234 (244)
                      .++...|+.++|...++....
T Consensus       301 ~~~~~~g~~~~A~~~l~~al~  321 (373)
T 1hz4_A          301 QLYWQAGRKSDAQRVLLDALK  321 (373)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHH
Confidence            889999999999988876654

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.34  E-value=4.8e-11  Score=88.91  Aligned_cols=193  Identities=9%  Similarity=-0.016  Sum_probs=140.3

Q ss_pred             hhhhhcCChhHHHHHHHHHHhC----CCCCC-hhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCC---C--ChhHHHHHH
Q 046446            4 NGYCKNKEIEGALNLYSEMLSK----GIKPD-VVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVA---A--DTRTYTIFI   73 (244)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~---~--~~~~~~~ll   73 (244)
                      ..|...|++++|...|++....    |-+++ ..+|+.+...|...|++++|+..|++..+....   +  -..+++.+.
T Consensus        45 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg  124 (292)
T 1qqe_A           45 TIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELG  124 (292)
T ss_dssp             HHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4577789999999999887653    32222 468899999999999999999999988764111   1  145788999


Q ss_pred             HHHHhC-CcHHHHHHHHHHHHHhCCC---c--cHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccH------HHHHH
Q 046446           74 DGLCKN-GYIVESVELFRTLRILKCE---L--DIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADV------VTYSI  141 (244)
Q Consensus        74 ~~~~~~-~~~~~a~~~~~~~~~~~~~---~--~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~  141 (244)
                      ..|... |++++|+..|++..+....   +  ...++..+...+...|++++|...|++..........      ..|..
T Consensus       125 ~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~  204 (292)
T 1qqe_A          125 EILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLK  204 (292)
T ss_dssp             HHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHH
T ss_pred             HHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHH
Confidence            999996 9999999999998764211   1  1356888999999999999999999998765322111      25778


Q ss_pred             HHHHHHccCChHHHHHHHHHHHHcCCCCcH------hHHHHHHHHHH--hcCChhHHHHHHHHHH
Q 046446          142 MIHGLYNDGQMDKAHDLFLDMEENAVAPNV------ITFGTLIHGFI--RINEPSKVIELLHKMK  198 (244)
Q Consensus       142 li~~~~~~~~~~~a~~~~~~~~~~~~~p~~------~~~~~l~~~~~--~~g~~~~a~~~~~~~~  198 (244)
                      +..++...|++++|...|+...+.  .|+.      ..+..++.++.  ..+++++|...|+.+.
T Consensus       205 lg~~~~~~g~~~~A~~~~~~al~l--~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~  267 (292)
T 1qqe_A          205 KGLCQLAATDAVAAARTLQEGQSE--DPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFM  267 (292)
T ss_dssp             HHHHHHHTTCHHHHHHHHHGGGCC-----------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSS
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhh--CCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCC
Confidence            888899999999999999987753  2331      13444555554  3456777777776543

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.34  E-value=3.4e-10  Score=83.80  Aligned_cols=183  Identities=8%  Similarity=0.022  Sum_probs=132.3

Q ss_pred             HHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCC-CCChhHHHHHHHHHHhCCcHHHHHHHHHHHH
Q 046446           15 ALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGV-AADTRTYTIFIDGLCKNGYIVESVELFRTLR   93 (244)
Q Consensus        15 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~   93 (244)
                      |+..|++....+ .++...+..+..++...|++++|++++.+....|. .-+...+..++..+.+.|+.+.|.+.+++|.
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            566666666554 45666667888888899999999999998866653 2256677788899999999999999999998


Q ss_pred             HhCCCc-----cHHhHHHHHHH--HHcCC--CHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHH
Q 046446           94 ILKCEL-----DIQAYSCLIDG--LCKSG--RLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEE  164 (244)
Q Consensus        94 ~~~~~~-----~~~~~~~ll~~--~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  164 (244)
                      +.  .|     +..+...+..+  ....|  ++.+|..+|+++.+.  .|+..+-..++.++.+.|++++|.+.++.+.+
T Consensus       164 ~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~  239 (310)
T 3mv2_B          164 NA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVELLLS  239 (310)
T ss_dssp             HH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHS
T ss_pred             hc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            76  45     35555555555  33334  899999999998776  45534444555588899999999999987664


Q ss_pred             cC---------CCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCh
Q 046446          165 NA---------VAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDA  206 (244)
Q Consensus       165 ~~---------~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  206 (244)
                      ..         -+-++.+...++......|+  .|.+++.++.+..  |+.
T Consensus       240 ~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~--P~h  286 (310)
T 3mv2_B          240 DYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLD--HEH  286 (310)
T ss_dssp             HHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTT--CCC
T ss_pred             hcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhC--CCC
Confidence            31         13366777566666666776  7889999988864  554

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=99.32  E-value=6.8e-11  Score=98.10  Aligned_cols=173  Identities=8%  Similarity=0.003  Sum_probs=144.1

Q ss_pred             hhhchHHHHHHHHHHHH--------HcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHc
Q 046446           42 FEIHQVERAFKLFDEMQ--------RDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCK  113 (244)
Q Consensus        42 ~~~~~~~~a~~~~~~m~--------~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~  113 (244)
                      ...|++++|++.+++..        +. .+.+...+..+..++.+.|++++|++.|++..+.. +.+...|..+..+|..
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~-~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~  479 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVD-FSESVELPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAELL  479 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------C-CTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccc-cccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHHH
Confidence            67899999999999988        43 23466788899999999999999999999999876 5678899999999999


Q ss_pred             CCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHH
Q 046446          114 SGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIEL  193 (244)
Q Consensus       114 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~  193 (244)
                      .|++++|...|++..+.. +-+...|..+..++...|++++ .+.|+...+... .+...|..+..++.+.|++++|...
T Consensus       480 ~g~~~~A~~~~~~al~l~-P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P-~~~~a~~~lg~~~~~~g~~~~A~~~  556 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLDTF-PGELAPKLALAATAELAGNTDE-HKFYQTVWSTND-GVISAAFGLARARSAEGDRVGAVRT  556 (681)
T ss_dssp             HTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCC-chHHHHHHHHHHHHHcCCHHHHHHH
Confidence            999999999999988764 3467889999999999999999 999999887643 3677899999999999999999999


Q ss_pred             HHHHHHCCCCCC-hhhHHHHHHHHHhccc
Q 046446          194 LHKMKEKNVMPD-ASIVSIVVDLLAKNEI  221 (244)
Q Consensus       194 ~~~~~~~~~~~~-~~~~~~l~~~~~~~g~  221 (244)
                      |++..+.  .|+ ...+..+..++...+.
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            9988765  354 4566677777766555

>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=99.31  E-value=4.5e-11  Score=80.00  Aligned_cols=142  Identities=9%  Similarity=-0.142  Sum_probs=74.8

Q ss_pred             HHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHH
Q 046446           40 GLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEI  119 (244)
Q Consensus        40 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~  119 (244)
                      .+...|++++|+..++...... +-+...+..+...|.+.|++++|++.|++..+.. +-+..+|..+..+|...|++++
T Consensus         6 ~~~~~~~~e~ai~~~~~a~~~~-p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~   83 (150)
T 4ga2_A            6 MRRSKADVERYIASVQGSTPSP-RQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQ-ERDPKAHRFLGLLYELEENTDK   83 (150)
T ss_dssp             -CCCHHHHHHHHHHHHHHSCSH-HHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcChHHHHHHHHHHhcccC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCchHH
Confidence            3444556666666665554321 1123344455666666666666666666666554 3455566666666666666666


Q ss_pred             HHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHH-HHHHHHcCCCCcHhHHHHHHHHHHhcC
Q 046446          120 ALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDL-FLDMEENAVAPNVITFGTLIHGFIRIN  185 (244)
Q Consensus       120 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~-~~~~~~~~~~p~~~~~~~l~~~~~~~g  185 (244)
                      |...|++..+.. +-+..+|..+...|.+.|++++|.+. ++...+... -++.+|......+...|
T Consensus        84 A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P-~~~~~~~l~~~ll~~~G  148 (150)
T 4ga2_A           84 AVECYRRSVELN-PTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFP-GSPAVYKLKEQLLDCEG  148 (150)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHST-TCHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCc-CCHHHHHHHHHHHHHhC
Confidence            666666655542 22455566666666666666554433 344444321 13444444444444444

>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=99.30  E-value=2e-10  Score=93.46  Aligned_cols=154  Identities=8%  Similarity=-0.085  Sum_probs=119.4

Q ss_pred             cCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHH
Q 046446            9 NKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVEL   88 (244)
Q Consensus         9 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~   88 (244)
                      .|++++|.+.|++..+.. +.+...|..+...+...|++++|...|++..+.. +.+..++..+..++...|++++|.+.
T Consensus         2 ~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~   79 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAVL   79 (568)
T ss_dssp             --------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            578999999999988763 3457788999999999999999999999998863 33678899999999999999999999


Q ss_pred             HHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHcc---CChHHHHHHHHHHHHc
Q 046446           89 FRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYND---GQMDKAHDLFLDMEEN  165 (244)
Q Consensus        89 ~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~---~~~~~a~~~~~~~~~~  165 (244)
                      +++..+.. +.+...+..+..+|...|++++|.+.+++..+.. +.+...+..+...+...   |+.++|.+.+++..+.
T Consensus        80 ~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~  157 (568)
T 2vsy_A           80 LQQASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLL-PEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQ  157 (568)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhc
Confidence            99999876 5678899999999999999999999999988764 34678899999999999   9999999999998876


Q ss_pred             C
Q 046446          166 A  166 (244)
Q Consensus       166 ~  166 (244)
                      +
T Consensus       158 ~  158 (568)
T 2vsy_A          158 G  158 (568)
T ss_dssp             T
T ss_pred             C
Confidence            4

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.30  E-value=1.4e-09  Score=77.74  Aligned_cols=63  Identities=8%  Similarity=-0.060  Sum_probs=33.5

Q ss_pred             hHHHHHHHHhhhchHHHHHHHHHHHHHcCCC-C-ChhHHHHHHHHHHhCCcHHHHHHHHHHHHHh
Q 046446           33 IHNTLFIGLFEIHQVERAFKLFDEMQRDGVA-A-DTRTYTIFIDGLCKNGYIVESVELFRTLRIL   95 (244)
Q Consensus        33 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~   95 (244)
                      .+..+...+...|++++|+..|+++.+.... | ....+..+..++.+.|++++|+..|+++.+.
T Consensus         6 ~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~   70 (225)
T 2yhc_A            6 EIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRL   70 (225)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Confidence            3334444555566666666666666554211 1 1234555556666666666666666665554

>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=99.30  E-value=3e-11  Score=80.85  Aligned_cols=143  Identities=10%  Similarity=0.001  Sum_probs=115.8

Q ss_pred             hhhhhcCChhHHHHHHHHHHhCCCCC-ChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcH
Q 046446            4 NGYCKNKEIEGALNLYSEMLSKGIKP-DVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYI   82 (244)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~   82 (244)
                      ..+...|++++|+..++.....  .| +...+..+...|.+.|++++|+..|++..+... -+..+|..+..+|.+.|++
T Consensus         5 ~~~~~~~~~e~ai~~~~~a~~~--~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~~~~   81 (150)
T 4ga2_A            5 SMRRSKADVERYIASVQGSTPS--PRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQE-RDPKAHRFLGLLYELEENT   81 (150)
T ss_dssp             --CCCHHHHHHHHHHHHHHSCS--HHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHcChHHHHHHHHHHhccc--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCch
Confidence            4566789999999999988775  34 345677888999999999999999999998743 3788999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHH-HHhcccCCccccHHHHHHHHHHHHccCC
Q 046446           83 VESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALEL-FHSLPRGVLVADVVTYSIMIHGLYNDGQ  151 (244)
Q Consensus        83 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~-~~~~~~~~~~~~~~~~~~li~~~~~~~~  151 (244)
                      ++|+..|++..+.. |-+..+|..+...|.+.|++++|.+. +++..+.. |-+..+|......+...|+
T Consensus        82 ~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~-P~~~~~~~l~~~ll~~~G~  149 (150)
T 4ga2_A           82 DKAVECYRRSVELN-PTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLF-PGSPAVYKLKEQLLDCEGE  149 (150)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTCCC
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCc
Confidence            99999999999876 56788999999999999998876654 57776653 3457777777777776664

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.30  E-value=5.4e-10  Score=82.99  Aligned_cols=166  Identities=11%  Similarity=0.062  Sum_probs=133.6

Q ss_pred             CCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHH-
Q 046446           63 AADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSI-  141 (244)
Q Consensus        63 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-  141 (244)
                      +.+...+..+...+.+.|++++|...|++..+.. +.+...+..+...+...|++++|...+++....  .|+...... 
T Consensus       114 p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~~  190 (287)
T 3qou_A          114 PREEELXAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQ--DQDTRYQGLV  190 (287)
T ss_dssp             CCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG--GCSHHHHHHH
T ss_pred             CCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchh--hcchHHHHHH
Confidence            4456677788888999999999999999998876 567888999999999999999999999998876  355443333 


Q ss_pred             HHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCC-ChhhHHHHHHHHHhcc
Q 046446          142 MIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMP-DASIVSIVVDLLAKNE  220 (244)
Q Consensus       142 li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g  220 (244)
                      ....+...++.++|.+.++...+.. +.+...+..+...+...|++++|...+.++.+..... +...+..+...|...|
T Consensus       191 ~~~~l~~~~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g  269 (287)
T 3qou_A          191 AQIELLXQAADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALG  269 (287)
T ss_dssp             HHHHHHHHHTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHC
T ss_pred             HHHHHHhhcccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcC
Confidence            2334667788888999998888764 3367788889999999999999999999998864321 2567889999999999


Q ss_pred             ccccchhhhhhh
Q 046446          221 ISLNSLPSFTVH  232 (244)
Q Consensus       221 ~~~~a~~~~~~~  232 (244)
                      +.+++...|...
T Consensus       270 ~~~~a~~~~r~a  281 (287)
T 3qou_A          270 TGDALASXYRRQ  281 (287)
T ss_dssp             TTCHHHHHHHHH
T ss_pred             CCCcHHHHHHHH
Confidence            999998887654

>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=99.29  E-value=2.1e-10  Score=78.77  Aligned_cols=160  Identities=14%  Similarity=0.124  Sum_probs=93.4

Q ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHH-HH
Q 046446           69 YTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHG-LY  147 (244)
Q Consensus        69 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~-~~  147 (244)
                      +......+.+.|++++|...|++..+.. |.+...+..+..++...|++++|...+++.....  |+...+..+... +.
T Consensus         9 ~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~~~   85 (176)
T 2r5s_A            9 LLKQVSELLQQGEHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETKQFELAQELLATIPLEY--QDNSYKSLIAKLELH   85 (176)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG--CCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc--CChHHHHHHHHHHHH
Confidence            4445556666677777777776665543 3456666666777777777777777777665542  233322222111 11


Q ss_pred             ccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCC-ChhhHHHHHHHHHhccccccch
Q 046446          148 NDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMP-DASIVSIVVDLLAKNEISLNSL  226 (244)
Q Consensus       148 ~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~  226 (244)
                      ..++..+|...++...+... -+...+..+..++...|++++|...|+++.+....+ +...+..+...+...|+.++|.
T Consensus        86 ~~~~~~~a~~~~~~al~~~P-~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~  164 (176)
T 2r5s_A           86 QQAAESPELKRLEQELAANP-DNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIA  164 (176)
T ss_dssp             HHHTSCHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHH
T ss_pred             hhcccchHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHH
Confidence            22223345666666665421 245666666777777777777777777776654322 2446666777777777777777


Q ss_pred             hhhhhh
Q 046446          227 PSFTVH  232 (244)
Q Consensus       227 ~~~~~~  232 (244)
                      ..|+..
T Consensus       165 ~~y~~a  170 (176)
T 2r5s_A          165 SKYRRQ  170 (176)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            666543

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=99.28  E-value=3e-10  Score=85.23  Aligned_cols=215  Identities=10%  Similarity=-0.002  Sum_probs=151.5

Q ss_pred             hcCChhHHHHHHHHHHhC------CCCCC----hhhHHHHHHHHhhhchHHHHHHHHHHHHHc----CCCC-ChhHHHHH
Q 046446            8 KNKEIEGALNLYSEMLSK------GIKPD----VVIHNTLFIGLFEIHQVERAFKLFDEMQRD----GVAA-DTRTYTIF   72 (244)
Q Consensus         8 ~~~~~~~a~~~~~~~~~~------~~~~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~~-~~~~~~~l   72 (244)
                      ..|++++|.+++++..+.      +..++    ...|+.....|...|++++|...|.+..+.    +-.+ -..+|+.+
T Consensus         3 ~~~~~~eA~~~~~~a~k~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~l   82 (307)
T 2ifu_A            3 AAQKISEAHEHIAKAEKYLKTSFMKWKPDYDSAASEYAKAAVAFKNAKQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQA   82 (307)
T ss_dssp             CHHHHHHHHHHHHHHHHHHCCCSSSCSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             ccchHHHHHHHHHHHHHHccccccCCCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            357888999998877652      11233    235677778888899999999999987654    1111 14578889


Q ss_pred             HHHHHhCCcHHHHHHHHHHHHHhCC---Cc--cHHhHHHHHHHHHcCCCHHHHHHHHHhcccC----Ccc-ccHHHHHHH
Q 046446           73 IDGLCKNGYIVESVELFRTLRILKC---EL--DIQAYSCLIDGLCKSGRLEIALELFHSLPRG----VLV-ADVVTYSIM  142 (244)
Q Consensus        73 l~~~~~~~~~~~a~~~~~~~~~~~~---~~--~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l  142 (244)
                      ...|...|++++|+..|++..+...   .+  ...++..+...|.. |++++|...|++....    +.. ....+++.+
T Consensus        83 g~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~l  161 (307)
T 2ifu_A           83 GMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKA  161 (307)
T ss_dssp             HHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHH
Confidence            9999999999999999998765311   12  24578888889988 9999999999887643    111 114678889


Q ss_pred             HHHHHccCChHHHHHHHHHHHHc----CCCCc-HhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCh------hhHHH
Q 046446          143 IHGLYNDGQMDKAHDLFLDMEEN----AVAPN-VITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDA------SIVSI  211 (244)
Q Consensus       143 i~~~~~~~~~~~a~~~~~~~~~~----~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~------~~~~~  211 (244)
                      ...|...|++++|...|+...+.    +..+. ...+..+..++...|++++|...|++.. .  .|+.      .....
T Consensus       162 g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~al-~--~p~~~~~~e~~~l~~  238 (307)
T 2ifu_A          162 SRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRESY-S--IPGFSGSEDCAALED  238 (307)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHT-T--STTSTTSHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHh-C--CCCCCCCHHHHHHHH
Confidence            99999999999999999987753    11111 2356666777788899999999999988 4  2321      23445


Q ss_pred             HHHHHHhccccccchh
Q 046446          212 VVDLLAKNEISLNSLP  227 (244)
Q Consensus       212 l~~~~~~~g~~~~a~~  227 (244)
                      ++.++ ..|+.+....
T Consensus       239 l~~~~-~~~d~~~~~~  253 (307)
T 2ifu_A          239 LLQAY-DEQDEEQLLR  253 (307)
T ss_dssp             HHHHH-HTTCHHHHHH
T ss_pred             HHHHH-HhcCHHHHHH
Confidence            55555 4555544433

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.27  E-value=3.3e-10  Score=84.13  Aligned_cols=167  Identities=8%  Similarity=0.030  Sum_probs=135.3

Q ss_pred             CCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhH-HH
Q 046446           28 KPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAY-SC  106 (244)
Q Consensus        28 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~  106 (244)
                      +.+...+..+...+.+.|++++|...|++..+.. +-+...+..+...+.+.|++++|...+++.....  |+.... ..
T Consensus       114 p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~~~  190 (287)
T 3qou_A          114 PREEELXAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQD--QDTRYQGLV  190 (287)
T ss_dssp             CCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGG--CSHHHHHHH
T ss_pred             CCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchhh--cchHHHHHH
Confidence            4456677788888899999999999999998873 3367889999999999999999999999987764  444333 33


Q ss_pred             HHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCC-cHhHHHHHHHHHHhcC
Q 046446          107 LIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAP-NVITFGTLIHGFIRIN  185 (244)
Q Consensus       107 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g  185 (244)
                      ....+...++.++|...+++..... +.+...+..+...+...|++++|...|..+.+..... +...+..+...+...|
T Consensus       191 ~~~~l~~~~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g  269 (287)
T 3qou_A          191 AQIELLXQAADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALG  269 (287)
T ss_dssp             HHHHHHHHHTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHC
T ss_pred             HHHHHHhhcccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcC
Confidence            3334667778888999998887764 5578899999999999999999999999998764321 2678899999999999


Q ss_pred             ChhHHHHHHHHHH
Q 046446          186 EPSKVIELLHKMK  198 (244)
Q Consensus       186 ~~~~a~~~~~~~~  198 (244)
                      +.++|...+++..
T Consensus       270 ~~~~a~~~~r~al  282 (287)
T 3qou_A          270 TGDALASXYRRQL  282 (287)
T ss_dssp             TTCHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHH
Confidence            9999999888754

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.26  E-value=6.6e-10  Score=85.73  Aligned_cols=194  Identities=9%  Similarity=0.007  Sum_probs=146.4

Q ss_pred             hhhhhhcCChhHHHHHHHHHHhC----CC-CC-ChhhHHHHHHHHhhhchHHHHHHHHHHHHHc----CCCC-ChhHHHH
Q 046446            3 INGYCKNKEIEGALNLYSEMLSK----GI-KP-DVVIHNTLFIGLFEIHQVERAFKLFDEMQRD----GVAA-DTRTYTI   71 (244)
Q Consensus         3 i~~~~~~~~~~~a~~~~~~~~~~----~~-~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~~-~~~~~~~   71 (244)
                      -..|...|+++.|...+++..+.    +- .+ ...+++.+...|...|++++|...|++..+.    +.++ ...++..
T Consensus       148 g~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  227 (378)
T 3q15_A          148 AEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLN  227 (378)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            45678899999999999987653    11 11 2457788889999999999999999988663    1111 2357888


Q ss_pred             HHHHHHhCCcHHHHHHHHHHHHHh----CCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccC----CccccHHHHHHHH
Q 046446           72 FIDGLCKNGYIVESVELFRTLRIL----KCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRG----VLVADVVTYSIMI  143 (244)
Q Consensus        72 ll~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~li  143 (244)
                      +..+|...|++++|.+.+++..+.    +.+....++..+...|.+.|++++|...+++..+.    +-+.....+..+.
T Consensus       228 lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~  307 (378)
T 3q15_A          228 IANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQ  307 (378)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            999999999999999999998761    32444778899999999999999999999986542    2222344567777


Q ss_pred             HHHHccCC---hHHHHHHHHHHHHcCCCCc-HhHHHHHHHHHHhcCChhHHHHHHHHHHH
Q 046446          144 HGLYNDGQ---MDKAHDLFLDMEENAVAPN-VITFGTLIHGFIRINEPSKVIELLHKMKE  199 (244)
Q Consensus       144 ~~~~~~~~---~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  199 (244)
                      ..+...++   +.+|...++.   .+..|+ ...+..+...|...|++++|...|++..+
T Consensus       308 ~ly~~~~~~~~~~~al~~~~~---~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          308 AVYKETVDERKIHDLLSYFEK---KNLHAYIEACARSAAAVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHHSSSCCHHHHHHHHHHHHH---TTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhCCCcHHHHHHHHHHHHh---CCChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            77888888   6777776665   222233 34566788899999999999999998764

>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=99.26  E-value=2.9e-10  Score=92.43  Aligned_cols=154  Identities=12%  Similarity=0.004  Sum_probs=119.2

Q ss_pred             hchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHH
Q 046446           44 IHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALEL  123 (244)
Q Consensus        44 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~  123 (244)
                      .|++++|+..+++..+.. +-+...+..+...+...|++++|.+.+++..+.. +.+..++..+..+|...|++++|...
T Consensus         2 ~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~   79 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAVL   79 (568)
T ss_dssp             --------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            478899999999988763 3367889999999999999999999999999875 56788999999999999999999999


Q ss_pred             HHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhc---CChhHHHHHHHHHHHC
Q 046446          124 FHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRI---NEPSKVIELLHKMKEK  200 (244)
Q Consensus       124 ~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~---g~~~~a~~~~~~~~~~  200 (244)
                      +++..+.. +.+...+..+...+...|++++|.+.++...+... .+...+..+..++...   |+.++|.+.+++..+.
T Consensus        80 ~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~  157 (568)
T 2vsy_A           80 LQQASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLP-EEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQ  157 (568)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhc
Confidence            99988764 44678999999999999999999999999887642 3577888899999999   9999999999998876


Q ss_pred             C
Q 046446          201 N  201 (244)
Q Consensus       201 ~  201 (244)
                      +
T Consensus       158 ~  158 (568)
T 2vsy_A          158 G  158 (568)
T ss_dssp             T
T ss_pred             C
Confidence            4

>1xi4_A Clathrin heavy chain; alpha-ZIG-ZAG, beta-propeller, endocytosis-exocyto complex; 7.90A {Bos taurus} SCOP: i.23.1.1 PDB: 1xi5_A 3iyv_A

Probab=99.24  E-value=3e-09  Score=92.09  Aligned_cols=192  Identities=13%  Similarity=0.082  Sum_probs=131.8

Q ss_pred             hhhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcH
Q 046446            3 INGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYI   82 (244)
Q Consensus         3 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~   82 (244)
                      -.++...|++++|++.|.+.      -|...|..++.++.+.|++++|.++|...++..  +++...+.++.+|++.+++
T Consensus      1112 AKAql~~G~~kEAIdsYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rl 1183 (1630)
T 1xi4_A         1112 AKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRL 1183 (1630)
T ss_pred             HHHHHhCCCHHHHHHHHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCH
Confidence            45677889999999988553      367788888999999999999999998776653  3433344577778887777


Q ss_pred             HHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHH
Q 046446           83 VESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDM  162 (244)
Q Consensus        83 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  162 (244)
                      ++...+.    +   .++...|..+...|...|++++|..+|...         ..|..+...+.+.|++++|.+.++..
T Consensus      1184 eele~fI----~---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA 1247 (1630)
T 1xi4_A         1184 AELEEFI----N---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA 1247 (1630)
T ss_pred             HHHHHHH----h---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHh
Confidence            7533332    1   345556666777777777777777777764         35666777777777777776666544


Q ss_pred             HHc------------------------CCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHh
Q 046446          163 EEN------------------------AVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAK  218 (244)
Q Consensus       163 ~~~------------------------~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  218 (244)
                      ...                        ++..+...+..++..|.+.|.+++|+.+++...... +-....|.-+...|++
T Consensus      1248 ~n~~aWkev~~acve~~Ef~LA~~cgl~Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL~Le-raH~gmftELaiLyaK 1326 (1630)
T 1xi4_A         1248 NSTRTWKEVCFACVDGKEFRLAQMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSK 1326 (1630)
T ss_pred             CCHHHHHHHHHHHhhhhHHHHHHHHHHhhhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccC-hhHhHHHHHHHHHHHh
Confidence            211                        122355567788888999999999999998776543 3344566666666665


Q ss_pred             c
Q 046446          219 N  219 (244)
Q Consensus       219 ~  219 (244)
                      .
T Consensus      1327 y 1327 (1630)
T 1xi4_A         1327 F 1327 (1630)
T ss_pred             C
Confidence            3

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=99.24  E-value=1.7e-10  Score=79.30  Aligned_cols=162  Identities=9%  Similarity=0.015  Sum_probs=110.0

Q ss_pred             hHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHH-H
Q 046446           33 IHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDG-L  111 (244)
Q Consensus        33 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~-~  111 (244)
                      .+......+...|++++|...|++..+.. +-+...+..+...+...|++++|...+++..+..  |+...+..+... +
T Consensus         8 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~~   84 (176)
T 2r5s_A            8 QLLKQVSELLQQGEHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETKQFELAQELLATIPLEY--QDNSYKSLIAKLEL   84 (176)
T ss_dssp             THHHHHHHHHHTTCHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG--CCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc--CChHHHHHHHHHHH
Confidence            44555666777888888888888776652 2356777788888888888888888888876553  244333322211 1


Q ss_pred             HcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCC-cHhHHHHHHHHHHhcCChhHH
Q 046446          112 CKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAP-NVITFGTLIHGFIRINEPSKV  190 (244)
Q Consensus       112 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~a  190 (244)
                      ...+...+|...+++..+.. +.+...+..+...+...|++++|...|+.+.+....+ +...+..+...+...|+.++|
T Consensus        85 ~~~~~~~~a~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A  163 (176)
T 2r5s_A           85 HQQAAESPELKRLEQELAAN-PDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAI  163 (176)
T ss_dssp             HHHHTSCHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHH
T ss_pred             HhhcccchHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcH
Confidence            12222234677777766553 3357788888888888888888888888887654322 345777888888888888888


Q ss_pred             HHHHHHHH
Q 046446          191 IELLHKMK  198 (244)
Q Consensus       191 ~~~~~~~~  198 (244)
                      ...|++..
T Consensus       164 ~~~y~~al  171 (176)
T 2r5s_A          164 ASKYRRQL  171 (176)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            88887654

>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=99.24  E-value=1.9e-09  Score=76.39  Aligned_cols=177  Identities=12%  Similarity=0.014  Sum_probs=144.3

Q ss_pred             HHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCC----CHHHHHHH
Q 046446           48 ERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSG----RLEIALEL  123 (244)
Q Consensus        48 ~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~----~~~~a~~~  123 (244)
                      .+|...|++..+.|   ++..+..+...|...+++++|++.|++..+.|   +...+..|...|.. +    ++++|...
T Consensus         3 ~eA~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~   75 (212)
T 3rjv_A            3 TEPGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQL   75 (212)
T ss_dssp             -CTTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHH
T ss_pred             chHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHH
Confidence            35677888887764   77888899999999999999999999998865   56777788888887 6    89999999


Q ss_pred             HHhcccCCccccHHHHHHHHHHHHc----cCChHHHHHHHHHHHHcCCC-CcHhHHHHHHHHHHh----cCChhHHHHHH
Q 046446          124 FHSLPRGVLVADVVTYSIMIHGLYN----DGQMDKAHDLFLDMEENAVA-PNVITFGTLIHGFIR----INEPSKVIELL  194 (244)
Q Consensus       124 ~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~~~~~~~~-p~~~~~~~l~~~~~~----~g~~~~a~~~~  194 (244)
                      |++..+.|   +...+..|...|..    .+++++|.++|+...+.|.. .+...+..|...|..    .+++++|..+|
T Consensus        76 ~~~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~  152 (212)
T 3rjv_A           76 AEKAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYF  152 (212)
T ss_dssp             HHHHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHH
T ss_pred             HHHHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHH
Confidence            99998765   67788888888887    88999999999998886532 126778888888888    78999999999


Q ss_pred             HHHHHCCCCCChhhHHHHHHHHHhc-c-----ccccchhhhhhhhhhh
Q 046446          195 HKMKEKNVMPDASIVSIVVDLLAKN-E-----ISLNSLPSFTVHERQE  236 (244)
Q Consensus       195 ~~~~~~~~~~~~~~~~~l~~~~~~~-g-----~~~~a~~~~~~~~~~~  236 (244)
                      ++..+.  ..+...+..|...|... |     +.++|+..|+...+.+
T Consensus       153 ~~A~~~--~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g  198 (212)
T 3rjv_A          153 KGSSSL--SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEG  198 (212)
T ss_dssp             HHHHHT--SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHT
T ss_pred             HHHHHc--CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcC
Confidence            999887  23455677788888764 3     7899999998876654

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.24  E-value=1.1e-09  Score=78.32  Aligned_cols=178  Identities=6%  Similarity=-0.079  Sum_probs=118.0

Q ss_pred             hhhhhhcCChhHHHHHHHHHHhCCCCCC----hhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCCh--hHHHHHHHHH
Q 046446            3 INGYCKNKEIEGALNLYSEMLSKGIKPD----VVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADT--RTYTIFIDGL   76 (244)
Q Consensus         3 i~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~--~~~~~ll~~~   76 (244)
                      ...+.+.|++++|+..|+++...  .|+    ...+..+..++.+.|++++|+..|+++.+.......  ..+..+..++
T Consensus        11 a~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~~g~~~   88 (225)
T 2yhc_A           11 AQQKLQDGNWRQAITQLEALDNR--YPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYMRGLTN   88 (225)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHH--CTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHHHHHHH
Confidence            35678899999999999999886  232    356778889999999999999999999886332111  2455555555


Q ss_pred             Hh------------------CCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHH
Q 046446           77 CK------------------NGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVT  138 (244)
Q Consensus        77 ~~------------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  138 (244)
                      ..                  .|++++|...|+++.+.. |-+..++.+......          +...        ....
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~-P~~~~a~~a~~~l~~----------~~~~--------~~~~  149 (225)
T 2yhc_A           89 MALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGY-PNSQYTTDATKRLVF----------LKDR--------LAKY  149 (225)
T ss_dssp             HHHHC--------------CCHHHHHHHHHHHHHHTTC-TTCTTHHHHHHHHHH----------HHHH--------HHHH
T ss_pred             HhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHC-cCChhHHHHHHHHHH----------HHHH--------HHHH
Confidence            43                  456677777777766543 222222221111000          0000        0011


Q ss_pred             HHHHHHHHHccCChHHHHHHHHHHHHcCCCC--cHhHHHHHHHHHHhcCChhHHHHHHHHHHHCC
Q 046446          139 YSIMIHGLYNDGQMDKAHDLFLDMEENAVAP--NVITFGTLIHGFIRINEPSKVIELLHKMKEKN  201 (244)
Q Consensus       139 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  201 (244)
                      ...+...|.+.|++++|...|+.+.+.....  ....+..+..++.+.|++++|.+.++.+...+
T Consensus       150 ~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~  214 (225)
T 2yhc_A          150 EYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANS  214 (225)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC
Confidence            2345677888999999999999988753221  12467778889999999999999999888764

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.23  E-value=8e-09  Score=76.95  Aligned_cols=225  Identities=10%  Similarity=0.043  Sum_probs=176.3

Q ss_pred             hhhhcCCh-hHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhc--hHHHHHHHHHHHHHcCCCCChhHHHHHHHHH----H
Q 046446            5 GYCKNKEI-EGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIH--QVERAFKLFDEMQRDGVAADTRTYTIFIDGL----C   77 (244)
Q Consensus         5 ~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~--~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~----~   77 (244)
                      +..+.|.+ ++|+++++.++... +-+...|+.--..+...+  ++++++++++.+...... +..+|+.-...+    .
T Consensus        41 a~~~~~e~s~~aL~~t~~~L~~n-P~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk-~y~aW~~R~~iL~~~~~  118 (306)
T 3dra_A           41 ALMKAEEYSERALHITELGINEL-ASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNEK-NYQIWNYRQLIIGQIME  118 (306)
T ss_dssp             HHHHTTCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTT-CCHHHHHHHHHHHHHHH
T ss_pred             HHHHcCCCCHHHHHHHHHHHHHC-cHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCcc-cHHHHHHHHHHHHHHHH
Confidence            33445555 58999999998873 234456787777777888  999999999999987433 566676554444    4


Q ss_pred             hC---CcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHH--HHHHHHHhcccCCccccHHHHHHHHHHHHccCC-
Q 046446           78 KN---GYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLE--IALELFHSLPRGVLVADVVTYSIMIHGLYNDGQ-  151 (244)
Q Consensus        78 ~~---~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~--~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~-  151 (244)
                      ..   +++++++++++.+.+.. +.+..+|+.-...+.+.|.++  ++++.++++.+.+ +-|...|+.-...+.+.++ 
T Consensus       119 ~l~~~~~~~~EL~~~~~~l~~~-pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d-~~N~sAW~~R~~ll~~l~~~  196 (306)
T 3dra_A          119 LNNNDFDPYREFDILEAMLSSD-PKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTD-LKNNSAWSHRFFLLFSKKHL  196 (306)
T ss_dssp             HTTTCCCTHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHSSGGG
T ss_pred             hccccCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcccc
Confidence            45   78999999999999887 678999998888888889888  9999999998876 4578889887777777776 


Q ss_pred             -----hHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhH-HHHHHHHHHHCC--CCCChhhHHHHHHHHHhccccc
Q 046446          152 -----MDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSK-VIELLHKMKEKN--VMPDASIVSIVVDLLAKNEISL  223 (244)
Q Consensus       152 -----~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~-a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~  223 (244)
                           ++++++.++.+...... |...|+.+-..+.+.|+... +..+..++.+.+  -..+...+..+.+.|.+.|+.+
T Consensus       197 ~~~~~~~eEl~~~~~aI~~~p~-n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~  275 (306)
T 3dra_A          197 ATDNTIDEELNYVKDKIVKCPQ-NPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYN  275 (306)
T ss_dssp             CCHHHHHHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHH
T ss_pred             chhhhHHHHHHHHHHHHHhCCC-CccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHH
Confidence                 88999999998876543 88889988888888887544 555666665433  1346788899999999999999


Q ss_pred             cchhhhhhhhh
Q 046446          224 NSLPSFTVHER  234 (244)
Q Consensus       224 ~a~~~~~~~~~  234 (244)
                      +|+++++.+..
T Consensus       276 ~A~~~~~~l~~  286 (306)
T 3dra_A          276 ESRTVYDLLKS  286 (306)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            99999999865

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.21  E-value=9.1e-09  Score=81.35  Aligned_cols=185  Identities=12%  Similarity=0.030  Sum_probs=102.0

Q ss_pred             hHHHHHHHHhhhc---hHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhC----CcHHHHHHHHHHHHHhCCCccHHhHH
Q 046446           33 IHNTLFIGLFEIH---QVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKN----GYIVESVELFRTLRILKCELDIQAYS  105 (244)
Q Consensus        33 ~~~~li~~~~~~~---~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~----~~~~~a~~~~~~~~~~~~~~~~~~~~  105 (244)
                      .+..+...|...|   +.++|+..|++..+.|. ++...+..+...|...    +++++|.+.|++.. .   -+...+.
T Consensus       178 a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~-~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa-~---g~~~a~~  252 (452)
T 3e4b_A          178 CYVELATVYQKKQQPEQQAELLKQMEAGVSRGT-VTAQRVDSVARVLGDATLGTPDEKTAQALLEKIA-P---GYPASWV  252 (452)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTC-SCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG-G---GSTHHHH
T ss_pred             HHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCC-HHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc-C---CCHHHHH
Confidence            5556666666666   66677777766666543 2444445555555443    56666766666655 2   3344444


Q ss_pred             HHHHH-H--HcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccC-----ChHHHHHHHHHHHHcCCCCcHhHHHHH
Q 046446          106 CLIDG-L--CKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDG-----QMDKAHDLFLDMEENAVAPNVITFGTL  177 (244)
Q Consensus       106 ~ll~~-~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~-----~~~~a~~~~~~~~~~~~~p~~~~~~~l  177 (244)
                      .+... +  ...+++++|...|++..+.|   +...+..|...|. .|     ++++|.+.|+... .   -+...+..+
T Consensus       253 ~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-~---g~~~A~~~L  324 (452)
T 3e4b_A          253 SLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV-G---REVAADYYL  324 (452)
T ss_dssp             HHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-T---TCHHHHHHH
T ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-C---CCHHHHHHH
Confidence            45444 3  34566667777776666554   4555555555555 33     6666666666555 2   244555555


Q ss_pred             HHHHHh----cCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHh----ccccccchhhhhhhh
Q 046446          178 IHGFIR----INEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAK----NEISLNSLPSFTVHE  233 (244)
Q Consensus       178 ~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~  233 (244)
                      ...|..    ..++++|..+|++..+.|.   ......|...|..    ..+..+|...|+...
T Consensus       325 g~~y~~G~g~~~d~~~A~~~~~~Aa~~g~---~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~  385 (452)
T 3e4b_A          325 GQIYRRGYLGKVYPQKALDHLLTAARNGQ---NSADFAIAQLFSQGKGTKPDPLNAYVFSQLAK  385 (452)
T ss_dssp             HHHHHTTTTSSCCHHHHHHHHHHHHTTTC---TTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHH
T ss_pred             HHHHHCCCCCCcCHHHHHHHHHHHHhhCh---HHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHH
Confidence            555544    2366666666666666542   2333444444443    224455555555443

>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=99.21  E-value=2.8e-09  Score=75.24  Aligned_cols=127  Identities=8%  Similarity=-0.105  Sum_probs=91.8

Q ss_pred             HHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHc
Q 046446           34 HNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCK  113 (244)
Q Consensus        34 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~  113 (244)
                      +..+...+...|++++|+..|++.    +.|+..++..+...+...|++++|.+.+++..+.. +.+...+..+..+|..
T Consensus         9 ~~~~g~~~~~~~~~~~A~~~~~~a----~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~~   83 (213)
T 1hh8_A            9 LWNEGVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQ   83 (213)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHH----cCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHH
Confidence            445556666778888888877765    35577777788888888888888888888777765 4566777777888888


Q ss_pred             CCCHHHHHHHHHhcccCCc--------------cc-cHHHHHHHHHHHHccCChHHHHHHHHHHHHc
Q 046446          114 SGRLEIALELFHSLPRGVL--------------VA-DVVTYSIMIHGLYNDGQMDKAHDLFLDMEEN  165 (244)
Q Consensus       114 ~~~~~~a~~~~~~~~~~~~--------------~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  165 (244)
                      .|++++|...|++..+...              .| ....+..+..++...|++++|.+.|+...+.
T Consensus        84 ~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  150 (213)
T 1hh8_A           84 TEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSM  150 (213)
T ss_dssp             TTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             cccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHc
Confidence            8888888888877665321              11 2367777778888888888888888887764

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=99.15  E-value=7.3e-09  Score=73.07  Aligned_cols=144  Identities=10%  Similarity=-0.077  Sum_probs=116.3

Q ss_pred             HHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHH
Q 046446           68 TYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLY  147 (244)
Q Consensus        68 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  147 (244)
                      .+..+...+...|++++|.+.|++..    .|+..++..+..+|...|++++|...|++..... +.+...+..+..++.
T Consensus         8 ~~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~   82 (213)
T 1hh8_A            8 SLWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYY   82 (213)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHH
Confidence            45567778889999999999999873    5688899999999999999999999999988764 456789999999999


Q ss_pred             ccCChHHHHHHHHHHHHcCCC--------------C-cHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHH
Q 046446          148 NDGQMDKAHDLFLDMEENAVA--------------P-NVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIV  212 (244)
Q Consensus       148 ~~~~~~~a~~~~~~~~~~~~~--------------p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l  212 (244)
                      ..|++++|.+.|+...+....              | ....+..+..++...|++++|...+++..+.........+...
T Consensus        83 ~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~a  162 (213)
T 1hh8_A           83 QTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEPRHSKIDKA  162 (213)
T ss_dssp             HTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSGGGGHHHHH
T ss_pred             HcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCcccccchHHHH
Confidence            999999999999998874321              1 2267888889999999999999999999886533333334444


Q ss_pred             HHHH
Q 046446          213 VDLL  216 (244)
Q Consensus       213 ~~~~  216 (244)
                      +..+
T Consensus       163 ~~~~  166 (213)
T 1hh8_A          163 MECV  166 (213)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            4444

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=99.15  E-value=2.9e-09  Score=79.23  Aligned_cols=170  Identities=9%  Similarity=0.003  Sum_probs=118.6

Q ss_pred             ChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCC-CCCh----hHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCC-cc---
Q 046446           30 DVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGV-AADT----RTYTIFIDGLCKNGYIVESVELFRTLRILKCE-LD---  100 (244)
Q Consensus        30 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~~~~----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~---  100 (244)
                      ....+...+..+...|++++|..++++..+... .|+.    ..+..+...+...+++++|+..+++..+.... ++   
T Consensus        74 ~~~~l~~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~  153 (293)
T 3u3w_A           74 RKKQFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQ  153 (293)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTH
T ss_pred             hHHHHHHHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHH
Confidence            355666666777788888888888888776422 2221    13345667777778888888888888774222 22   


Q ss_pred             -HHhHHHHHHHHHcCCCHHHHHHHHHhccc------CCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHc----CCCC
Q 046446          101 -IQAYSCLIDGLCKSGRLEIALELFHSLPR------GVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEEN----AVAP  169 (244)
Q Consensus       101 -~~~~~~ll~~~~~~~~~~~a~~~~~~~~~------~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~p  169 (244)
                       ..+++.+...|...|++++|...|++..+      ...+....++..+...|.+.|++++|...++...+.    +..+
T Consensus       154 ~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~  233 (293)
T 3u3w_A          154 NLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMA  233 (293)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCT
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHH
Confidence             23688888888888998888888887762      111222447788888889999999999888876542    2222


Q ss_pred             c-HhHHHHHHHHHHhcCC-hhHHHHHHHHHHH
Q 046446          170 N-VITFGTLIHGFIRINE-PSKVIELLHKMKE  199 (244)
Q Consensus       170 ~-~~~~~~l~~~~~~~g~-~~~a~~~~~~~~~  199 (244)
                      . ..+|..+..++.+.|+ +++|.+.+++...
T Consensus       234 ~~~~~~~~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          234 LIGQLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             THHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            2 5677888888888884 5888888887664

>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=99.13  E-value=1.2e-08  Score=75.84  Aligned_cols=209  Identities=14%  Similarity=-0.003  Sum_probs=146.0

Q ss_pred             HHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhH---HHHHHHHHHhCCcHHHHHHHHHHHHH
Q 046446           18 LYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRT---YTIFIDGLCKNGYIVESVELFRTLRI   94 (244)
Q Consensus        18 ~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~---~~~ll~~~~~~~~~~~a~~~~~~~~~   94 (244)
                      .+.....-...|+..+...+...+.-.-+         .+.......+...   +...+..+...|++++|.+.+++..+
T Consensus        33 ~~s~~e~g~~~~~~~~l~~i~~~l~~~~~---------~~~~~~~~~~~~~~~~l~~~i~~~~~~~~y~~a~~~~~~~l~  103 (293)
T 3u3w_A           33 EVSRIESGAVYPSMDILQGIAAKLQIPII---------HFYEVLIYSDIERKKQFKDQVIMLCKQKRYKEIYNKVWNELK  103 (293)
T ss_dssp             HHHHHHTTSCCCCHHHHHHHHHHHTCCTH---------HHHHTTTSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHCCCCCCCHHHHHHHHHHhCcCHH---------HHhCCCCCCcchhHHHHHHHHHHHHHHhhHHHHHHHHHHHhc
Confidence            34444444457888888887776653311         1222212222333   33446778899999999999999887


Q ss_pred             hCC-CccH----HhHHHHHHHHHcCCCHHHHHHHHHhcccCCc-ccc----HHHHHHHHHHHHccCChHHHHHHHHHHHH
Q 046446           95 LKC-ELDI----QAYSCLIDGLCKSGRLEIALELFHSLPRGVL-VAD----VVTYSIMIHGLYNDGQMDKAHDLFLDMEE  164 (244)
Q Consensus        95 ~~~-~~~~----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~li~~~~~~~~~~~a~~~~~~~~~  164 (244)
                      ... .|+.    ..+..+...+...|++++|...+++...... .++    ..+++.+...|...|++++|...++.+.+
T Consensus       104 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~  183 (293)
T 3u3w_A          104 KEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIANIYAENGYLKKGIDLFEQILK  183 (293)
T ss_dssp             TCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            432 2332    2344677888888999999999998875321 122    34689999999999999999999999873


Q ss_pred             ----c-CCCCc-HhHHHHHHHHHHhcCChhHHHHHHHHHHHC----CCCCC-hhhHHHHHHHHHhccc-cccchhhhhhh
Q 046446          165 ----N-AVAPN-VITFGTLIHGFIRINEPSKVIELLHKMKEK----NVMPD-ASIVSIVVDLLAKNEI-SLNSLPSFTVH  232 (244)
Q Consensus       165 ----~-~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~~~~~-~~~~~~l~~~~~~~g~-~~~a~~~~~~~  232 (244)
                          . +..+. ..++..+...|.+.|++++|...+++..+.    +..+. ..++..+..+|.+.|+ .++|+..++..
T Consensus       184 ~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~~A~~~~~~A  263 (293)
T 3u3w_A          184 QLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQRGECLRKLEYEEAEIEDAYKKA  263 (293)
T ss_dssp             HHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHH
Confidence                1 22222 347888999999999999999999987643    22222 6788899999999995 58898888776


Q ss_pred             hhh
Q 046446          233 ERQ  235 (244)
Q Consensus       233 ~~~  235 (244)
                      ..-
T Consensus       264 l~i  266 (293)
T 3u3w_A          264 SFF  266 (293)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            543

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.11  E-value=8.6e-09  Score=81.47  Aligned_cols=159  Identities=8%  Similarity=-0.011  Sum_probs=121.5

Q ss_pred             ChhHHHHHHHHHHhCC---cHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcC----CCHHHHHHHHHhcccCCccccHH
Q 046446           65 DTRTYTIFIDGLCKNG---YIVESVELFRTLRILKCELDIQAYSCLIDGLCKS----GRLEIALELFHSLPRGVLVADVV  137 (244)
Q Consensus        65 ~~~~~~~ll~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~----~~~~~a~~~~~~~~~~~~~~~~~  137 (244)
                      ++..+..|...|...|   +.++|++.|++..+.| +++...+..+...|...    +++++|...|++.. .   -+..
T Consensus       175 ~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g-~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa-~---g~~~  249 (452)
T 3e4b_A          175 TDICYVELATVYQKKQQPEQQAELLKQMEAGVSRG-TVTAQRVDSVARVLGDATLGTPDEKTAQALLEKIA-P---GYPA  249 (452)
T ss_dssp             CTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTT-CSCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG-G---GSTH
T ss_pred             CHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc-C---CCHH
Confidence            4447888888888889   8999999999998887 46666666777777655    68999999999887 3   3566


Q ss_pred             HHHHHHHH-H--HccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcC-----ChhHHHHHHHHHHHCCCCCChhhH
Q 046446          138 TYSIMIHG-L--YNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRIN-----EPSKVIELLHKMKEKNVMPDASIV  209 (244)
Q Consensus       138 ~~~~li~~-~--~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g-----~~~~a~~~~~~~~~~~~~~~~~~~  209 (244)
                      .+..+... +  ...+++++|.+.|+...+.|   +...+..+...|. .|     ++++|..+|++.. .|   +....
T Consensus       250 a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-~g---~~~A~  321 (452)
T 3e4b_A          250 SWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV-GR---EVAAD  321 (452)
T ss_dssp             HHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-TT---CHHHH
T ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-CC---CHHHH
Confidence            67777666 4  56889999999999988765   6667777777776 55     8999999998877 33   56677


Q ss_pred             HHHHHHHHh----ccccccchhhhhhhhhhh
Q 046446          210 SIVVDLLAK----NEISLNSLPSFTVHERQE  236 (244)
Q Consensus       210 ~~l~~~~~~----~g~~~~a~~~~~~~~~~~  236 (244)
                      ..|...|..    ..+.++|...|+...+.+
T Consensus       322 ~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  352 (452)
T 3e4b_A          322 YYLGQIYRRGYLGKVYPQKALDHLLTAARNG  352 (452)
T ss_dssp             HHHHHHHHTTTTSSCCHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHCCCCCCcCHHHHHHHHHHHHhhC
Confidence            777777776    237788888888766543

>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=99.10  E-value=9.9e-09  Score=69.22  Aligned_cols=127  Identities=7%  Similarity=-0.092  Sum_probs=65.4

Q ss_pred             HHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHH
Q 046446           68 TYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLY  147 (244)
Q Consensus        68 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  147 (244)
                      .+..+...+...|++++|...|++..+.. +.+..++..+..++...|++++|...+++..... +.+...+..+..++.
T Consensus        15 ~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~   92 (166)
T 1a17_A           15 ELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNM   92 (166)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHH
Confidence            34445555555556666666655555543 3345555555555555666666666555554432 224455555555666


Q ss_pred             ccCChHHHHHHHHHHHHcCCCCcHhHHHH--HHHHHHhcCChhHHHHHHHHH
Q 046446          148 NDGQMDKAHDLFLDMEENAVAPNVITFGT--LIHGFIRINEPSKVIELLHKM  197 (244)
Q Consensus       148 ~~~~~~~a~~~~~~~~~~~~~p~~~~~~~--l~~~~~~~g~~~~a~~~~~~~  197 (244)
                      ..|++++|...++...+... .+...+..  ....+...|++++|...+...
T Consensus        93 ~~~~~~~A~~~~~~a~~~~p-~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  143 (166)
T 1a17_A           93 ALGKFRAALRDYETVVKVKP-HDKDAKMKYQECNKIVKQKAFERAIAGDEHK  143 (166)
T ss_dssp             HTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHHHHHHHHHcccch
Confidence            66666666666665554321 12223322  222244555666666555543

>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=5e-09  Score=73.22  Aligned_cols=156  Identities=12%  Similarity=-0.047  Sum_probs=82.7

Q ss_pred             hhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHc----CCC-CChhHHHHHHHHHHhCCc
Q 046446            7 CKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRD----GVA-ADTRTYTIFIDGLCKNGY   81 (244)
Q Consensus         7 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~-~~~~~~~~ll~~~~~~~~   81 (244)
                      ...|++++|.++++.+... .......+..+...+...|++++|...+++..+.    +.. ....++..+...+...|+
T Consensus         3 ~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~   81 (203)
T 3gw4_A            3 FEAHDYALAERQAQALLAH-PATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGN   81 (203)
T ss_dssp             ----CHHHHHHHHHHHHTS-TTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTC
T ss_pred             cccccHHHHHHHHHHhcCC-hHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCC
Confidence            4567777777755444332 1224456666666777777777777777766552    111 123455666666667777


Q ss_pred             HHHHHHHHHHHHHh----CCC--ccHHhHHHHHHHHHcCCCHHHHHHHHHhcccC----Ccc-ccHHHHHHHHHHHHccC
Q 046446           82 IVESVELFRTLRIL----KCE--LDIQAYSCLIDGLCKSGRLEIALELFHSLPRG----VLV-ADVVTYSIMIHGLYNDG  150 (244)
Q Consensus        82 ~~~a~~~~~~~~~~----~~~--~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~li~~~~~~~  150 (244)
                      +++|.+.+++..+.    +-.  ....++..+...+...|++++|...+++....    +.. ....++..+...+...|
T Consensus        82 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g  161 (203)
T 3gw4_A           82 WDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEK  161 (203)
T ss_dssp             HHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCc
Confidence            77777766665443    101  11334555566666666666666666654321    100 11223455555556666


Q ss_pred             ChHHHHHHHHHHH
Q 046446          151 QMDKAHDLFLDME  163 (244)
Q Consensus       151 ~~~~a~~~~~~~~  163 (244)
                      ++++|.+.+++..
T Consensus       162 ~~~~A~~~~~~al  174 (203)
T 3gw4_A          162 NLLEAQQHWLRAR  174 (203)
T ss_dssp             CHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHH
Confidence            6666666555543

>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=99.09  E-value=9.5e-09  Score=69.32  Aligned_cols=130  Identities=11%  Similarity=-0.008  Sum_probs=105.4

Q ss_pred             hhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHH
Q 046446           31 VVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDG  110 (244)
Q Consensus        31 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~  110 (244)
                      ...+..+...+...|++++|...|++..+.. +.+..++..+..++...|++++|.+.+++..+.. +.+..++..+..+
T Consensus        13 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~   90 (166)
T 1a17_A           13 AEELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAAS   90 (166)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHH
Confidence            3456777788889999999999999988863 3367888899999999999999999999998875 5678889999999


Q ss_pred             HHcCCCHHHHHHHHHhcccCCccccHHHH--HHHHHHHHccCChHHHHHHHHHHH
Q 046446          111 LCKSGRLEIALELFHSLPRGVLVADVVTY--SIMIHGLYNDGQMDKAHDLFLDME  163 (244)
Q Consensus       111 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~--~~li~~~~~~~~~~~a~~~~~~~~  163 (244)
                      +...|++++|...|++..... +.+...+  ...+..+...|++++|.+.+....
T Consensus        91 ~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  144 (166)
T 1a17_A           91 NMALGKFRAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDEHKR  144 (166)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHHcccchH
Confidence            999999999999999987653 2344455  334444778899999999887654

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=99.08  E-value=3e-09  Score=79.74  Aligned_cols=190  Identities=9%  Similarity=-0.016  Sum_probs=139.9

Q ss_pred             hhchHHHHHHHHHHHHHc------CCCCCh----hHHHHHHHHHHhCCcHHHHHHHHHHHHHhCC---C--ccHHhHHHH
Q 046446           43 EIHQVERAFKLFDEMQRD------GVAADT----RTYTIFIDGLCKNGYIVESVELFRTLRILKC---E--LDIQAYSCL  107 (244)
Q Consensus        43 ~~~~~~~a~~~~~~m~~~------~~~~~~----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~---~--~~~~~~~~l  107 (244)
                      ..|++++|.+++++..+.      +..++.    ..|......|...|++++|...|.+..+...   .  .-..+|+.+
T Consensus         3 ~~~~~~eA~~~~~~a~k~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~l   82 (307)
T 2ifu_A            3 AAQKISEAHEHIAKAEKYLKTSFMKWKPDYDSAASEYAKAAVAFKNAKQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQA   82 (307)
T ss_dssp             CHHHHHHHHHHHHHHHHHHCCCSSSCSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             ccchHHHHHHHHHHHHHHccccccCCCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            357888888888877653      112332    3577778889999999999999998765321   1  124578889


Q ss_pred             HHHHHcCCCHHHHHHHHHhccc----CCccc-cHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCC---C--cHhHHHHH
Q 046446          108 IDGLCKSGRLEIALELFHSLPR----GVLVA-DVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVA---P--NVITFGTL  177 (244)
Q Consensus       108 l~~~~~~~~~~~a~~~~~~~~~----~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~---p--~~~~~~~l  177 (244)
                      ...|...|++++|...|++..+    .|-.. ...+++.+...|.. |++++|...|++..+....   +  ...++..+
T Consensus        83 g~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~l  161 (307)
T 2ifu_A           83 GMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKA  161 (307)
T ss_dssp             HHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHH
Confidence            9999999999999999987643    22111 24678888899988 9999999999987643111   1  14678888


Q ss_pred             HHHHHhcCChhHHHHHHHHHHHC----CCCCC-hhhHHHHHHHHHhccccccchhhhhhhh
Q 046446          178 IHGFIRINEPSKVIELLHKMKEK----NVMPD-ASIVSIVVDLLAKNEISLNSLPSFTVHE  233 (244)
Q Consensus       178 ~~~~~~~g~~~~a~~~~~~~~~~----~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~  233 (244)
                      ...+.+.|++++|...|++....    +..+. ...+..+..++...|++++|+..|+...
T Consensus       162 g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~al  222 (307)
T 2ifu_A          162 SRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRESY  222 (307)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHT
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            99999999999999999998763    21111 2356667778888899999999998775

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=99.07  E-value=3.9e-09  Score=73.76  Aligned_cols=158  Identities=11%  Similarity=-0.060  Sum_probs=114.7

Q ss_pred             hhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHh----CC-CccHHhHHHHHHHHHcCCC
Q 046446           42 FEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRIL----KC-ELDIQAYSCLIDGLCKSGR  116 (244)
Q Consensus        42 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~ll~~~~~~~~  116 (244)
                      ...|++++|.+.++.+... ......++..+...+...|++++|...+++..+.    +. +....++..+...|...|+
T Consensus         3 ~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~   81 (203)
T 3gw4_A            3 FEAHDYALAERQAQALLAH-PATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGN   81 (203)
T ss_dssp             ----CHHHHHHHHHHHHTS-TTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTC
T ss_pred             cccccHHHHHHHHHHhcCC-hHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCC
Confidence            4678999999966555432 2235678889999999999999999999988762    11 2345678888899999999


Q ss_pred             HHHHHHHHHhcccC----Ccc--ccHHHHHHHHHHHHccCChHHHHHHHHHHHHcC---CCCc--HhHHHHHHHHHHhcC
Q 046446          117 LEIALELFHSLPRG----VLV--ADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENA---VAPN--VITFGTLIHGFIRIN  185 (244)
Q Consensus       117 ~~~a~~~~~~~~~~----~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~---~~p~--~~~~~~l~~~~~~~g  185 (244)
                      +++|...+++....    +-.  .....+..+...+...|++++|...+++..+..   ..+.  ..++..+...+...|
T Consensus        82 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g  161 (203)
T 3gw4_A           82 WDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEK  161 (203)
T ss_dssp             HHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCc
Confidence            99999999876543    211  224567888889999999999999998876321   1111  234577788888999


Q ss_pred             ChhHHHHHHHHHHHC
Q 046446          186 EPSKVIELLHKMKEK  200 (244)
Q Consensus       186 ~~~~a~~~~~~~~~~  200 (244)
                      ++++|...+++..+.
T Consensus       162 ~~~~A~~~~~~al~~  176 (203)
T 3gw4_A          162 NLLEAQQHWLRARDI  176 (203)
T ss_dssp             CHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHH
Confidence            999999999887643

>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=1.3e-08  Score=64.96  Aligned_cols=95  Identities=17%  Similarity=0.236  Sum_probs=40.5

Q ss_pred             HHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHH
Q 046446           68 TYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLY  147 (244)
Q Consensus        68 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  147 (244)
                      .+..+...+...|++++|.+.++++.+.. +.+..++..+...+...|++++|...++++.+.. +.+..++..+...+.
T Consensus        11 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~   88 (125)
T 1na0_A           11 AWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYY   88 (125)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHH
Confidence            33444444444444444444444444332 2233344444444444444444444444443321 223334444444444


Q ss_pred             ccCChHHHHHHHHHHHH
Q 046446          148 NDGQMDKAHDLFLDMEE  164 (244)
Q Consensus       148 ~~~~~~~a~~~~~~~~~  164 (244)
                      ..|++++|...++.+.+
T Consensus        89 ~~~~~~~A~~~~~~~~~  105 (125)
T 1na0_A           89 KQGDYDEAIEYYQKALE  105 (125)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHH
Confidence            44444444444444443

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=99.06  E-value=1.2e-08  Score=65.06  Aligned_cols=115  Identities=11%  Similarity=0.111  Sum_probs=94.0

Q ss_pred             hhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHH
Q 046446           31 VVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDG  110 (244)
Q Consensus        31 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~  110 (244)
                      ...+..+...+...|++++|...++++.+.. +.+..++..+...+...|++++|...++++.+.. +.+..++..+...
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~   86 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNA   86 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHH
Confidence            5678888888999999999999999998863 3467788899999999999999999999998875 5678888999999


Q ss_pred             HHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHc
Q 046446          111 LCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYN  148 (244)
Q Consensus       111 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  148 (244)
                      +...|++++|...++++.+.. +.+...+..+...+..
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~  123 (125)
T 1na0_A           87 YYKQGDYDEAIEYYQKALELD-PNNAEAKQNLGNAKQK  123 (125)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHh
Confidence            999999999999999987653 3345555555555443

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=99.06  E-value=4.7e-08  Score=72.67  Aligned_cols=164  Identities=13%  Similarity=0.001  Sum_probs=77.7

Q ss_pred             HHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCcc-----HHhHHHHHHHHHcCCCHHHHHHHHHhcccCC---cccc--HH
Q 046446           68 TYTIFIDGLCKNGYIVESVELFRTLRILKCELD-----IQAYSCLIDGLCKSGRLEIALELFHSLPRGV---LVAD--VV  137 (244)
Q Consensus        68 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~---~~~~--~~  137 (244)
                      .+...+..+...|++++|.+.+++..+......     ...+..+...+...|++++|...+++.....   ..+.  ..
T Consensus        77 ~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~  156 (293)
T 2qfc_A           77 QFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLY  156 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHH
Confidence            344445555555666666666555544321110     1122334444555556666666555543211   0111  33


Q ss_pred             HHHHHHHHHHccCChHHHHHHHHHHH---HcC-CCC--cHhHHHHHHHHHHhcCChhHHHHHHHHHHHC----CCCC-Ch
Q 046446          138 TYSIMIHGLYNDGQMDKAHDLFLDME---ENA-VAP--NVITFGTLIHGFIRINEPSKVIELLHKMKEK----NVMP-DA  206 (244)
Q Consensus       138 ~~~~li~~~~~~~~~~~a~~~~~~~~---~~~-~~p--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~~~~-~~  206 (244)
                      +++.+...|...|++++|...++...   +.. ..+  ...++..+...|...|++++|...+++..+.    +..+ -.
T Consensus       157 ~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~  236 (293)
T 2qfc_A          157 IENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIG  236 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHH
Confidence            55555566666666666666665544   111 011  1135555555566666666666665554432    1111 13


Q ss_pred             hhHHHHHHHHHhccccccc-hhhhhh
Q 046446          207 SIVSIVVDLLAKNEISLNS-LPSFTV  231 (244)
Q Consensus       207 ~~~~~l~~~~~~~g~~~~a-~~~~~~  231 (244)
                      .+|..+..+|.+.|+.++| ...++.
T Consensus       237 ~~~~~lg~~y~~~g~~~~Ai~~~~~~  262 (293)
T 2qfc_A          237 QLYYQRGECLRKLEYEEAEIEDAYKK  262 (293)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCcHHHHHHHHHH
Confidence            4455555566666666555 444443

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.05  E-value=1.3e-08  Score=65.76  Aligned_cols=94  Identities=15%  Similarity=-0.013  Sum_probs=41.3

Q ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHc
Q 046446           69 YTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYN  148 (244)
Q Consensus        69 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  148 (244)
                      +......|.+.|++++|++.|++..+.. +.+..+|..+..+|...|++++|+..+++..+.+ +.+...|..+..++..
T Consensus        16 ~~~~G~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~   93 (126)
T 4gco_A           16 EKNKGNEYFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYIRKAACLVA   93 (126)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHHHHHHHHHH
Confidence            3334444444444444444444444433 2334444444444444444444444444443332 2233444444444444


Q ss_pred             cCChHHHHHHHHHHHH
Q 046446          149 DGQMDKAHDLFLDMEE  164 (244)
Q Consensus       149 ~~~~~~a~~~~~~~~~  164 (244)
                      .|++++|.+.|+...+
T Consensus        94 ~~~~~~A~~~~~~al~  109 (126)
T 4gco_A           94 MREWSKAQRAYEDALQ  109 (126)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHH
Confidence            4444444444444443

>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=99.05  E-value=2.4e-09  Score=73.44  Aligned_cols=122  Identities=9%  Similarity=0.077  Sum_probs=74.3

Q ss_pred             hhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHH-HHhCCcH--
Q 046446            6 YCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDG-LCKNGYI--   82 (244)
Q Consensus         6 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~-~~~~~~~--   82 (244)
                      +...|++++|...++...+.. +.+...|..+...+...|++++|...|++..+.. +.+...+..+..+ +...|++  
T Consensus        20 ~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~~~~~   97 (177)
T 2e2e_A           20 FASQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQASQHMT   97 (177)
T ss_dssp             CC-----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTTTCCC
T ss_pred             hhhccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCCcch
Confidence            445667777777777666542 3355566666667777777777777777766542 2245556666666 5566666  


Q ss_pred             HHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccC
Q 046446           83 VESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRG  130 (244)
Q Consensus        83 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  130 (244)
                      ++|...+++..+.. +.+...+..+...|...|++++|...|++..+.
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            77777777666654 344566666666677777777777777666554

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=99.05  E-value=2e-08  Score=74.72  Aligned_cols=169  Identities=9%  Similarity=-0.019  Sum_probs=124.9

Q ss_pred             ChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCC-----hhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCC---Ccc-
Q 046446           30 DVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAAD-----TRTYTIFIDGLCKNGYIVESVELFRTLRILKC---ELD-  100 (244)
Q Consensus        30 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~---~~~-  100 (244)
                      ....+...+..+...|++++|.+.+++..+.....+     ...+..+...+...|++++|+..+++..+...   .+. 
T Consensus        74 ~~~~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~  153 (293)
T 2qfc_A           74 RKKQFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQ  153 (293)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTH
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHH
Confidence            456777778888899999999999988877532211     12344566778888999999999998875321   111 


Q ss_pred             -HHhHHHHHHHHHcCCCHHHHHHHHHhccc---C-Cccc--cHHHHHHHHHHHHccCChHHHHHHHHHHHHcC----CCC
Q 046446          101 -IQAYSCLIDGLCKSGRLEIALELFHSLPR---G-VLVA--DVVTYSIMIHGLYNDGQMDKAHDLFLDMEENA----VAP  169 (244)
Q Consensus       101 -~~~~~~ll~~~~~~~~~~~a~~~~~~~~~---~-~~~~--~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~----~~p  169 (244)
                       ..+++.+...|...|++++|...|++..+   . +..+  ...+++.+...|...|++++|...++...+..    ...
T Consensus       154 ~~~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~  233 (293)
T 2qfc_A          154 NLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMA  233 (293)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCS
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHH
Confidence             45788999999999999999999988762   1 1111  22588899999999999999999998876431    111


Q ss_pred             -cHhHHHHHHHHHHhcCChhHH-HHHHHHHH
Q 046446          170 -NVITFGTLIHGFIRINEPSKV-IELLHKMK  198 (244)
Q Consensus       170 -~~~~~~~l~~~~~~~g~~~~a-~~~~~~~~  198 (244)
                       -..+|..+..++...|++++| ...+++..
T Consensus       234 ~~~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al  264 (293)
T 2qfc_A          234 LIGQLYYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             SHHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCcHHHHHHHHHHHH
Confidence             156788888999999999999 77777755

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.04  E-value=1.3e-08  Score=65.69  Aligned_cols=113  Identities=12%  Similarity=0.028  Sum_probs=92.7

Q ss_pred             CCCC-hhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHH
Q 046446           27 IKPD-VVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYS  105 (244)
Q Consensus        27 ~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  105 (244)
                      +.|+ ...+......+.+.|++++|+..|++..+.. +.+..+|..+..++.+.|++++|++.+++..+.+ +.+...|.
T Consensus         8 inP~~a~~~~~~G~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~   85 (126)
T 4gco_A            8 INPELAQEEKNKGNEYFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYI   85 (126)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             HCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHH
Confidence            3454 3467788888999999999999999998873 3478889999999999999999999999999876 56788899


Q ss_pred             HHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHH
Q 046446          106 CLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIM  142 (244)
Q Consensus       106 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  142 (244)
                      .+..++...|++++|...|++..+.. |-+...+..+
T Consensus        86 ~lg~~~~~~~~~~~A~~~~~~al~l~-P~~~~a~~~l  121 (126)
T 4gco_A           86 RKAACLVAMREWSKAQRAYEDALQVD-PSNEEAREGV  121 (126)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHC-cCCHHHHHHH
Confidence            99999999999999999999988763 2344444444

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=99.03  E-value=9e-09  Score=66.30  Aligned_cols=116  Identities=13%  Similarity=-0.036  Sum_probs=50.3

Q ss_pred             HHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHH
Q 046446           68 TYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLY  147 (244)
Q Consensus        68 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  147 (244)
                      .+..+...+...|++++|...+++..+.. +.+...+..+..++...|++++|...+++..... +.+...+..+...+.
T Consensus        14 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~   91 (131)
T 2vyi_A           14 RLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGLALS   91 (131)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHHHHH
Confidence            33344444444444444444444444332 2234444444444444444444444444443321 223444444444555


Q ss_pred             ccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCC
Q 046446          148 NDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINE  186 (244)
Q Consensus       148 ~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~  186 (244)
                      ..|++++|...++...+... .+...+..+..++...|+
T Consensus        92 ~~~~~~~A~~~~~~~~~~~p-~~~~~~~~l~~~~~~~~~  129 (131)
T 2vyi_A           92 SLNKHVEAVAYYKKALELDP-DNETYKSNLKIAELKLRE  129 (131)
T ss_dssp             HTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHTT
T ss_pred             HhCCHHHHHHHHHHHHhcCc-cchHHHHHHHHHHHHHhc
Confidence            55555555555554444321 133344444444444443

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=99.03  E-value=2e-08  Score=64.63  Aligned_cols=118  Identities=10%  Similarity=-0.032  Sum_probs=63.8

Q ss_pred             hhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHH
Q 046446           31 VVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDG  110 (244)
Q Consensus        31 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~  110 (244)
                      ...+..+...+...|+++.|...+++..... +.+...+..+...+...|++++|.+.+++..+.. +.+...+..+...
T Consensus        12 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~   89 (131)
T 2vyi_A           12 AERLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGLA   89 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHHH
Confidence            3445555555555666666666666655542 2244555555566666666666666666655543 3345555555566


Q ss_pred             HHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCC
Q 046446          111 LCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQ  151 (244)
Q Consensus       111 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~  151 (244)
                      +...|++++|...|++..+.. +.+...+..+..++...|+
T Consensus        90 ~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~  129 (131)
T 2vyi_A           90 LSSLNKHVEAVAYYKKALELD-PDNETYKSNLKIAELKLRE  129 (131)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTT
T ss_pred             HHHhCCHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHhc
Confidence            666666666666666555432 2234455555555544443

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=99.02  E-value=1.5e-08  Score=65.56  Aligned_cols=92  Identities=13%  Similarity=0.022  Sum_probs=34.4

Q ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHc
Q 046446           69 YTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYN  148 (244)
Q Consensus        69 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  148 (244)
                      +..+...+...|++++|...+++..+.. +.+..++..+..++...|++++|...+++..+.. +.+...+..+..++..
T Consensus        19 ~~~~~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~   96 (133)
T 2lni_A           19 VKNKGNECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRKAAALEA   96 (133)
T ss_dssp             HHHHHHHHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHH
Confidence            3333333334444444444444333322 1233333333333334444444444433333221 1123333333334444


Q ss_pred             cCChHHHHHHHHHH
Q 046446          149 DGQMDKAHDLFLDM  162 (244)
Q Consensus       149 ~~~~~~a~~~~~~~  162 (244)
                      .|++++|.+.|+..
T Consensus        97 ~~~~~~A~~~~~~~  110 (133)
T 2lni_A           97 MKDYTKAMDVYQKA  110 (133)
T ss_dssp             TTCHHHHHHHHHHH
T ss_pred             HhhHHHHHHHHHHH
Confidence            44444444444333

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=99.01  E-value=1.4e-08  Score=65.72  Aligned_cols=120  Identities=10%  Similarity=-0.027  Sum_probs=96.2

Q ss_pred             CCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHH
Q 046446           28 KPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCL  107 (244)
Q Consensus        28 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  107 (244)
                      +.+...+..+...+...|++++|...|++..+.. +.+..++..+...+...|++++|.+.+++..+.. +.+...+..+
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l   90 (133)
T 2lni_A           13 PDLALMVKNKGNECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRK   90 (133)
T ss_dssp             SCHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHH
Confidence            3456678888888999999999999999988763 3367888889999999999999999999988875 4577888899


Q ss_pred             HHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccC
Q 046446          108 IDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDG  150 (244)
Q Consensus       108 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~  150 (244)
                      ..++...|++++|...|++..+.. +.+...+..+...+...|
T Consensus        91 a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~  132 (133)
T 2lni_A           91 AAALEAMKDYTKAMDVYQKALDLD-SSCKEAADGYQRCMMAQY  132 (133)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-GGGTHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHhc
Confidence            999999999999999999887653 234556666666665544

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=99.01  E-value=1.5e-08  Score=67.55  Aligned_cols=97  Identities=14%  Similarity=0.010  Sum_probs=58.5

Q ss_pred             hHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHH
Q 046446           67 RTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGL  146 (244)
Q Consensus        67 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  146 (244)
                      ..+..+...+.+.|++++|...|++..+.. |.+...|..+..+|...|++++|...|++..... +.+...|..+..+|
T Consensus        37 ~~~~~lg~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~-P~~~~~~~~lg~~~  114 (151)
T 3gyz_A           37 DDIYSYAYDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALG-KNDYTPVFHTGQCQ  114 (151)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SSCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHH
Confidence            345555566666666666666666666554 3455666666666666666666666666655543 23455566666666


Q ss_pred             HccCChHHHHHHHHHHHHc
Q 046446          147 YNDGQMDKAHDLFLDMEEN  165 (244)
Q Consensus       147 ~~~~~~~~a~~~~~~~~~~  165 (244)
                      ...|++++|...|+...+.
T Consensus       115 ~~lg~~~eA~~~~~~al~l  133 (151)
T 3gyz_A          115 LRLKAPLKAKECFELVIQH  133 (151)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHh
Confidence            6666666666666666553

>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=99.01  E-value=4.1e-09  Score=72.22  Aligned_cols=121  Identities=7%  Similarity=0.115  Sum_probs=77.2

Q ss_pred             hhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHH-HHcCCCH--H
Q 046446           42 FEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDG-LCKSGRL--E  118 (244)
Q Consensus        42 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~-~~~~~~~--~  118 (244)
                      ...|++++|...+++..+.. +.+...+..+...|...|++++|...|++..+.. +.+...+..+..+ +...|++  +
T Consensus        21 ~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~~~~~~   98 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQASQHMTA   98 (177)
T ss_dssp             C-----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTTTCCCH
T ss_pred             hhccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCCcchH
Confidence            34566777777777766652 2355667777777777777777777777776654 3455666666666 6666776  7


Q ss_pred             HHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHc
Q 046446          119 IALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEEN  165 (244)
Q Consensus       119 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  165 (244)
                      +|...+++..+.. +.+...+..+...+...|++++|...|+...+.
T Consensus        99 ~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  144 (177)
T 2e2e_A           99 QTRAMIDKALALD-SNEITALMLLASDAFMQANYAQAIELWQKVMDL  144 (177)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhh
Confidence            7777777766543 234566666777777777777777777776654

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=99.00  E-value=6.8e-08  Score=79.64  Aligned_cols=220  Identities=12%  Similarity=-0.063  Sum_probs=154.9

Q ss_pred             hHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHH-HHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHH
Q 046446           13 EGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAF-KLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRT   91 (244)
Q Consensus        13 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~-~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~   91 (244)
                      +++..+|++.... ++-+...|-..+..+...|+.++|. .+|++.... .+.+...|-..+...-+.|+++.|.++|++
T Consensus       326 ~Rv~~~Ye~aL~~-~p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~-~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek  403 (679)
T 4e6h_A          326 ARMTYVYMQAAQH-VCFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETTILS  403 (679)
T ss_dssp             HHHHHHHHHHHHH-TTTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH-cCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            3456677777665 2446677777777777788888886 899888765 444566677778888888999999999988


Q ss_pred             HHHhCC---------Cc------------cHHhHHHHHHHHHcCCCHHHHHHHHHhcccC-CccccHHHHHHHHHHHHcc
Q 046446           92 LRILKC---------EL------------DIQAYSCLIDGLCKSGRLEIALELFHSLPRG-VLVADVVTYSIMIHGLYND  149 (244)
Q Consensus        92 ~~~~~~---------~~------------~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~li~~~~~~  149 (244)
                      +.+...         .|            ...+|...+....+.|..+.|..+|.+..+. + ......|...+..-.+.
T Consensus       404 ~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~-~~~~~lyi~~A~lE~~~  482 (679)
T 4e6h_A          404 CIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKK-LVTPDIYLENAYIEYHI  482 (679)
T ss_dssp             HHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGG-GSCTHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHHh
Confidence            876310         13            2346788888888888899999999988765 2 12233443333332333


Q ss_pred             -CChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCC--ChhhHHHHHHHHHhccccccch
Q 046446          150 -GQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMP--DASIVSIVVDLLAKNEISLNSL  226 (244)
Q Consensus       150 -~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~a~  226 (244)
                       ++.+.|..+|+...+. .+-+...|...+......|+.+.|..+|++.......+  ....|...++.-.+.|+.+.+.
T Consensus       483 ~~d~e~Ar~ife~~Lk~-~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~  561 (679)
T 4e6h_A          483 SKDTKTACKVLELGLKY-FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVR  561 (679)
T ss_dssp             TSCCHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHH
T ss_pred             CCCHHHHHHHHHHHHHH-CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHH
Confidence             4589999999887765 33356666777777778899999999999888764322  3456777777777888888888


Q ss_pred             hhhhhhhhhh
Q 046446          227 PSFTVHERQE  236 (244)
Q Consensus       227 ~~~~~~~~~~  236 (244)
                      .+.+.+.+..
T Consensus       562 ~v~~R~~~~~  571 (679)
T 4e6h_A          562 TLEKRFFEKF  571 (679)
T ss_dssp             HHHHHHHHHS
T ss_pred             HHHHHHHHhC
Confidence            8888776543

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.98  E-value=4e-08  Score=65.53  Aligned_cols=103  Identities=10%  Similarity=-0.076  Sum_probs=90.6

Q ss_pred             ChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHH
Q 046446           30 DVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLID  109 (244)
Q Consensus        30 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  109 (244)
                      +...+..+...+.+.|++++|+..|++..... +-+...|..+..++...|++++|+..|++..+.. |.+...|..+..
T Consensus        35 ~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~-P~~~~~~~~lg~  112 (151)
T 3gyz_A           35 MMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALG-KNDYTPVFHTGQ  112 (151)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SSCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-CCCcHHHHHHHH
Confidence            34567788888999999999999999999874 3378899999999999999999999999999886 567889999999


Q ss_pred             HHHcCCCHHHHHHHHHhcccCCccccH
Q 046446          110 GLCKSGRLEIALELFHSLPRGVLVADV  136 (244)
Q Consensus       110 ~~~~~~~~~~a~~~~~~~~~~~~~~~~  136 (244)
                      +|...|++++|...|++..+..  |+.
T Consensus       113 ~~~~lg~~~eA~~~~~~al~l~--~~~  137 (151)
T 3gyz_A          113 CQLRLKAPLKAKECFELVIQHS--NDE  137 (151)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC--CCH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC--CCH
Confidence            9999999999999999988763  554

>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=98.98  E-value=2.4e-08  Score=75.81  Aligned_cols=123  Identities=8%  Similarity=-0.104  Sum_probs=59.8

Q ss_pred             hhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCC--------------hhHHHHHHHHHHhCCcHHHHHHHHHHHHHhC
Q 046446           31 VVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAAD--------------TRTYTIFIDGLCKNGYIVESVELFRTLRILK   96 (244)
Q Consensus        31 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~--------------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~   96 (244)
                      ...+..+...+.+.|++++|+..|++..+......              ..+|..+..++.+.|++++|+..+++..+..
T Consensus       147 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~  226 (336)
T 1p5q_A          147 STIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELD  226 (336)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            33455555555556666666666665555421111              2444555555555555555555555554443


Q ss_pred             CCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHH
Q 046446           97 CELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKA  155 (244)
Q Consensus        97 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a  155 (244)
                       +.+..+|..+..+|...|++++|...|++..+.. +.+...+..+..++...|+.+++
T Consensus       227 -p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a  283 (336)
T 1p5q_A          227 -SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQQRIRRQLAR  283 (336)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHHHHHHHH
T ss_pred             -CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHH
Confidence             2344445555555555555555555555444432 22344444444444444444444

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.97  E-value=5.5e-08  Score=71.11  Aligned_cols=191  Identities=10%  Similarity=0.007  Sum_probs=139.9

Q ss_pred             hcCChhHHHHHHHHHHhCCCCCChhhHHHH-------HHHHhhhchHHHHHHHHHHHHHcCCCCC---------------
Q 046446            8 KNKEIEGALNLYSEMLSKGIKPDVVIHNTL-------FIGLFEIHQVERAFKLFDEMQRDGVAAD---------------   65 (244)
Q Consensus         8 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-------i~~~~~~~~~~~a~~~~~~m~~~~~~~~---------------   65 (244)
                      +.++...|.+.|.+..... +-....|..+       ...+...++..+++..+.+-.+  +.|+               
T Consensus        18 ~~~d~~~A~~~F~~a~~~d-P~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~--l~p~~l~a~~~~~g~y~~~   94 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYD-ESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQ--ISMSTLNARIAIGGLYGDI   94 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTT--CCGGGGCCEEECCTTTCCC
T ss_pred             cCCCHHHHHHHHHHHHHhC-hhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhc--CChhhhhhhhccCCccccc
Confidence            5799999999999999873 3356677777       4556666666666555554443  2222               


Q ss_pred             -------hhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCcccc--H
Q 046446           66 -------TRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVAD--V  136 (244)
Q Consensus        66 -------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--~  136 (244)
                             ....-.....+...|++++|.++|+.+...+  |+......+...+.+.+++++|+..|+...... .|.  .
T Consensus        95 ~~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~~  171 (282)
T 4f3v_A           95 TYPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAG  171 (282)
T ss_dssp             EEECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHH
T ss_pred             ccccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHH
Confidence                   1223345677888999999999999887654  443366666778999999999999999776542 121  3


Q ss_pred             HHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCc--HhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCh
Q 046446          137 VTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPN--VITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDA  206 (244)
Q Consensus       137 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  206 (244)
                      ..+..+..++...|++++|++.|++.......|.  .........++.+.|+.++|..+|+++....  |+.
T Consensus       172 ~a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~--P~~  241 (282)
T 4f3v_A          172 AAGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTH--PEP  241 (282)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS--CCH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CcH
Confidence            4678888999999999999999999875433243  3456677778889999999999999999864  553

>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=98.96  E-value=3.1e-09  Score=78.63  Aligned_cols=98  Identities=11%  Similarity=-0.097  Sum_probs=64.8

Q ss_pred             ChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHH
Q 046446           30 DVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLID  109 (244)
Q Consensus        30 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  109 (244)
                      +...+..+...+...|++++|+..|++..+.. +.+...|..+..++.+.|++++|.+.+++..+.. +.+...+..+..
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~   80 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQ   80 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            34455666666667777777777777766652 2256666677777777777777777777766654 345666667777


Q ss_pred             HHHcCCCHHHHHHHHHhccc
Q 046446          110 GLCKSGRLEIALELFHSLPR  129 (244)
Q Consensus       110 ~~~~~~~~~~a~~~~~~~~~  129 (244)
                      +|...|++++|...|++..+
T Consensus        81 ~~~~~g~~~~A~~~~~~al~  100 (281)
T 2c2l_A           81 CQLEMESYDEAIANLQRAYS  100 (281)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHH
Confidence            77777777777777766554

>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=98.95  E-value=1.9e-07  Score=70.52  Aligned_cols=221  Identities=12%  Similarity=0.058  Sum_probs=163.6

Q ss_pred             cCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhc-hHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhC-C-cHHHH
Q 046446            9 NKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIH-QVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKN-G-YIVES   85 (244)
Q Consensus         9 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~-~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~-~-~~~~a   85 (244)
                      .+..++|+++++.++... +-+..+|+.--..+...| .+++++.+++.+...... +..+|+.-...+... + +++++
T Consensus        67 ~e~se~AL~lt~~~L~~n-P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPK-ny~aW~hR~wlL~~l~~~~~~~E  144 (349)
T 3q7a_A           67 EEKSERALELTEIIVRMN-PAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLK-SYQVWHHRLLLLDRISPQDPVSE  144 (349)
T ss_dssp             TCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCC-CHHHHHHHHHHHHHHCCSCCHHH
T ss_pred             CCCCHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHhcCCChHHH
Confidence            344568999999998873 334556777767777777 599999999999987443 777888777776665 6 88999


Q ss_pred             HHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHH--------HHHHHHHhcccCCccccHHHHHHHHHHHHccCC------
Q 046446           86 VELFRTLRILKCELDIQAYSCLIDGLCKSGRLE--------IALELFHSLPRGVLVADVVTYSIMIHGLYNDGQ------  151 (244)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~--------~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~------  151 (244)
                      +++++.+.+.. +.|..+|+.-.-.+.+.|.++        ++++.++++.+.+ +-|...|+.....+.+.++      
T Consensus       145 L~~~~k~L~~d-pkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~d-p~N~SAW~~R~~lL~~l~~~~~~~~  222 (349)
T 3q7a_A          145 IEYIHGSLLPD-PKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVD-GRNNSAWGWRWYLRVSRPGAETSSR  222 (349)
T ss_dssp             HHHHHHHTSSC-TTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHTTSTTCCCCHH
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccccchH
Confidence            99999999876 568888887766666666665        8999999988775 4588899998888888776      


Q ss_pred             -hHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCCh--------------------hHHHHHHHHHHHCC-----CCCC
Q 046446          152 -MDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEP--------------------SKVIELLHKMKEKN-----VMPD  205 (244)
Q Consensus       152 -~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~--------------------~~a~~~~~~~~~~~-----~~~~  205 (244)
                       ++++++.++....... -|...|+.+-..+.+.|+.                    ....+...++...+     -.++
T Consensus       223 ~~~eELe~~~~aI~~~P-~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s  301 (349)
T 3q7a_A          223 SLQDELIYILKSIHLIP-HNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPEDTPLPV  301 (349)
T ss_dssp             HHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCCSSCCSCC
T ss_pred             HHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhcccccccCCCc
Confidence             6888899988887643 3778888877777666654                    23333333333221     1357


Q ss_pred             hhhHHHHHHHHHhccccccchhhhhhhhh
Q 046446          206 ASIVSIVVDLLAKNEISLNSLPSFTVHER  234 (244)
Q Consensus       206 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  234 (244)
                      ......+++.|...|+.++|.+.++.+..
T Consensus       302 ~~al~~l~d~~~~~~~~~~a~~~~~~l~~  330 (349)
T 3q7a_A          302 PLALEYLADSFIEQNRVDDAAKVFEKLSS  330 (349)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Confidence            78889999999999999999999998853

>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=98.94  E-value=7.7e-09  Score=68.85  Aligned_cols=94  Identities=12%  Similarity=0.010  Sum_probs=44.9

Q ss_pred             hHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHH
Q 046446           33 IHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLC  112 (244)
Q Consensus        33 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~  112 (244)
                      .+..+...+...|++++|+..|++..... +.+...|..+..++...|++++|+..|++..+.. +.+...+..+..+|.
T Consensus        23 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~  100 (148)
T 2vgx_A           23 QLYSLAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-IXEPRFPFHAAECLL  100 (148)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHHH
Confidence            34444444455555555555555544432 1244444445555555555555555555554443 233444444445555


Q ss_pred             cCCCHHHHHHHHHhcc
Q 046446          113 KSGRLEIALELFHSLP  128 (244)
Q Consensus       113 ~~~~~~~a~~~~~~~~  128 (244)
                      ..|++++|...|+...
T Consensus       101 ~~g~~~~A~~~~~~al  116 (148)
T 2vgx_A          101 QXGELAEAESGLFLAQ  116 (148)
T ss_dssp             HTTCHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHH
Confidence            5555555555554443

>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=98.93  E-value=4.4e-08  Score=74.36  Aligned_cols=150  Identities=11%  Similarity=-0.037  Sum_probs=113.4

Q ss_pred             chHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCcc---------------HHhHHHHHH
Q 046446           45 HQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELD---------------IQAYSCLID  109 (244)
Q Consensus        45 ~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~---------------~~~~~~ll~  109 (244)
                      +++++|...|+...+.. +-+...+..+...+.+.|++++|...|++..+... .+               ..+|..+..
T Consensus       127 ~~~~~A~~~~~~a~~~~-p~~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p-~~~~~~~~~~~~~~~~~~~~~~nla~  204 (336)
T 1p5q_A          127 KSFEKAKESWEMNSEEK-LEQSTIVKERGTVYFKEGKYKQALLQYKKIVSWLE-YESSFSNEEAQKAQALRLASHLNLAM  204 (336)
T ss_dssp             EEEECCCCGGGCCHHHH-HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTT-TCCCCCSHHHHHHHHHHHHHHHHHHH
T ss_pred             eecccccchhcCCHHHH-HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhh-ccccCChHHHHHHHHHHHHHHHHHHH
Confidence            44455555554433321 11456788888999999999999999999988752 23               478888999


Q ss_pred             HHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhH
Q 046446          110 GLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSK  189 (244)
Q Consensus       110 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~  189 (244)
                      +|.+.|++++|...+++..+.. +.+...|..+..+|...|++++|...|+...+... .+...+..+..++.+.|+.++
T Consensus       205 ~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P-~~~~a~~~l~~~~~~~~~~~~  282 (336)
T 1p5q_A          205 CHLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYP-NNKAAKTQLAVCQQRIRRQLA  282 (336)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-SCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999888764 44688888999999999999999999999887532 356778888888888888887


Q ss_pred             H-HHHHHHHH
Q 046446          190 V-IELLHKMK  198 (244)
Q Consensus       190 a-~~~~~~~~  198 (244)
                      + ...++.|.
T Consensus       283 a~~~~~~~~~  292 (336)
T 1p5q_A          283 REKKLYANMF  292 (336)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            7 44555554

>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=98.92  E-value=1.6e-07  Score=59.17  Aligned_cols=97  Identities=14%  Similarity=-0.007  Sum_probs=52.3

Q ss_pred             hhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHH
Q 046446           32 VIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGL  111 (244)
Q Consensus        32 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~  111 (244)
                      ..+..+...+...|++++|...|++..... +.+...+..+...+...|++++|...+++..+.. +.+...+..+..++
T Consensus         5 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~   82 (118)
T 1elw_A            5 NELKEKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAAL   82 (118)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHHHH
Confidence            344445555555566666666666555542 2244555555555555566666666665555543 23445555555555


Q ss_pred             HcCCCHHHHHHHHHhcccC
Q 046446          112 CKSGRLEIALELFHSLPRG  130 (244)
Q Consensus       112 ~~~~~~~~a~~~~~~~~~~  130 (244)
                      ...|++++|...+++..+.
T Consensus        83 ~~~~~~~~A~~~~~~~~~~  101 (118)
T 1elw_A           83 EFLNRFEEAKRTYEEGLKH  101 (118)
T ss_dssp             HHTTCHHHHHHHHHHHHTT
T ss_pred             HHHhhHHHHHHHHHHHHHc
Confidence            5555555555555555444

>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=98.91  E-value=1.4e-07  Score=77.83  Aligned_cols=208  Identities=11%  Similarity=0.003  Sum_probs=155.8

Q ss_pred             hhhhcCChhHHH-HHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcC---------CCCC---------
Q 046446            5 GYCKNKEIEGAL-NLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDG---------VAAD---------   65 (244)
Q Consensus         5 ~~~~~~~~~~a~-~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~---------~~~~---------   65 (244)
                      .+.+.|+.+.|. .+|++.... .+.+...|-..+...-+.|+++.|.++|+++....         ..|+         
T Consensus       352 ~~~~~~~~~~a~r~il~rAi~~-~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~  430 (679)
T 4e6h_A          352 YQGEKNTDSTVITKYLKLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLK  430 (679)
T ss_dssp             HHHHHSCCTTHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHH
T ss_pred             HHHhcCcHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhc
Confidence            345678888997 999999875 34566667778888888999999999999988641         0132         


Q ss_pred             ---hhHHHHHHHHHHhCCcHHHHHHHHHHHHHh-CCCccHHhHHHHHHHHHcC-CCHHHHHHHHHhcccCCccccHHHHH
Q 046446           66 ---TRTYTIFIDGLCKNGYIVESVELFRTLRIL-KCELDIQAYSCLIDGLCKS-GRLEIALELFHSLPRGVLVADVVTYS  140 (244)
Q Consensus        66 ---~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~ll~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~  140 (244)
                         ..+|...+....+.|..+.|.++|.+..+. + ......|...+..-.+. ++.+.|.++|+...+. .+.+...|.
T Consensus       431 ~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~-~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~-~p~~~~~w~  508 (679)
T 4e6h_A          431 SKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKK-LVTPDIYLENAYIEYHISKDTKTACKVLELGLKY-FATDGEYIN  508 (679)
T ss_dssp             HHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGG-GSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHH-HTTCHHHHH
T ss_pred             cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCchHHHH
Confidence               236777888888889999999999999876 3 22334444333333344 4589999999998876 344677778


Q ss_pred             HHHHHHHccCChHHHHHHHHHHHHcCCCC--cHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHH
Q 046446          141 IMIHGLYNDGQMDKAHDLFLDMEENAVAP--NVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLA  217 (244)
Q Consensus       141 ~li~~~~~~~~~~~a~~~~~~~~~~~~~p--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  217 (244)
                      ..+......|+.+.|..+|+........+  ....|...+..-.+.|+.+.+..+.+++.+.-  |+......+++-|.
T Consensus       509 ~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~--P~~~~~~~f~~ry~  585 (679)
T 4e6h_A          509 KYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEKF--PEVNKLEEFTNKYK  585 (679)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHS--TTCCHHHHHHHHTC
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCcHHHHHHHHhc
Confidence            88888888999999999999988754321  34678888888888999999999999999863  55556666666553

>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=98.91  E-value=1.5e-08  Score=67.49  Aligned_cols=99  Identities=12%  Similarity=0.093  Sum_probs=69.0

Q ss_pred             ChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHH
Q 046446           65 DTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIH  144 (244)
Q Consensus        65 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  144 (244)
                      +...+..+...+.+.|++++|...|++..... +.+...|..+..+|...|++++|...|++..... +.+...+..+..
T Consensus        20 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~   97 (148)
T 2vgx_A           20 TLEQLYSLAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-IXEPRFPFHAAE   97 (148)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHH
Confidence            34456666677777777777777777777665 4566777777777777777777777777766543 335666777777


Q ss_pred             HHHccCChHHHHHHHHHHHHc
Q 046446          145 GLYNDGQMDKAHDLFLDMEEN  165 (244)
Q Consensus       145 ~~~~~~~~~~a~~~~~~~~~~  165 (244)
                      +|...|++++|...|+...+.
T Consensus        98 ~~~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A           98 CLLQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHH
Confidence            777777777777777776653

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.89  E-value=9e-07  Score=65.95  Aligned_cols=190  Identities=9%  Similarity=0.011  Sum_probs=149.8

Q ss_pred             hhcC--ChhHHHHHHHHHHhCCCCCChhhHHHHHHHH----hhh---chHHHHHHHHHHHHHcCCCCChhHHHHHHHHHH
Q 046446            7 CKNK--EIEGALNLYSEMLSKGIKPDVVIHNTLFIGL----FEI---HQVERAFKLFDEMQRDGVAADTRTYTIFIDGLC   77 (244)
Q Consensus         7 ~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~----~~~---~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~   77 (244)
                      ...|  +++++++.++.+.... +-+..+|+.--..+    ...   +++++++.+++.+.+... -+..+|+.-.-.+.
T Consensus        78 ~~l~~~~~~eeL~~~~~~L~~n-Pk~y~aW~~R~~iL~~~~~~l~~~~~~~~EL~~~~~~l~~~p-kny~aW~~R~~vl~  155 (306)
T 3dra_A           78 KNLPNRNLYDELDWCEEIALDN-EKNYQIWNYRQLIIGQIMELNNNDFDPYREFDILEAMLSSDP-KNHHVWSYRKWLVD  155 (306)
T ss_dssp             HTCTTSCHHHHHHHHHHHHHHC-TTCCHHHHHHHHHHHHHHHHTTTCCCTHHHHHHHHHHHHHCT-TCHHHHHHHHHHHH
T ss_pred             HHcccccHHHHHHHHHHHHHHC-cccHHHHHHHHHHHHHHHHhccccCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHH
Confidence            3445  8999999999998863 33445566544444    444   789999999999998743 38888888888888


Q ss_pred             hCCcHH--HHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCC------HHHHHHHHHhcccCCccccHHHHHHHHHHHHcc
Q 046446           78 KNGYIV--ESVELFRTLRILKCELDIQAYSCLIDGLCKSGR------LEIALELFHSLPRGVLVADVVTYSIMIHGLYND  149 (244)
Q Consensus        78 ~~~~~~--~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~------~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  149 (244)
                      +.|.++  ++++.++++.+.. +.|..+|+.-.......+.      ++++++.++++.... +-|...|+.+-..+.+.
T Consensus       156 ~l~~~~~~~EL~~~~~~i~~d-~~N~sAW~~R~~ll~~l~~~~~~~~~~eEl~~~~~aI~~~-p~n~SaW~y~~~ll~~~  233 (306)
T 3dra_A          156 TFDLHNDAKELSFVDKVIDTD-LKNNSAWSHRFFLLFSKKHLATDNTIDEELNYVKDKIVKC-PQNPSTWNYLLGIHERF  233 (306)
T ss_dssp             HTTCTTCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHSSGGGCCHHHHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHT
T ss_pred             HhcccChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccchhhhHHHHHHHHHHHHHhC-CCCccHHHHHHHHHHhc
Confidence            888888  9999999999987 5788899888888888777      899999999888765 55889999998888888


Q ss_pred             CChHH-HHHHHHHHHHcC--CCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 046446          150 GQMDK-AHDLFLDMEENA--VAPNVITFGTLIHGFIRINEPSKVIELLHKMKEK  200 (244)
Q Consensus       150 ~~~~~-a~~~~~~~~~~~--~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  200 (244)
                      |+... +..+...+.+.+  -..+...+..+...+.+.|+.++|.++++.+.+.
T Consensus       234 ~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~~l~~~  287 (306)
T 3dra_A          234 DRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVYDLLKSK  287 (306)
T ss_dssp             TCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             CCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhc
Confidence            87544 556666665433  1347788889999999999999999999999863

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.89  E-value=5.9e-08  Score=60.60  Aligned_cols=94  Identities=15%  Similarity=0.060  Sum_probs=40.1

Q ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccc--cHHHHHHHHHHH
Q 046446           69 YTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVA--DVVTYSIMIHGL  146 (244)
Q Consensus        69 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~li~~~  146 (244)
                      +..+...+...|++++|...+++..+.. +.+...+..+..++...|++++|...+++..+.. +.  +...+..+...+
T Consensus         9 ~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~l~~~~   86 (112)
T 2kck_A            9 YYLEGVLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAAKADAL   86 (112)
T ss_dssp             GGGHHHHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHHHHHHH
Confidence            3344444444444444444444444332 2233344444444444444444444444443331 11  233444444444


Q ss_pred             Hcc-CChHHHHHHHHHHHH
Q 046446          147 YND-GQMDKAHDLFLDMEE  164 (244)
Q Consensus       147 ~~~-~~~~~a~~~~~~~~~  164 (244)
                      ... |++++|.+.++....
T Consensus        87 ~~~~~~~~~A~~~~~~~~~  105 (112)
T 2kck_A           87 RYIEGKEVEAEIAEARAKL  105 (112)
T ss_dssp             TTCSSCSHHHHHHHHHHGG
T ss_pred             HHHhCCHHHHHHHHHHHhh
Confidence            444 444444444444443

>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=98.87  E-value=9.9e-08  Score=61.37  Aligned_cols=95  Identities=11%  Similarity=-0.048  Sum_probs=45.4

Q ss_pred             HHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHH
Q 046446           68 TYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLY  147 (244)
Q Consensus        68 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  147 (244)
                      .+..+...+.+.|++++|+..|++..+.. +.+...|..+..+|...|++++|...+++..+.. +.+...|..+..++.
T Consensus         6 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~   83 (126)
T 3upv_A            6 EARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQI   83 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHH
Confidence            34444444455555555555555544443 2344444555555555555555555555444432 223444445555555


Q ss_pred             ccCChHHHHHHHHHHHH
Q 046446          148 NDGQMDKAHDLFLDMEE  164 (244)
Q Consensus       148 ~~~~~~~a~~~~~~~~~  164 (244)
                      ..|++++|...|+...+
T Consensus        84 ~~~~~~~A~~~~~~al~  100 (126)
T 3upv_A           84 AVKEYASALETLDAART  100 (126)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HHhCHHHHHHHHHHHHH
Confidence            55555555555554443

>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=98.86  E-value=4.3e-09  Score=73.61  Aligned_cols=96  Identities=10%  Similarity=-0.032  Sum_probs=44.9

Q ss_pred             hHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCcc----------------HHhHHHHHHHHHcCCCHHHHHHHHHhcccC
Q 046446           67 RTYTIFIDGLCKNGYIVESVELFRTLRILKCELD----------------IQAYSCLIDGLCKSGRLEIALELFHSLPRG  130 (244)
Q Consensus        67 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~----------------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  130 (244)
                      ..+..+...+...|++++|...|++..+... .+                ..++..+..+|...|++++|...+++..+.
T Consensus        39 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~  117 (198)
T 2fbn_A           39 FDIKEEGNEFFKKNEINEAIVKYKEALDFFI-HTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKI  117 (198)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTTT-TCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHh-cccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            3444555555566666666666665554321 11                134444444444444444444444444433


Q ss_pred             CccccHHHHHHHHHHHHccCChHHHHHHHHHHHH
Q 046446          131 VLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEE  164 (244)
Q Consensus       131 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  164 (244)
                      . +.+...+..+..+|...|++++|...|+...+
T Consensus       118 ~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~  150 (198)
T 2fbn_A          118 D-KNNVKALYKLGVANMYFGFLEEAKENLYKAAS  150 (198)
T ss_dssp             S-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             C-cccHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence            2 22334444444444444444444444444443

>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=98.86  E-value=2.1e-07  Score=58.53  Aligned_cols=97  Identities=13%  Similarity=-0.027  Sum_probs=58.5

Q ss_pred             hhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHH
Q 046446           66 TRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHG  145 (244)
Q Consensus        66 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  145 (244)
                      ...+..+...+...|++++|...+++..... +.+...+..+..++...|++++|...+++..+.. +.+...+..+..+
T Consensus         4 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~   81 (118)
T 1elw_A            4 VNELKEKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAA   81 (118)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHHH
Confidence            3445556666666666677766666666553 3455566666666666666666666666655442 2245555666666


Q ss_pred             HHccCChHHHHHHHHHHHH
Q 046446          146 LYNDGQMDKAHDLFLDMEE  164 (244)
Q Consensus       146 ~~~~~~~~~a~~~~~~~~~  164 (244)
                      +...|++++|.+.++...+
T Consensus        82 ~~~~~~~~~A~~~~~~~~~  100 (118)
T 1elw_A           82 LEFLNRFEEAKRTYEEGLK  100 (118)
T ss_dssp             HHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHhhHHHHHHHHHHHHH
Confidence            6666666666666666554

>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=98.85  E-value=1.6e-07  Score=60.37  Aligned_cols=98  Identities=16%  Similarity=0.045  Sum_probs=79.8

Q ss_pred             hhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHH
Q 046446           31 VVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDG  110 (244)
Q Consensus        31 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~  110 (244)
                      ...|......+.+.|++++|+..|++..+.. +.+...|..+..++.+.|++++|+..+++..+.. +.+...|..+..+
T Consensus         4 a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~   81 (126)
T 3upv_A            4 AEEARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATA   81 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHH
Confidence            4456777778888889999999998888763 3367788888888889999999999998888875 4567788888888


Q ss_pred             HHcCCCHHHHHHHHHhcccC
Q 046446          111 LCKSGRLEIALELFHSLPRG  130 (244)
Q Consensus       111 ~~~~~~~~~a~~~~~~~~~~  130 (244)
                      +...|++++|...|++..+.
T Consensus        82 ~~~~~~~~~A~~~~~~al~~  101 (126)
T 3upv_A           82 QIAVKEYASALETLDAARTK  101 (126)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhCHHHHHHHHHHHHHh
Confidence            89999999999888887764

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.85  E-value=6.4e-07  Score=70.05  Aligned_cols=196  Identities=10%  Similarity=-0.068  Sum_probs=140.4

Q ss_pred             hhhhhcCChhHHHHHHHHHHhCCCCCC----------------hhhHHHHHHHHhhhchHHHHHHHHHHHHHcC-CCCCh
Q 046446            4 NGYCKNKEIEGALNLYSEMLSKGIKPD----------------VVIHNTLFIGLFEIHQVERAFKLFDEMQRDG-VAADT   66 (244)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~~~~~~~~~~----------------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~~~~~   66 (244)
                      ..+.+.|++++|++.|..+.+......                ...+..+...|...|++++|.+++.++...- ..++.
T Consensus        12 ~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~   91 (434)
T 4b4t_Q           12 RRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKS   91 (434)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccch
Confidence            456789999999999999988632111                1236778899999999999999999876531 11222


Q ss_pred             ----hHHHHHHHHHHhCCcHHHHHHHHHHHHHh----CC-CccHHhHHHHHHHHHcCCCHHHHHHHHHhcccC----C-c
Q 046446           67 ----RTYTIFIDGLCKNGYIVESVELFRTLRIL----KC-ELDIQAYSCLIDGLCKSGRLEIALELFHSLPRG----V-L  132 (244)
Q Consensus        67 ----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~-~  132 (244)
                          .+.+.+...+...|+.+.+.++++.....    +. ..-..++..+...|...|++++|..++++....    + .
T Consensus        92 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~  171 (434)
T 4b4t_Q           92 KTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDDK  171 (434)
T ss_dssp             HHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCS
T ss_pred             HHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhcccc
Confidence                22334444455678999999999887542    21 223567888999999999999999999876421    1 1


Q ss_pred             cccHHHHHHHHHHHHccCChHHHHHHHHHHHHc--CC-CC-c--HhHHHHHHHHHHhcCChhHHHHHHHHHHH
Q 046446          133 VADVVTYSIMIHGLYNDGQMDKAHDLFLDMEEN--AV-AP-N--VITFGTLIHGFIRINEPSKVIELLHKMKE  199 (244)
Q Consensus       133 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~--~~-~p-~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  199 (244)
                      +.....+..++..|...|++++|..+++.....  .. .| .  ...+..+...+...|++++|...|.+..+
T Consensus       172 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          172 PSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESFE  244 (434)
T ss_dssp             THHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            223567889999999999999999999886632  11 12 1  24456666777888999999988877653

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.83  E-value=3.9e-07  Score=66.66  Aligned_cols=188  Identities=7%  Similarity=-0.069  Sum_probs=136.8

Q ss_pred             hhchHHHHHHHHHHHHHcCCCCChhHHHHH-------HHHHHhCCcHHHHHHHHHHHHHhCCCcc---------------
Q 046446           43 EIHQVERAFKLFDEMQRDGVAADTRTYTIF-------IDGLCKNGYIVESVELFRTLRILKCELD---------------  100 (244)
Q Consensus        43 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l-------l~~~~~~~~~~~a~~~~~~~~~~~~~~~---------------  100 (244)
                      ..++...|.+.|.++.+.... ....|..+       ...+.+.++..+++..+..-..  +.|+               
T Consensus        18 ~~~d~~~A~~~F~~a~~~dP~-~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~--l~p~~l~a~~~~~g~y~~~   94 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYDES-ACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQ--ISMSTLNARIAIGGLYGDI   94 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTT--CCGGGGCCEEECCTTTCCC
T ss_pred             cCCCHHHHHHHHHHHHHhChh-hhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhc--CChhhhhhhhccCCccccc
Confidence            579999999999999987332 56677766       3455555555555555544433  1111               


Q ss_pred             -------HHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCc--H
Q 046446          101 -------IQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPN--V  171 (244)
Q Consensus       101 -------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~--~  171 (244)
                             ......+...+...|++++|.++|+.+...+  |+......+...+.+.+++++|+..|+...... .|.  .
T Consensus        95 ~~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~~  171 (282)
T 4f3v_A           95 TYPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAG  171 (282)
T ss_dssp             EEECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHH
T ss_pred             ccccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHH
Confidence                   2234556778889999999999999998864  544466777778999999999999998554421 111  2


Q ss_pred             hHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC--hhhHHHHHHHHHhccccccchhhhhhhhhhh
Q 046446          172 ITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPD--ASIVSIVVDLLAKNEISLNSLPSFTVHERQE  236 (244)
Q Consensus       172 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  236 (244)
                      ..+..+..++...|++++|+..|++.......|.  .........++.+.|+.++|...|+.+....
T Consensus       172 ~a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~  238 (282)
T 4f3v_A          172 AAGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTH  238 (282)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            3677788899999999999999999885443254  3456677789999999999999999886643

>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans}

Probab=98.83  E-value=1.4e-07  Score=60.92  Aligned_cols=95  Identities=9%  Similarity=-0.017  Sum_probs=43.3

Q ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCc--ccc----HHHHHHH
Q 046446           69 YTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVL--VAD----VVTYSIM  142 (244)
Q Consensus        69 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~--~~~----~~~~~~l  142 (244)
                      +..+...+.+.|++++|++.|++..+.. |.+..+|..+..+|...|++++|+..+++..+...  .++    ..+|..+
T Consensus        11 ~~~lG~~~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~l   89 (127)
T 4gcn_A           11 EKDLGNAAYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSRA   89 (127)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHHH
Confidence            3444445555555555555555544443 23444445555555555555555555544432210  000    1234444


Q ss_pred             HHHHHccCChHHHHHHHHHHHH
Q 046446          143 IHGLYNDGQMDKAHDLFLDMEE  164 (244)
Q Consensus       143 i~~~~~~~~~~~a~~~~~~~~~  164 (244)
                      ..++...|++++|.+.|+...+
T Consensus        90 g~~~~~~~~~~~A~~~~~kal~  111 (127)
T 4gcn_A           90 GNAFQKQNDLSLAVQWFHRSLS  111 (127)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHh
Confidence            4444555555555555554443

>3dss_A Geranylgeranyl transferase type-2 subunit alpha; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} PDB: 3dst_A* 3dsu_A* 3dsv_A* 3dsw_A* 3dsx_A* 3hxb_A* 3hxc_A* 3hxd_A* 3hxe_A* 3hxf_A* 3pz1_A* 3pz2_A* 3pz3_A* 3c72_A* 4gtv_A* 4gts_A* 4ehm_A* 4gtt_A*

Probab=98.81  E-value=4.5e-06  Score=62.71  Aligned_cols=220  Identities=13%  Similarity=0.028  Sum_probs=154.9

Q ss_pred             hhhcCChh-HHHHHHHHHHhCCCCCC-hhhHHHHHHHHhhhch----------HHHHHHHHHHHHHcCCCCChhHHHHHH
Q 046446            6 YCKNKEIE-GALNLYSEMLSKGIKPD-VVIHNTLFIGLFEIHQ----------VERAFKLFDEMQRDGVAADTRTYTIFI   73 (244)
Q Consensus         6 ~~~~~~~~-~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~~~----------~~~a~~~~~~m~~~~~~~~~~~~~~ll   73 (244)
                      ..+.|.++ +|+++++.+...  .|+ ...|+.--..+...+.          +++++.+++.+..... -+..+|+.-.
T Consensus        39 ~~~~~e~s~eaL~~t~~~L~~--nP~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~P-Kny~aW~hR~  115 (331)
T 3dss_A           39 KRQAGELDESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNP-KSYGTWHHRC  115 (331)
T ss_dssp             HHHTTCCSHHHHHHHHHHHTT--CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHH
T ss_pred             HHHcCCCCHHHHHHHHHHHHH--CchhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhCC-CCHHHHHHHH
Confidence            44566665 799999999987  344 4456654433433333          6889999999988743 3778888877


Q ss_pred             HHHHhCC--cHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCC-HHHHHHHHHhcccCCccccHHHHHHHHHHHHcc-
Q 046446           74 DGLCKNG--YIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGR-LEIALELFHSLPRGVLVADVVTYSIMIHGLYND-  149 (244)
Q Consensus        74 ~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~-  149 (244)
                      -.+...+  ++++++++++.+.+.. +.|..+|+.-...+...|. ++++++.+..+.+.+ +-|...|+.....+.+. 
T Consensus       116 wlL~~l~~~~~~~EL~~~~k~l~~d-prNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~-p~N~SAW~~R~~ll~~l~  193 (331)
T 3dss_A          116 WLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLH  193 (331)
T ss_dssp             HHHHHCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHHS
T ss_pred             HHHhccCcccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhh
Confidence            7777777  4899999999999987 6788999888888888888 689999999998775 45788888776666554 


Q ss_pred             -------------CChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhc-----------CChhHHHHHHHHHHHCCCCCC
Q 046446          150 -------------GQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRI-----------NEPSKVIELLHKMKEKNVMPD  205 (244)
Q Consensus       150 -------------~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~-----------g~~~~a~~~~~~~~~~~~~~~  205 (244)
                                   +.++++++.+........ -|...|+.+-..+.+.           +.++++++.++++.+.  .|+
T Consensus       194 ~~~~~~~~~~~~~~~~~eEle~~~~ai~~~P-~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle~--~pd  270 (331)
T 3dss_A          194 PQPDSGPQGRLPENVLLKELELVQNAFFTDP-NDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQEL--EPE  270 (331)
T ss_dssp             CCC------CCCHHHHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHHH--CTT
T ss_pred             hccccccccccchHHHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHhh--Ccc
Confidence                         457889999988887643 3777787665555544           3567888899998875  355


Q ss_pred             hhhHHHHHH-----HHHhccccccchhhhhhhhh
Q 046446          206 ASIVSIVVD-----LLAKNEISLNSLPSFTVHER  234 (244)
Q Consensus       206 ~~~~~~l~~-----~~~~~g~~~~a~~~~~~~~~  234 (244)
                      . .+..+..     .....|..+++...+..+.+
T Consensus       271 ~-~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~  303 (331)
T 3dss_A          271 N-KWCLLTIILLMRALDPLLYEKETLQYFSTLKA  303 (331)
T ss_dssp             C-HHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHH
T ss_pred             c-chHHHHHHHHHHhhcccccHHHHHHHHHHHHH
Confidence            4 2322222     22234555566666665544

>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=98.81  E-value=9.9e-08  Score=70.54  Aligned_cols=99  Identities=11%  Similarity=-0.121  Sum_probs=88.1

Q ss_pred             ChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHH
Q 046446           65 DTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIH  144 (244)
Q Consensus        65 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  144 (244)
                      +...+..+...+.+.|++++|...|++..+.. +.+...|..+..+|...|++++|...+++..+.. +.+...+..+..
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~   80 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQ   80 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            56778888999999999999999999999875 4588899999999999999999999999998874 446888999999


Q ss_pred             HHHccCChHHHHHHHHHHHHc
Q 046446          145 GLYNDGQMDKAHDLFLDMEEN  165 (244)
Q Consensus       145 ~~~~~~~~~~a~~~~~~~~~~  165 (244)
                      ++...|++++|...|+...+.
T Consensus        81 ~~~~~g~~~~A~~~~~~al~l  101 (281)
T 2c2l_A           81 CQLEMESYDEAIANLQRAYSL  101 (281)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHh
Confidence            999999999999999887653

>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=98.81  E-value=1.1e-07  Score=75.60  Aligned_cols=156  Identities=13%  Similarity=0.085  Sum_probs=113.6

Q ss_pred             hhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHH
Q 046446            4 NGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIV   83 (244)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   83 (244)
                      ..+.+.|++++|++.|++..+.. +.+...|..+..++.+.|++++|+..+++..+.. +-+..++..+..+|...|+++
T Consensus        14 ~~~~~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~~g~~~   91 (477)
T 1wao_1           14 NDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKFR   91 (477)
T ss_dssp             SSTTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHH
Confidence            45778999999999999998863 3457889999999999999999999999999873 336788999999999999999


Q ss_pred             HHHHHHHHHHHhCCCccHHhHHHHHHH--HHcCCCHHHHHHHHH-----------hcccCC-------c---cccHHHHH
Q 046446           84 ESVELFRTLRILKCELDIQAYSCLIDG--LCKSGRLEIALELFH-----------SLPRGV-------L---VADVVTYS  140 (244)
Q Consensus        84 ~a~~~~~~~~~~~~~~~~~~~~~ll~~--~~~~~~~~~a~~~~~-----------~~~~~~-------~---~~~~~~~~  140 (244)
                      +|.+.|++..+.. +.+...+..+..+  +.+.|++++|.+.++           +.....       .   ..+.....
T Consensus        92 eA~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~al~~~~~~~~~~~~~~~itl~~l~  170 (477)
T 1wao_1           92 AALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDEHKRSVVDSLDIESMTIEDEYSGPKLEDGKVTISFMK  170 (477)
T ss_dssp             HHHHHHHHHHHHS-TTCTTHHHHHHHHHHHHHHHHHCCC------CCSTTTCCTTSSCCCCTTCCSCCCGGGSCCHHHHH
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHhccccccchhHhhhhhhhccccccccccccccccccHHHHH
Confidence            9999999998875 3455566666655  888899999999998           332211       0   12345566


Q ss_pred             HHHHHHHccCChH--HHHHHHHHH
Q 046446          141 IMIHGLYNDGQMD--KAHDLFLDM  162 (244)
Q Consensus       141 ~li~~~~~~~~~~--~a~~~~~~~  162 (244)
                      .++..+...+...  .+..++...
T Consensus       171 ~lie~l~~~~~l~e~~v~~L~~~a  194 (477)
T 1wao_1          171 ELMQWYKDQKKLHRKCAYQILVQV  194 (477)
T ss_dssp             HHHHHHHTCCCCCHHHHHHHHHHH
T ss_pred             HHHHHHHcCCCCCHHHHHHHHHHH
Confidence            6777776665543  333344443

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.81  E-value=1.6e-07  Score=58.55  Aligned_cols=100  Identities=10%  Similarity=0.001  Sum_probs=85.0

Q ss_pred             ChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCc--cHHhHHHH
Q 046446           30 DVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCEL--DIQAYSCL  107 (244)
Q Consensus        30 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l  107 (244)
                      +...+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|.+.+++..+.. +.  +...+..+
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            45677788888889999999999999988863 3367788889999999999999999999998765 44  67888999


Q ss_pred             HHHHHcC-CCHHHHHHHHHhcccCC
Q 046446          108 IDGLCKS-GRLEIALELFHSLPRGV  131 (244)
Q Consensus       108 l~~~~~~-~~~~~a~~~~~~~~~~~  131 (244)
                      ..++... |++++|.+.++......
T Consensus        83 ~~~~~~~~~~~~~A~~~~~~~~~~~  107 (112)
T 2kck_A           83 ADALRYIEGKEVEAEIAEARAKLEH  107 (112)
T ss_dssp             HHHHTTCSSCSHHHHHHHHHHGGGC
T ss_pred             HHHHHHHhCCHHHHHHHHHHHhhcc
Confidence            9999999 99999999999988764

>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=98.80  E-value=8.7e-08  Score=61.60  Aligned_cols=95  Identities=8%  Similarity=0.048  Sum_probs=40.7

Q ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCc--ccc----HHHHHHH
Q 046446           69 YTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVL--VAD----VVTYSIM  142 (244)
Q Consensus        69 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~--~~~----~~~~~~l  142 (244)
                      +..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|...+++......  .++    ..++..+
T Consensus         7 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~l   85 (131)
T 1elr_A            7 EKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARI   85 (131)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHHH
Confidence            3344444444444444444444444432 23334444444444444444444444444333210  000    3344444


Q ss_pred             HHHHHccCChHHHHHHHHHHHH
Q 046446          143 IHGLYNDGQMDKAHDLFLDMEE  164 (244)
Q Consensus       143 i~~~~~~~~~~~a~~~~~~~~~  164 (244)
                      ..++...|++++|.+.|+...+
T Consensus        86 a~~~~~~~~~~~A~~~~~~~~~  107 (131)
T 1elr_A           86 GNSYFKEEKYKDAIHFYNKSLA  107 (131)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHH
Confidence            4444445555555555544444

>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=98.80  E-value=2.3e-07  Score=60.42  Aligned_cols=96  Identities=11%  Similarity=-0.117  Sum_probs=44.9

Q ss_pred             hhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHH
Q 046446           66 TRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHG  145 (244)
Q Consensus        66 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  145 (244)
                      ...+..+...+...|++++|...|++..+.. +.+...|..+..++...|++++|...+++..+.. +.+...+..+..+
T Consensus         9 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~   86 (137)
T 3q49_B            9 AQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQC   86 (137)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHHHHH
Confidence            3444444444555555555555555444433 2334444444444555555555555544444332 2234444444445


Q ss_pred             HHccCChHHHHHHHHHHH
Q 046446          146 LYNDGQMDKAHDLFLDME  163 (244)
Q Consensus       146 ~~~~~~~~~a~~~~~~~~  163 (244)
                      +...|++++|...|+...
T Consensus        87 ~~~~~~~~~A~~~~~~a~  104 (137)
T 3q49_B           87 QLEMESYDEAIANLQRAY  104 (137)
T ss_dssp             HHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHH
Confidence            555555555555554443

>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=98.80  E-value=1.4e-07  Score=65.74  Aligned_cols=153  Identities=10%  Similarity=-0.083  Sum_probs=105.6

Q ss_pred             hhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCCh----------------hHHH
Q 046446            7 CKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADT----------------RTYT   70 (244)
Q Consensus         7 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~----------------~~~~   70 (244)
                      ...|+++++.+.|+.-.... ......+..+...+...|++++|+..|++..+.... +.                .++.
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~~~~~~~~~~~~~~~~   92 (198)
T 2fbn_A           15 ENLYFQGAKKSIYDYTDEEK-VQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIH-TEEWDDQILLDKKKNIEISCNL   92 (198)
T ss_dssp             -------CCCSGGGCCHHHH-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTT-CTTCCCHHHHHHHHHHHHHHHH
T ss_pred             hhhhhccccCchhhCCHHHH-HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhc-ccccchhhHHHHHHHHHHHHHH
Confidence            34455566655554322210 123456777778888999999999999999875222 22                7888


Q ss_pred             HHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccC
Q 046446           71 IFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDG  150 (244)
Q Consensus        71 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~  150 (244)
                      .+..++...|++++|+..+++..+.. +.+..++..+..+|...|++++|...|++..+.. +.+...+..+...+...+
T Consensus        93 ~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~  170 (198)
T 2fbn_A           93 NLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASLN-PNNLDIRNSYELCVNKLK  170 (198)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHH
Confidence            89999999999999999999999875 5678889999999999999999999999987653 335677777777777777


Q ss_pred             ChHHHH-HHHHHHH
Q 046446          151 QMDKAH-DLFLDME  163 (244)
Q Consensus       151 ~~~~a~-~~~~~~~  163 (244)
                      +.+++. ..+..+.
T Consensus       171 ~~~~~~~~~~~~~f  184 (198)
T 2fbn_A          171 EARKKDKLTFGGMF  184 (198)
T ss_dssp             HHHC----------
T ss_pred             HHHHHHHHHHHHHh
Confidence            666665 4444443

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.80  E-value=1.3e-07  Score=62.23  Aligned_cols=86  Identities=13%  Similarity=0.043  Sum_probs=33.1

Q ss_pred             HHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHH
Q 046446           39 IGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLE  118 (244)
Q Consensus        39 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~  118 (244)
                      ..+.+.|++++|...|++..... +.+...|..+..++...|++++|...|++..+.. +.+...+..+..+|...|+++
T Consensus        26 ~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~  103 (142)
T 2xcb_A           26 FNQYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAAECHLQLGDLD  103 (142)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHH
Confidence            33333444444444444433331 1133333334444444444444444444443332 223333333333444444444


Q ss_pred             HHHHHHHh
Q 046446          119 IALELFHS  126 (244)
Q Consensus       119 ~a~~~~~~  126 (244)
                      +|...|+.
T Consensus       104 ~A~~~~~~  111 (142)
T 2xcb_A          104 GAESGFYS  111 (142)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            44444433

>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=98.79  E-value=7.5e-08  Score=61.93  Aligned_cols=111  Identities=12%  Similarity=0.073  Sum_probs=81.2

Q ss_pred             hhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCC--Ccc----HHhH
Q 046446           31 VVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKC--ELD----IQAY  104 (244)
Q Consensus        31 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~--~~~----~~~~  104 (244)
                      ...+..+...+...|++++|...|++..+.. +.+...+..+...+...|++++|...+++..+...  .++    ..++
T Consensus         4 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~   82 (131)
T 1elr_A            4 ALKEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAY   82 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHH
Confidence            3456677777888888888888888887763 33667778888888888888888888888776531  111    6677


Q ss_pred             HHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHH
Q 046446          105 SCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIH  144 (244)
Q Consensus       105 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  144 (244)
                      ..+..++...|++++|...|+...+.  .|+......+..
T Consensus        83 ~~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~  120 (131)
T 1elr_A           83 ARIGNSYFKEEKYKDAIHFYNKSLAE--HRTPDVLKKCQQ  120 (131)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHh--CCCHHHHHHHHH
Confidence            78888888888888888888887765  345555544443

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.78  E-value=2.9e-07  Score=62.12  Aligned_cols=96  Identities=10%  Similarity=-0.037  Sum_probs=48.9

Q ss_pred             hHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHH
Q 046446           67 RTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGL  146 (244)
Q Consensus        67 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  146 (244)
                      ..+..+...+.+.|++++|++.|++..+.. +.+...|..+..+|...|++++|...|++..+.. +.+...|..+..+|
T Consensus        12 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~   89 (164)
T 3sz7_A           12 DKLKSEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWSRLGLAR   89 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            344444555555555555555555555443 2344455555555555555555555555544432 22344555555555


Q ss_pred             HccCChHHHHHHHHHHHH
Q 046446          147 YNDGQMDKAHDLFLDMEE  164 (244)
Q Consensus       147 ~~~~~~~~a~~~~~~~~~  164 (244)
                      ...|++++|...|+...+
T Consensus        90 ~~~g~~~~A~~~~~~al~  107 (164)
T 3sz7_A           90 FDMADYKGAKEAYEKGIE  107 (164)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHccCHHHHHHHHHHHHH
Confidence            555555555555555443

>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=2.3e-07  Score=59.86  Aligned_cols=106  Identities=15%  Similarity=0.128  Sum_probs=81.1

Q ss_pred             hhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCC--Ccc----HHhHH
Q 046446           32 VIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKC--ELD----IQAYS  105 (244)
Q Consensus        32 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~--~~~----~~~~~  105 (244)
                      ..+..+...+.+.|++++|+..|++..+.. +-+..+|..+..+|.+.|++++|++.+++..+...  .++    ..+|.
T Consensus         9 ~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~   87 (127)
T 4gcn_A            9 IAEKDLGNAAYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMS   87 (127)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHH
Confidence            456778888889999999999999988863 33677888899999999999999999988876431  111    23677


Q ss_pred             HHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHH
Q 046446          106 CLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYS  140 (244)
Q Consensus       106 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  140 (244)
                      .+..++...|++++|.+.|++....  .|+..+..
T Consensus        88 ~lg~~~~~~~~~~~A~~~~~kal~~--~~~~~~~~  120 (127)
T 4gcn_A           88 RAGNAFQKQNDLSLAVQWFHRSLSE--FRDPELVK  120 (127)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--SCCHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhh--CcCHHHHH
Confidence            7788888999999999999887764  45655443

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.77  E-value=2.3e-07  Score=61.12  Aligned_cols=99  Identities=14%  Similarity=0.038  Sum_probs=85.8

Q ss_pred             ChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHH
Q 046446           65 DTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIH  144 (244)
Q Consensus        65 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  144 (244)
                      +...+..+...+.+.|++++|...|++..... +.+...|..+..+|...|++++|...|++..... +.+...+..+..
T Consensus        17 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~   94 (142)
T 2xcb_A           17 TLEQLYALGFNQYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAAE   94 (142)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHH
Confidence            34556677888899999999999999998876 5688889999999999999999999999988764 446778889999


Q ss_pred             HHHccCChHHHHHHHHHHHHc
Q 046446          145 GLYNDGQMDKAHDLFLDMEEN  165 (244)
Q Consensus       145 ~~~~~~~~~~a~~~~~~~~~~  165 (244)
                      ++...|++++|...|+...+.
T Consensus        95 ~~~~~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           95 CHLQLGDLDGAESGFYSARAL  115 (142)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHh
Confidence            999999999999999998764

>3q49_B STIP1 homology and U box-containing protein 1; E3 ubiquitin ligase, ligase-chaperone complex; 1.54A {Mus musculus} PDB: 3q47_B 3q4a_B*

Probab=98.77  E-value=3.6e-07  Score=59.42  Aligned_cols=101  Identities=12%  Similarity=-0.083  Sum_probs=88.4

Q ss_pred             CCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHH
Q 046446           28 KPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCL  107 (244)
Q Consensus        28 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  107 (244)
                      +.+...+..+...+...|++++|+..|++..... +.+...+..+..++...|++++|...+++..+.. +.+...+..+
T Consensus         6 ~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l   83 (137)
T 3q49_B            6 SPSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFL   83 (137)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHH
Confidence            3467788889999999999999999999998874 3367889999999999999999999999999876 5678889999


Q ss_pred             HHHHHcCCCHHHHHHHHHhcccC
Q 046446          108 IDGLCKSGRLEIALELFHSLPRG  130 (244)
Q Consensus       108 l~~~~~~~~~~~a~~~~~~~~~~  130 (244)
                      ..+|...|++++|...|++....
T Consensus        84 ~~~~~~~~~~~~A~~~~~~a~~~  106 (137)
T 3q49_B           84 GQCQLEMESYDEAIANLQRAYSL  106 (137)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHH
Confidence            99999999999999999987754

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.76  E-value=6e-07  Score=59.06  Aligned_cols=98  Identities=14%  Similarity=-0.092  Sum_probs=57.9

Q ss_pred             ChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCC----hhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHH
Q 046446           30 DVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAAD----TRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYS  105 (244)
Q Consensus        30 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  105 (244)
                      +...+..+...+...|++++|...|++..+.  .|+    ...+..+..++...|++++|...+++..+.. +.+...+.
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~  103 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALGL--DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKALY  103 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH--cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHHHH
Confidence            3445555666666666666666666666653  333    4555556666666666666666666665543 33455555


Q ss_pred             HHHHHHHcCCCHHHHHHHHHhcccC
Q 046446          106 CLIDGLCKSGRLEIALELFHSLPRG  130 (244)
Q Consensus       106 ~ll~~~~~~~~~~~a~~~~~~~~~~  130 (244)
                      .+..++...|++++|...|++....
T Consensus       104 ~~a~~~~~~~~~~~A~~~~~~al~~  128 (148)
T 2dba_A          104 RRSQALEKLGRLDQAVLDLQRCVSL  128 (148)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            5666666666666666666655543

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.73  E-value=3e-07  Score=62.04  Aligned_cols=100  Identities=11%  Similarity=-0.007  Sum_probs=86.9

Q ss_pred             CChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHH
Q 046446           29 PDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLI  108 (244)
Q Consensus        29 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll  108 (244)
                      .+...+..+...+...|++++|+..|++..+.. +-+...|..+..+|.+.|++++|+..|++..+.. +.+...|..+.
T Consensus         9 ~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg   86 (164)
T 3sz7_A            9 PESDKLKSEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWSRLG   86 (164)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            345678888888999999999999999998874 3377889999999999999999999999999876 56788899999


Q ss_pred             HHHHcCCCHHHHHHHHHhcccC
Q 046446          109 DGLCKSGRLEIALELFHSLPRG  130 (244)
Q Consensus       109 ~~~~~~~~~~~a~~~~~~~~~~  130 (244)
                      .+|...|++++|...|++..+.
T Consensus        87 ~~~~~~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           87 LARFDMADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHccCHHHHHHHHHHHHHh
Confidence            9999999999999999988765

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.71  E-value=2.6e-06  Score=66.62  Aligned_cols=197  Identities=10%  Similarity=-0.039  Sum_probs=139.5

Q ss_pred             HHHHhhhchHHHHHHHHHHHHHcCCCCC----------------hhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCC-Ccc
Q 046446           38 FIGLFEIHQVERAFKLFDEMQRDGVAAD----------------TRTYTIFIDGLCKNGYIVESVELFRTLRILKC-ELD  100 (244)
Q Consensus        38 i~~~~~~~~~~~a~~~~~~m~~~~~~~~----------------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~~~  100 (244)
                      ...+...|++++|++.|.++.+......                ...+..+...|...|++++|.+.+.++.+.-- .++
T Consensus        11 a~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~   90 (434)
T 4b4t_Q           11 ARRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAK   90 (434)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccc
Confidence            3456788999999999999987532211                12477899999999999999999998765311 112


Q ss_pred             H----HhHHHHHHHHHcCCCHHHHHHHHHhccc----CCccc-cHHHHHHHHHHHHccCChHHHHHHHHHHHHc--CC--
Q 046446          101 I----QAYSCLIDGLCKSGRLEIALELFHSLPR----GVLVA-DVVTYSIMIHGLYNDGQMDKAHDLFLDMEEN--AV--  167 (244)
Q Consensus       101 ~----~~~~~ll~~~~~~~~~~~a~~~~~~~~~----~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~--~~--  167 (244)
                      .    .+.+.+-..+...|++++|..+++....    .+..+ -..++..+...|...|++++|..+++.....  +.  
T Consensus        91 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~  170 (434)
T 4b4t_Q           91 SKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDD  170 (434)
T ss_dssp             HHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSC
T ss_pred             hHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhccc
Confidence            1    2334444555677899999998877642    22122 3567888999999999999999999987642  11  


Q ss_pred             CC-cHhHHHHHHHHHHhcCChhHHHHHHHHHHHC--CC-CC-C--hhhHHHHHHHHHhccccccchhhhhhhhh
Q 046446          168 AP-NVITFGTLIHGFIRINEPSKVIELLHKMKEK--NV-MP-D--ASIVSIVVDLLAKNEISLNSLPSFTVHER  234 (244)
Q Consensus       168 ~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~--~~-~~-~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  234 (244)
                      .+ ...++..++..|...|++++|...+++....  .+ .| .  ...+..+...+...|++++|...|...-+
T Consensus       171 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          171 KPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESFE  244 (434)
T ss_dssp             STHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            11 2457888899999999999999999887643  11 12 1  24556666777788888888777765543

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.70  E-value=9.9e-07  Score=57.98  Aligned_cols=97  Identities=12%  Similarity=-0.095  Sum_probs=51.1

Q ss_pred             ChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCcc----HHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHH
Q 046446           65 DTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELD----IQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYS  140 (244)
Q Consensus        65 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  140 (244)
                      +...+..+...+...|++++|.+.|++..+..  |+    ...+..+..+|...|++++|...+++..+.. +.+...+.
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~  103 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALGLD--ATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKALY  103 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSC--CCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHc--ccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHHHH
Confidence            34445555555566666666666666655432  22    4445555555555555555555555544432 22344555


Q ss_pred             HHHHHHHccCChHHHHHHHHHHHH
Q 046446          141 IMIHGLYNDGQMDKAHDLFLDMEE  164 (244)
Q Consensus       141 ~li~~~~~~~~~~~a~~~~~~~~~  164 (244)
                      .+..++...|++++|...|+...+
T Consensus       104 ~~a~~~~~~~~~~~A~~~~~~al~  127 (148)
T 2dba_A          104 RRSQALEKLGRLDQAVLDLQRCVS  127 (148)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHH
Confidence            555555555555555555555544

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.68  E-value=3.6e-07  Score=60.91  Aligned_cols=132  Identities=14%  Similarity=0.032  Sum_probs=68.5

Q ss_pred             HHHHHHHHHHhCCcHHHHHHHHHHHHHhCCC---c--cHHhHHHHHHHHHcCCCHHHHHHHHHhcccC----Cc-cccHH
Q 046446           68 TYTIFIDGLCKNGYIVESVELFRTLRILKCE---L--DIQAYSCLIDGLCKSGRLEIALELFHSLPRG----VL-VADVV  137 (244)
Q Consensus        68 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~---~--~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~  137 (244)
                      ++..+...+...|++++|...+++..+....   +  ...++..+...+...|++++|...+++..+.    +. .....
T Consensus        11 ~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~   90 (164)
T 3ro3_A           11 AFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQ   90 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHH
Confidence            3444555555555555555555554432100   0  0134555555566666666666666554321    10 11134


Q ss_pred             HHHHHHHHHHccCChHHHHHHHHHHHHc----CCC-CcHhHHHHHHHHHHhcCChhHHHHHHHHHHH
Q 046446          138 TYSIMIHGLYNDGQMDKAHDLFLDMEEN----AVA-PNVITFGTLIHGFIRINEPSKVIELLHKMKE  199 (244)
Q Consensus       138 ~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~-p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  199 (244)
                      .+..+...+...|++++|.+.++...+.    +.. ....++..+...+...|++++|.+.+++..+
T Consensus        91 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A           91 SCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            4556666666677777777766665432    111 1123455566666677777777777666543

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.68  E-value=4.6e-07  Score=57.92  Aligned_cols=95  Identities=11%  Similarity=0.054  Sum_probs=59.5

Q ss_pred             HHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHc
Q 046446           34 HNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCK  113 (244)
Q Consensus        34 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~  113 (244)
                      +..+...+.+.|++++|+..|++..+.. +.+...|..+..++...|++++|+..|++..+.. +.+...+..+..++..
T Consensus        20 ~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~~~~~la~~~~~   97 (121)
T 1hxi_A           20 PMEEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTN   97 (121)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHH
Confidence            4444555666667777777776666652 2255666666666666777777777776666654 3455566666666666


Q ss_pred             CCCHHHHHHHHHhcccC
Q 046446          114 SGRLEIALELFHSLPRG  130 (244)
Q Consensus       114 ~~~~~~a~~~~~~~~~~  130 (244)
                      .|++++|...+++..+.
T Consensus        98 ~g~~~~A~~~~~~al~~  114 (121)
T 1hxi_A           98 EHNANAALASLRAWLLS  114 (121)
T ss_dssp             HHHHHHHHHHHHHHHC-
T ss_pred             cCCHHHHHHHHHHHHHh
Confidence            66777776666666554

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.68  E-value=4.9e-07  Score=60.24  Aligned_cols=134  Identities=11%  Similarity=-0.010  Sum_probs=100.3

Q ss_pred             hhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCC-CC----hhHHHHHHHHHHhCCcHHHHHHHHHHHHHhC----CC-cc
Q 046446           31 VVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVA-AD----TRTYTIFIDGLCKNGYIVESVELFRTLRILK----CE-LD  100 (244)
Q Consensus        31 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-~~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~----~~-~~  100 (244)
                      ..++..+...+...|++++|+..+++..+.... ++    ..++..+...+...|++++|.+.+++..+..    .+ ..
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            346677788888899999999999887654111 11    2467888889999999999999999876532    11 12


Q ss_pred             HHhHHHHHHHHHcCCCHHHHHHHHHhcccC----Cc-cccHHHHHHHHHHHHccCChHHHHHHHHHHHH
Q 046446          101 IQAYSCLIDGLCKSGRLEIALELFHSLPRG----VL-VADVVTYSIMIHGLYNDGQMDKAHDLFLDMEE  164 (244)
Q Consensus       101 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  164 (244)
                      ..++..+...+...|++++|...+++....    +. ......+..+...+...|++++|.+.+++..+
T Consensus        89 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A           89 AQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            456778888999999999999999876532    21 12245677888899999999999999988764

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.65  E-value=3.5e-07  Score=58.51  Aligned_cols=94  Identities=10%  Similarity=-0.071  Sum_probs=61.5

Q ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHc
Q 046446           69 YTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYN  148 (244)
Q Consensus        69 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  148 (244)
                      +..+...+.+.|++++|...|++..+.. +.+...|..+..++...|++++|...|++..+.. +.+...+..+..++..
T Consensus        20 ~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~~~~~la~~~~~   97 (121)
T 1hxi_A           20 PMEEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTN   97 (121)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHH
Confidence            4445566666777777777777776654 3466666667777777777777777777666543 2345566666666777


Q ss_pred             cCChHHHHHHHHHHHH
Q 046446          149 DGQMDKAHDLFLDMEE  164 (244)
Q Consensus       149 ~~~~~~a~~~~~~~~~  164 (244)
                      .|++++|...++...+
T Consensus        98 ~g~~~~A~~~~~~al~  113 (121)
T 1hxi_A           98 EHNANAALASLRAWLL  113 (121)
T ss_dssp             HHHHHHHHHHHHHHHC
T ss_pred             cCCHHHHHHHHHHHHH
Confidence            7777777777766654

>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=98.64  E-value=6.6e-07  Score=70.80  Aligned_cols=121  Identities=8%  Similarity=-0.117  Sum_probs=57.2

Q ss_pred             hHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCC--------------hhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCC
Q 046446           33 IHNTLFIGLFEIHQVERAFKLFDEMQRDGVAAD--------------TRTYTIFIDGLCKNGYIVESVELFRTLRILKCE   98 (244)
Q Consensus        33 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~--------------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~   98 (244)
                      .|..+...+.+.|++++|+..|++..+......              ..+|..+..+|.+.|++++|+..+++..+.. +
T Consensus       270 ~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p  348 (457)
T 1kt0_A          270 IVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD-S  348 (457)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-T
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-C
Confidence            455555556666666666666666655311110              2444445555555555555555555554443 2


Q ss_pred             ccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHH
Q 046446           99 LDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKA  155 (244)
Q Consensus        99 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a  155 (244)
                      .+..+|..+..+|...|++++|...|++..+.. +-+...+..+..++.+.++.+++
T Consensus       349 ~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a  404 (457)
T 1kt0_A          349 ANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN-PQNKAARLQISMCQKKAKEHNER  404 (457)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHH
Confidence            344444445555555555555555555544432 12233444444444444444433

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.63  E-value=2.4e-06  Score=54.80  Aligned_cols=92  Identities=10%  Similarity=-0.030  Sum_probs=48.9

Q ss_pred             HHHHHhhhchHHHHHHHHHHHHHcCCCCCh---hHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCcc---HHhHHHHHHH
Q 046446           37 LFIGLFEIHQVERAFKLFDEMQRDGVAADT---RTYTIFIDGLCKNGYIVESVELFRTLRILKCELD---IQAYSCLIDG  110 (244)
Q Consensus        37 li~~~~~~~~~~~a~~~~~~m~~~~~~~~~---~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~ll~~  110 (244)
                      +...+...|++++|...|++..+.... +.   ..+..+..++.+.|++++|...|++..+.. +.+   ..++..+..+
T Consensus         8 ~a~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~~~la~~   85 (129)
T 2xev_A            8 VAFDALKNGKYDDASQLFLSFLELYPN-GVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY-PTHDKAAGGLLKLGLS   85 (129)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCSS-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTSTTHHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHCCC-CcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC-CCCcccHHHHHHHHHH
Confidence            344455556666666666655554211 12   345555555666666666666666655543 222   3445555555


Q ss_pred             HHcCCCHHHHHHHHHhcccC
Q 046446          111 LCKSGRLEIALELFHSLPRG  130 (244)
Q Consensus       111 ~~~~~~~~~a~~~~~~~~~~  130 (244)
                      +...|++++|...|+.+...
T Consensus        86 ~~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           86 QYGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHH
Confidence            66666666666666655543

>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=98.61  E-value=2.4e-07  Score=73.74  Aligned_cols=117  Identities=8%  Similarity=-0.092  Sum_probs=51.6

Q ss_pred             HHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHH
Q 046446           76 LCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKA  155 (244)
Q Consensus        76 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a  155 (244)
                      +.+.|++++|.+.|++..+.. +.+..+|..+..+|.+.|++++|...+++..+.. +.+...|..+..+|...|++++|
T Consensus        16 ~~~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~~g~~~eA   93 (477)
T 1wao_1           16 YFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKFRAA   93 (477)
T ss_dssp             TTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHH
Confidence            334445555555555544443 2334445555555555555555555555544432 22344455555555555555555


Q ss_pred             HHHHHHHHHcCCCCcHhHHHHHHHH--HHhcCChhHHHHHHH
Q 046446          156 HDLFLDMEENAVAPNVITFGTLIHG--FIRINEPSKVIELLH  195 (244)
Q Consensus       156 ~~~~~~~~~~~~~p~~~~~~~l~~~--~~~~g~~~~a~~~~~  195 (244)
                      .+.+++..+... .+...+..+..+  +.+.|++++|.+.++
T Consensus        94 ~~~~~~al~~~p-~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           94 LRDYETVVKVKP-HDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHST-TCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            555555444321 122233333333  444455555555554

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.61  E-value=3.5e-06  Score=54.01  Aligned_cols=93  Identities=15%  Similarity=0.133  Sum_probs=49.6

Q ss_pred             HHHHHHHhCCcHHHHHHHHHHHHHhCCCccH---HhHHHHHHHHHcCCCHHHHHHHHHhcccCCcccc---HHHHHHHHH
Q 046446           71 IFIDGLCKNGYIVESVELFRTLRILKCELDI---QAYSCLIDGLCKSGRLEIALELFHSLPRGVLVAD---VVTYSIMIH  144 (244)
Q Consensus        71 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~li~  144 (244)
                      .+...+...|++++|...|++..+.. +.+.   ..+..+..++...|++++|...|++..+.. +.+   ...+..+..
T Consensus         7 ~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~~~la~   84 (129)
T 2xev_A            7 NVAFDALKNGKYDDASQLFLSFLELY-PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY-PTHDKAAGGLLKLGL   84 (129)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTSTTHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHC-CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC-CCCcccHHHHHHHHH
Confidence            34445555566666666666655543 1222   345555555666666666666666555432 112   344555555


Q ss_pred             HHHccCChHHHHHHHHHHHHc
Q 046446          145 GLYNDGQMDKAHDLFLDMEEN  165 (244)
Q Consensus       145 ~~~~~~~~~~a~~~~~~~~~~  165 (244)
                      ++...|++++|...|+.+.+.
T Consensus        85 ~~~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           85 SQYGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHH
Confidence            566666666666666655543

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.58  E-value=2.3e-07  Score=58.84  Aligned_cols=88  Identities=13%  Similarity=-0.007  Sum_probs=59.8

Q ss_pred             hcCChhHHHHHHHHHHhCC--CCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHH
Q 046446            8 KNKEIEGALNLYSEMLSKG--IKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVES   85 (244)
Q Consensus         8 ~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   85 (244)
                      ..|++++|+..|++..+.+  -+.+...+..+...+...|++++|+..|++..+... -+..++..+..++...|++++|
T Consensus         2 ~~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A   80 (117)
T 3k9i_A            2 VLGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFP-NHQALRVFYAMVLYNLGRYEQG   80 (117)
T ss_dssp             -----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHH
T ss_pred             CCCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CchHHHHHHHHHHHHcCCHHHH
Confidence            3577888888888887753  123345677777777788888888888888777632 2566777777788888888888


Q ss_pred             HHHHHHHHHhC
Q 046446           86 VELFRTLRILK   96 (244)
Q Consensus        86 ~~~~~~~~~~~   96 (244)
                      ...+++..+..
T Consensus        81 ~~~~~~al~~~   91 (117)
T 3k9i_A           81 VELLLKIIAET   91 (117)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHhC
Confidence            88887776653

>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=98.57  E-value=1.7e-06  Score=66.48  Aligned_cols=96  Identities=7%  Similarity=-0.071  Sum_probs=53.2

Q ss_pred             HHHHHHHHHHhCCcHHHHHHHHHHHHHhC---------------CCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCc
Q 046446           68 TYTIFIDGLCKNGYIVESVELFRTLRILK---------------CELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVL  132 (244)
Q Consensus        68 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~---------------~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  132 (244)
                      .+..+...+.+.|++++|++.|++..+.-               -+.+..+|..+..+|.+.|++++|...+++..+.. 
T Consensus       225 ~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-  303 (370)
T 1ihg_A          225 DLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID-  303 (370)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhC-
Confidence            46667777778888888888888776520               01233444555555555555555555555554432 


Q ss_pred             cccHHHHHHHHHHHHccCChHHHHHHHHHHHH
Q 046446          133 VADVVTYSIMIHGLYNDGQMDKAHDLFLDMEE  164 (244)
Q Consensus       133 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  164 (244)
                      +.+...|..+..+|...|++++|.+.|+...+
T Consensus       304 p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~  335 (370)
T 1ihg_A          304 PSNTKALYRRAQGWQGLKEYDQALADLKKAQE  335 (370)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            22344455555555555555555555555444

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.56  E-value=1.7e-06  Score=58.10  Aligned_cols=96  Identities=13%  Similarity=0.026  Sum_probs=45.1

Q ss_pred             HHHHHHHHHHhCCcHHHHHHHHHHHHHh--------C---------CCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccC
Q 046446           68 TYTIFIDGLCKNGYIVESVELFRTLRIL--------K---------CELDIQAYSCLIDGLCKSGRLEIALELFHSLPRG  130 (244)
Q Consensus        68 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~--------~---------~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  130 (244)
                      .+......+.+.|++++|+..|.+..+.        .         -+.+...|..+..+|.+.|++++|...++.....
T Consensus        13 ~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al~~   92 (162)
T 3rkv_A           13 ALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVLKR   92 (162)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhc
Confidence            3444445555555555555555554432        0         0122234444445555555555555555544443


Q ss_pred             CccccHHHHHHHHHHHHccCChHHHHHHHHHHHH
Q 046446          131 VLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEE  164 (244)
Q Consensus       131 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  164 (244)
                      . +.+...|..+..+|...|++++|...|+...+
T Consensus        93 ~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~  125 (162)
T 3rkv_A           93 E-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLR  125 (162)
T ss_dssp             S-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             C-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHh
Confidence            2 22344444555555555555555555554444

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A

Probab=98.55  E-value=2e-06  Score=68.06  Aligned_cols=131  Identities=12%  Similarity=-0.040  Sum_probs=101.7

Q ss_pred             ChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCcc---------------HHhHHHHHHHHHcCCCHHHHHHHHHhccc
Q 046446           65 DTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELD---------------IQAYSCLIDGLCKSGRLEIALELFHSLPR  129 (244)
Q Consensus        65 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~---------------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  129 (244)
                      ....+..+...+.+.|++++|...|++..+.. +.+               ..+|..+..+|.+.|++++|...+++..+
T Consensus       267 ~a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~-p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~  345 (457)
T 1kt0_A          267 QAAIVKEKGTVYFKGGKYMQAVIQYGKIVSWL-EMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALG  345 (457)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-TTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh-cccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHh
Confidence            34567888899999999999999999988764 222               57888899999999999999999999887


Q ss_pred             CCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHH-HHHHHH
Q 046446          130 GVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIE-LLHKMK  198 (244)
Q Consensus       130 ~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~-~~~~~~  198 (244)
                      .. +.+...|..+..+|...|++++|...|+...+... -+...+..+..++.+.++.+++.. .+..|.
T Consensus       346 ~~-p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P-~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~f  413 (457)
T 1kt0_A          346 LD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNP-QNKAARLQISMCQKKAKEHNERDRRIYANMF  413 (457)
T ss_dssp             HS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHHHHHHHHHHHHHHHHHHC-
T ss_pred             cC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            64 44688889999999999999999999999887532 255677777788888888776654 444443

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.53  E-value=1.7e-07  Score=59.51  Aligned_cols=85  Identities=12%  Similarity=0.011  Sum_probs=44.7

Q ss_pred             hchHHHHHHHHHHHHHcC--CCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHH
Q 046446           44 IHQVERAFKLFDEMQRDG--VAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIAL  121 (244)
Q Consensus        44 ~~~~~~a~~~~~~m~~~~--~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~  121 (244)
                      .|++++|+..|++..+.+  -+-+..++..+..++...|++++|++.|++..+.. +-+..++..+..++...|++++|.
T Consensus         3 ~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~   81 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQF-PNHQALRVFYAMVLYNLGRYEQGV   81 (117)
T ss_dssp             ----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHcCCHHHHH
Confidence            355556666666655542  12233455555556666666666666666655554 334555555555666666666666


Q ss_pred             HHHHhccc
Q 046446          122 ELFHSLPR  129 (244)
Q Consensus       122 ~~~~~~~~  129 (244)
                      ..+++...
T Consensus        82 ~~~~~al~   89 (117)
T 3k9i_A           82 ELLLKIIA   89 (117)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            66555443

>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=98.52  E-value=1.3e-06  Score=67.15  Aligned_cols=124  Identities=10%  Similarity=-0.076  Sum_probs=98.7

Q ss_pred             hhHHHHHHHHhhhchHHHHHHHHHHHHHc---------------CCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhC
Q 046446           32 VIHNTLFIGLFEIHQVERAFKLFDEMQRD---------------GVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILK   96 (244)
Q Consensus        32 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~---------------~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~   96 (244)
                      ..+..+...+.+.|++++|+..|++..+.               -.+.+..+|..+..+|.+.|++++|++.+++..+..
T Consensus       224 ~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~  303 (370)
T 1ihg_A          224 EDLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID  303 (370)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhC
Confidence            34667778888999999999999988761               112245778889999999999999999999999875


Q ss_pred             CCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHH
Q 046446           97 CELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHD  157 (244)
Q Consensus        97 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~  157 (244)
                       +.+..+|..+..+|...|++++|...|++..+.. +.+...+..+...+...++.+++.+
T Consensus       304 -p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~-P~~~~~~~~l~~~~~~~~~~~~a~k  362 (370)
T 1ihg_A          304 -PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLKVKQKIKAQKDKEK  362 (370)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             -chhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHH
Confidence             4578889999999999999999999999988763 3356677777777776666665543

>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=98.51  E-value=8.1e-05  Score=56.26  Aligned_cols=177  Identities=11%  Similarity=-0.001  Sum_probs=136.1

Q ss_pred             HhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCC-cHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcC-C-CH
Q 046446           41 LFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNG-YIVESVELFRTLRILKCELDIQAYSCLIDGLCKS-G-RL  117 (244)
Q Consensus        41 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~-~-~~  117 (244)
                      ....+..++|+++++++...+.. +..+|+.--..+...| ++++++++++.+.... +-+..+|+.-...+... + ++
T Consensus        64 ~~~~e~se~AL~lt~~~L~~nP~-~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n-PKny~aW~hR~wlL~~l~~~~~  141 (349)
T 3q7a_A           64 AAKEEKSERALELTEIIVRMNPA-HYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN-LKSYQVWHHRLLLLDRISPQDP  141 (349)
T ss_dssp             HHTTCCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHHHCCSCC
T ss_pred             HHhCCCCHHHHHHHHHHHHhCch-hHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhcCCCh
Confidence            33445567899999999987433 5667887777777788 5999999999999876 57888888887777776 6 88


Q ss_pred             HHHHHHHHhcccCCccccHHHHHHHHHHHHccCChH--------HHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCC---
Q 046446          118 EIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMD--------KAHDLFLDMEENAVAPNVITFGTLIHGFIRINE---  186 (244)
Q Consensus       118 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~--------~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~---  186 (244)
                      ++++.+++.+.+.. +-+..+|+.-.-.+.+.|.++        ++++.++.+.+.... |...|+.....+.+.++   
T Consensus       142 ~~EL~~~~k~L~~d-pkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp~-N~SAW~~R~~lL~~l~~~~~  219 (349)
T 3q7a_A          142 VSEIEYIHGSLLPD-PKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDGR-NNSAWGWRWYLRVSRPGAET  219 (349)
T ss_dssp             HHHHHHHHHHTSSC-TTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHTTSTTCCC
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhcccccc
Confidence            99999999999875 457888887666666656666        899999999887554 88889988888877776   


Q ss_pred             ----hhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcccc
Q 046446          187 ----PSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEIS  222 (244)
Q Consensus       187 ----~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  222 (244)
                          ++++++.++++..... -|...|..+-..+.+.|+.
T Consensus       220 ~~~~~~eELe~~~~aI~~~P-~n~SaW~Ylr~Ll~~~~~~  258 (349)
T 3q7a_A          220 SSRSLQDELIYILKSIHLIP-HNVSAWNYLRGFLKHFSLP  258 (349)
T ss_dssp             CHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCC
T ss_pred             chHHHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhcCCC
Confidence                6788888888887642 2667777666666666654

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.49  E-value=1.1e-06  Score=66.67  Aligned_cols=94  Identities=17%  Similarity=0.004  Sum_probs=35.3

Q ss_pred             hHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCC-cHhHHHHHHHH-
Q 046446          103 AYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAP-NVITFGTLIHG-  180 (244)
Q Consensus       103 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p-~~~~~~~l~~~-  180 (244)
                      .|..+..+|.+.|++++|...+++..+.. +.+...|..+..+|...|++++|...|+...+.  .| +...+..+... 
T Consensus       232 ~~~nla~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l--~p~~~~a~~~L~~l~  308 (338)
T 2if4_A          232 CHLNIAACLIKLKRYDEAIGHCNIVLTEE-EKNPKALFRRGKAKAELGQMDSARDDFRKAQKY--APDDKAIRRELRALA  308 (338)
T ss_dssp             HHHHHHHHHHTTTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC------------------
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHH
Confidence            45555566666666666666666555432 224555666666666666666666666655432  12 22233333322 


Q ss_pred             HHhcCChhHHHHHHHHHHH
Q 046446          181 FIRINEPSKVIELLHKMKE  199 (244)
Q Consensus       181 ~~~~g~~~~a~~~~~~~~~  199 (244)
                      ....+..+.+...|..|..
T Consensus       309 ~~~~~~~~~a~~~~~~~l~  327 (338)
T 2if4_A          309 EQEKALYQKQKEMYKGIFK  327 (338)
T ss_dssp             -------------------
T ss_pred             HHHHHHHHHHHHHHHHhhC
Confidence            1223444555555555544

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.49  E-value=3.4e-06  Score=56.66  Aligned_cols=99  Identities=15%  Similarity=0.032  Sum_probs=78.3

Q ss_pred             hhhHHHHHHHHhhhchHHHHHHHHHHHHHc-------C----------CCCChhHHHHHHHHHHhCCcHHHHHHHHHHHH
Q 046446           31 VVIHNTLFIGLFEIHQVERAFKLFDEMQRD-------G----------VAADTRTYTIFIDGLCKNGYIVESVELFRTLR   93 (244)
Q Consensus        31 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-------~----------~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~   93 (244)
                      ...+......+.+.|++++|+..|.+....       .          .+.+...|..+..+|.+.|++++|+..+++..
T Consensus        11 a~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al   90 (162)
T 3rkv_A           11 VEALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVL   90 (162)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            345666777788888888888888887664       0          11133578888888999999999999999988


Q ss_pred             HhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccC
Q 046446           94 ILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRG  130 (244)
Q Consensus        94 ~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  130 (244)
                      +.. +.+...|..+..+|...|++++|...|++....
T Consensus        91 ~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  126 (162)
T 3rkv_A           91 KRE-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRN  126 (162)
T ss_dssp             HHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hcC-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhc
Confidence            876 567888888999999999999999999988776

>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=98.48  E-value=4.2e-05  Score=62.14  Aligned_cols=96  Identities=10%  Similarity=-0.008  Sum_probs=41.8

Q ss_pred             HHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCC--cHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCC-CHHHHHHH
Q 046446           47 VERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNG--YIVESVELFRTLRILKCELDIQAYSCLIDGLCKSG-RLEIALEL  123 (244)
Q Consensus        47 ~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~-~~~~a~~~  123 (244)
                      ++++++.++.+.+.... +..+|+.-.-++.+.+  +++++++.++++.+.. +.+..+|+.-...+.+.| .++++++.
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-SYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAF  166 (567)
T ss_dssp             HHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcccccHHHHHHHHHHHHhhc-cccccHHHHHHHHHHHcCCChHHHHHH
Confidence            44444444444443222 3444444444444444  3344444444444443 234444444444444444 44444444


Q ss_pred             HHhcccCCccccHHHHHHHHHH
Q 046446          124 FHSLPRGVLVADVVTYSIMIHG  145 (244)
Q Consensus       124 ~~~~~~~~~~~~~~~~~~li~~  145 (244)
                      ++++.+.+ +-+...|+.....
T Consensus       167 ~~~~I~~~-p~n~saW~~r~~l  187 (567)
T 1dce_A          167 TDSLITRN-FSNYSSWHYRSCL  187 (567)
T ss_dssp             HHTTTTTT-CCCHHHHHHHHHH
T ss_pred             HHHHHHHC-CCCccHHHHHHHH
Confidence            44444433 2234444443333

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.47  E-value=7.7e-07  Score=70.72  Aligned_cols=125  Identities=11%  Similarity=-0.090  Sum_probs=88.3

Q ss_pred             HhhhchHHHHHHHHHHHHHc---CCCC----ChhHHHHHHHHHHhCCcHHHHHHHHHHHHHh-----C--CCccHHhHHH
Q 046446           41 LFEIHQVERAFKLFDEMQRD---GVAA----DTRTYTIFIDGLCKNGYIVESVELFRTLRIL-----K--CELDIQAYSC  106 (244)
Q Consensus        41 ~~~~~~~~~a~~~~~~m~~~---~~~~----~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-----~--~~~~~~~~~~  106 (244)
                      +...|++++|+.++++..+.   -+.|    ...+++.|..+|...|++++|+.++++....     |  .+-...+++.
T Consensus       319 ~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~n  398 (490)
T 3n71_A          319 ARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMR  398 (490)
T ss_dssp             HHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHH
T ss_pred             HHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            34678888888888877653   1222    2457888888888899999998888876542     2  2234556888


Q ss_pred             HHHHHHcCCCHHHHHHHHHhccc-----CC--ccccHHHHHHHHHHHHccCChHHHHHHHHHHHHc
Q 046446          107 LIDGLCKSGRLEIALELFHSLPR-----GV--LVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEEN  165 (244)
Q Consensus       107 ll~~~~~~~~~~~a~~~~~~~~~-----~~--~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  165 (244)
                      |...|...|++++|+.++++...     .|  .+....+.+.+-.++...+.+++|+.++..+.+.
T Consensus       399 La~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~  464 (490)
T 3n71_A          399 AGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREA  464 (490)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            88889999998888888876542     12  2223445566677777888899999999888763

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.43  E-value=2.2e-06  Score=68.17  Aligned_cols=125  Identities=13%  Similarity=-0.002  Sum_probs=95.3

Q ss_pred             HHhCCcHHHHHHHHHHHHHh-----C--CCccHHhHHHHHHHHHcCCCHHHHHHHHHhccc-------CCccccHHHHHH
Q 046446           76 LCKNGYIVESVELFRTLRIL-----K--CELDIQAYSCLIDGLCKSGRLEIALELFHSLPR-------GVLVADVVTYSI  141 (244)
Q Consensus        76 ~~~~~~~~~a~~~~~~~~~~-----~--~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~  141 (244)
                      +...|++++|+.++++..+.     |  .+....+++.|...|...|++++|+.++++...       ...+-...+++.
T Consensus       319 ~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~n  398 (490)
T 3n71_A          319 ARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMR  398 (490)
T ss_dssp             HHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHH
T ss_pred             HHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            34678999999999887653     1  223466799999999999999999998887643       122334678999


Q ss_pred             HHHHHHccCChHHHHHHHHHHHH-----cCC-CCc-HhHHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 046446          142 MIHGLYNDGQMDKAHDLFLDMEE-----NAV-APN-VITFGTLIHGFIRINEPSKVIELLHKMKEK  200 (244)
Q Consensus       142 li~~~~~~~~~~~a~~~~~~~~~-----~~~-~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  200 (244)
                      |...|...|++++|..++++..+     .|. .|+ ..+.+.+-.++...+.+++|+.+|..+++.
T Consensus       399 La~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~  464 (490)
T 3n71_A          399 AGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREA  464 (490)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999988653     232 233 334556667788899999999999999864

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.42  E-value=3.9e-06  Score=52.16  Aligned_cols=97  Identities=7%  Similarity=0.042  Sum_probs=76.3

Q ss_pred             cHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC-------hh
Q 046446          135 DVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPD-------AS  207 (244)
Q Consensus       135 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~-------~~  207 (244)
                      +...+..+...+...|++++|.+.|+...+.. +.+...+..+..++...|++++|...+++..+..  |+       ..
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~   79 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYT--STAEHVAIRSK   79 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSC--SSTTSHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC--CCccHHHHHHH
Confidence            56677888888888999999999998887753 2367778888888889999999999999888753  43       55


Q ss_pred             hHHHHHHHHHhccccccchhhhhhhhh
Q 046446          208 IVSIVVDLLAKNEISLNSLPSFTVHER  234 (244)
Q Consensus       208 ~~~~l~~~~~~~g~~~~a~~~~~~~~~  234 (244)
                      .+..+..++...|+.+.++..++.+..
T Consensus        80 ~~~~~~~~~~~~~~~~~a~~~~~~~~~  106 (111)
T 2l6j_A           80 LQYRLELAQGAVGSVQIPVVEVDELPE  106 (111)
T ss_dssp             HHHHHHHHHHHHHCCCCCSSSSSSCSS
T ss_pred             HHHHHHHHHHHHHhHhhhHhHHHHhHH
Confidence            667777888888888888888776543

>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=98.41  E-value=2.6e-05  Score=50.93  Aligned_cols=87  Identities=11%  Similarity=-0.110  Sum_probs=35.2

Q ss_pred             HHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHc----CCCHHHHHHHHHhcccCCccccHHHHHHHHHHHH
Q 046446           72 FIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCK----SGRLEIALELFHSLPRGVLVADVVTYSIMIHGLY  147 (244)
Q Consensus        72 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  147 (244)
                      |...|...+.+++|.+.|++..+.|   +...+..|...|..    .+++++|...|++..+.|   +...+..|...|.
T Consensus        31 lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~  104 (138)
T 1klx_A           31 LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGLN---DQDGCLILGYKQY  104 (138)
T ss_dssp             HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH
T ss_pred             HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHcCC---CHHHHHHHHHHHH
Confidence            3333333334444444444444332   23333333333433    344444444444443332   2333344444443


Q ss_pred             c----cCChHHHHHHHHHHHH
Q 046446          148 N----DGQMDKAHDLFLDMEE  164 (244)
Q Consensus       148 ~----~~~~~~a~~~~~~~~~  164 (244)
                      .    .++.++|.+.|+...+
T Consensus       105 ~G~g~~~d~~~A~~~~~~Aa~  125 (138)
T 1klx_A          105 AGKGVVKNEKQAVKTFEKACR  125 (138)
T ss_dssp             HTSSSCCCHHHHHHHHHHHHH
T ss_pred             CCCCCCcCHHHHHHHHHHHHH
Confidence            3    3444444444444443

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.41  E-value=1e-06  Score=66.94  Aligned_cols=141  Identities=11%  Similarity=0.038  Sum_probs=80.2

Q ss_pred             hhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHH
Q 046446            4 NGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIV   83 (244)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   83 (244)
                      ..+.+.|++++|...|++....  .|+...       +...++.+++...+.          ...|..+..+|.+.|+++
T Consensus       187 ~~~~~~g~~~~A~~~y~~Al~~--~p~~~~-------~~~~~~~~~~~~~l~----------~~~~~nla~~~~~~g~~~  247 (338)
T 2if4_A          187 NSLFKEEKLEEAMQQYEMAIAY--MGDDFM-------FQLYGKYQDMALAVK----------NPCHLNIAACLIKLKRYD  247 (338)
T ss_dssp             HHTCSSSCCHHHHHHHHHHHHH--SCHHHH-------HTCCHHHHHHHHHHH----------THHHHHHHHHHHTTTCCH
T ss_pred             HHHHhcCCHHHHHHHHHHHHHH--hccchh-------hhhcccHHHHHHHHH----------HHHHHHHHHHHHHcCCHH
Confidence            4566788888888888887765  344321       233444444433221          237888899999999999


Q ss_pred             HHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHH-HHccCChHHHHHHHHHH
Q 046446           84 ESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHG-LYNDGQMDKAHDLFLDM  162 (244)
Q Consensus        84 ~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~-~~~~~~~~~a~~~~~~~  162 (244)
                      +|+..+++..+.. +.+..+|..+..+|...|++++|...|++..+.. +-+...+..+... ....+..+.+...|..|
T Consensus       248 ~A~~~~~~al~~~-p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~-p~~~~a~~~L~~l~~~~~~~~~~a~~~~~~~  325 (338)
T 2if4_A          248 EAIGHCNIVLTEE-EKNPKALFRRGKAKAELGQMDSARDDFRKAQKYA-PDDKAIRRELRALAEQEKALYQKQKEMYKGI  325 (338)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC----------------------------------
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            9999999998875 5678889999999999999999999999988764 2245555555555 33456777888888887


Q ss_pred             HHc
Q 046446          163 EEN  165 (244)
Q Consensus       163 ~~~  165 (244)
                      ...
T Consensus       326 l~~  328 (338)
T 2if4_A          326 FKG  328 (338)
T ss_dssp             ---
T ss_pred             hCC
Confidence            754

>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=98.38  E-value=5.7e-05  Score=61.37  Aligned_cols=174  Identities=10%  Similarity=-0.047  Sum_probs=136.9

Q ss_pred             hHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCc----------HHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCC
Q 046446           46 QVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGY----------IVESVELFRTLRILKCELDIQAYSCLIDGLCKSG  115 (244)
Q Consensus        46 ~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~  115 (244)
                      ..++|++.++++...... +..+|+.--.++...|+          ++++++.++.+.+.. +-+..+|+.-..++.+.+
T Consensus        44 ~~eeal~~~~~~l~~nP~-~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~-pK~y~aW~hR~w~l~~l~  121 (567)
T 1dce_A           44 LDESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLP  121 (567)
T ss_dssp             CSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCS
T ss_pred             CCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcc
Confidence            457889999999886433 55667766666666666          899999999999887 578889999888999999


Q ss_pred             --CHHHHHHHHHhcccCCccccHHHHHHHHHHHHccC-ChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhc--------
Q 046446          116 --RLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDG-QMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRI--------  184 (244)
Q Consensus       116 --~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~-~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~--------  184 (244)
                        +++++++.++++.+.+ +-+..+|+.-..++.+.| .++++.+.++.+.+.... |...|+.....+.+.        
T Consensus       122 ~~~~~~el~~~~k~l~~d-~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~-n~saW~~r~~ll~~l~~~~~~~~  199 (567)
T 1dce_A          122 EPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLLPQLHPQPDSGP  199 (567)
T ss_dssp             SCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCC-CHHHHHHHHHHHHHHSCCCCSSS
T ss_pred             cccHHHHHHHHHHHHhhc-cccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCC-CccHHHHHHHHHHhhcccccccc
Confidence              7799999999999876 457889998888888888 899999999998876544 778888877766653        


Q ss_pred             ------CChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcccccc
Q 046446          185 ------NEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLN  224 (244)
Q Consensus       185 ------g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  224 (244)
                            +.++++.+.+.+...... -+...|..+-..+.+.++.++
T Consensus       200 ~~~~~~~~~~eel~~~~~ai~~~P-~~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          200 QGRLPENVLLKELELVQNAFFTDP-NDQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             CCSSCHHHHHHHHHHHHHHHHHCS-SCSHHHHHHHHHHSCCCCCSC
T ss_pred             cccccHHHHHHHHHHHHHHHhhCC-CCccHHHHHHHHHhcCCCccc
Confidence                  456889999988887542 266777777777777777555

>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=98.37  E-value=1.5e-05  Score=52.05  Aligned_cols=116  Identities=11%  Similarity=0.005  Sum_probs=96.9

Q ss_pred             hhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHh----CC
Q 046446            5 GYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCK----NG   80 (244)
Q Consensus         5 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~----~~   80 (244)
                      .....+++++|.+.|++..+.| .|+..    +...|...+..+.|.++|++..+.|   ++..+..|...|..    .+
T Consensus         4 G~g~~~d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~   75 (138)
T 1klx_A            4 GGTVKKDLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKK   75 (138)
T ss_dssp             CSSHHHHHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCC
T ss_pred             CcCCccCHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCc
Confidence            3445678999999999999987 33333    6666777778889999999998874   67888889999988    88


Q ss_pred             cHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHc----CCCHHHHHHHHHhcccCC
Q 046446           81 YIVESVELFRTLRILKCELDIQAYSCLIDGLCK----SGRLEIALELFHSLPRGV  131 (244)
Q Consensus        81 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~  131 (244)
                      ++++|.+.|++..+.|   +...+..|...|..    .+++++|...|++..+.|
T Consensus        76 d~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A           76 DLRKAAQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             CHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             cHHHHHHHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCC
Confidence            9999999999998875   56777888888888    899999999999988876

>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=98.36  E-value=1.3e-05  Score=53.28  Aligned_cols=94  Identities=10%  Similarity=-0.072  Sum_probs=49.4

Q ss_pred             hHHHHHHHHhhhchHHHHHHHHHHHHHcCCC-C-----Ch-----hHHHHHHHHHHhCCcHHHHHHHHHHHHHh------
Q 046446           33 IHNTLFIGLFEIHQVERAFKLFDEMQRDGVA-A-----DT-----RTYTIFIDGLCKNGYIVESVELFRTLRIL------   95 (244)
Q Consensus        33 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-~-----~~-----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~------   95 (244)
                      .+......+.+.|++++|+..|++..+.... |     +.     ..|..+..++.+.|++++|+..+++..+.      
T Consensus        13 ~~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e   92 (159)
T 2hr2_A           13 LALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGE   92 (159)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhcccc
Confidence            3444555666777777777777777664221 0     11     15555555566666666666665555543      


Q ss_pred             -CCCccHHhH----HHHHHHHHcCCCHHHHHHHHHhc
Q 046446           96 -KCELDIQAY----SCLIDGLCKSGRLEIALELFHSL  127 (244)
Q Consensus        96 -~~~~~~~~~----~~ll~~~~~~~~~~~a~~~~~~~  127 (244)
                       . +-+...|    .....++...|++++|+..|++.
T Consensus        93 ~~-pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kA  128 (159)
T 2hr2_A           93 LN-QDEGKLWISAVYSRALALDGLGRGAEAMPEFKKV  128 (159)
T ss_dssp             TT-STHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             CC-CchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHH
Confidence             2 1233334    44444444444444444444443

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=98.31  E-value=1.4e-05  Score=53.06  Aligned_cols=63  Identities=13%  Similarity=-0.070  Sum_probs=37.5

Q ss_pred             hHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCC-c-----cH-----HhHHHHHHHHHcCCCHHHHHHHHHhccc
Q 046446           67 RTYTIFIDGLCKNGYIVESVELFRTLRILKCE-L-----DI-----QAYSCLIDGLCKSGRLEIALELFHSLPR  129 (244)
Q Consensus        67 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~-----~~-----~~~~~ll~~~~~~~~~~~a~~~~~~~~~  129 (244)
                      ..+......+.+.|++++|+..|++..+.... |     +.     ..|..+..++.+.|++++|+..+++..+
T Consensus        12 ~~~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~   85 (159)
T 2hr2_A           12 YLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALH   85 (159)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            34556667778888999999999888775421 1     11     1445555555555555555555444443

>3dss_A Geranylgeranyl transferase type-2 subunit alpha; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} PDB: 3dst_A* 3dsu_A* 3dsv_A* 3dsw_A* 3dsx_A* 3hxb_A* 3hxc_A* 3hxd_A* 3hxe_A* 3hxf_A* 3pz1_A* 3pz2_A* 3pz3_A* 3c72_A* 4gtv_A* 4gts_A* 4ehm_A* 4gtt_A*

Probab=98.31  E-value=0.00029  Score=52.97  Aligned_cols=199  Identities=9%  Similarity=-0.026  Sum_probs=137.4

Q ss_pred             hhhHHHHHHHH---hhhchH-HHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCc----------HHHHHHHHHHHHHhC
Q 046446           31 VVIHNTLFIGL---FEIHQV-ERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGY----------IVESVELFRTLRILK   96 (244)
Q Consensus        31 ~~~~~~li~~~---~~~~~~-~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~----------~~~a~~~~~~~~~~~   96 (244)
                      ...|..+...+   .+.|.+ ++|+.++..+...+.. +..+|+.=-..+...+.          +++++.+++.+....
T Consensus        26 i~~y~~~~~~~~~~~~~~e~s~eaL~~t~~~L~~nP~-~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~  104 (331)
T 3dss_A           26 LKLYQSATQAVFQKRQAGELDESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN  104 (331)
T ss_dssp             HHHHHHHHHHHHHHHHTTCCSHHHHHHHHHHHTTCTT-CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhC
Confidence            34454444333   334444 5899999999886322 44456543333333332          678899999998876


Q ss_pred             CCccHHhHHHHHHHHHcCC--CHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCC-hHHHHHHHHHHHHcCCCCcHhH
Q 046446           97 CELDIQAYSCLIDGLCKSG--RLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQ-MDKAHDLFLDMEENAVAPNVIT  173 (244)
Q Consensus        97 ~~~~~~~~~~ll~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~-~~~a~~~~~~~~~~~~~p~~~~  173 (244)
                       +-+..+|+.-...+...+  .+++++.+++.+.+.. +-|..+|+.-.-.+...|. ++++++.++.+.+..+. |...
T Consensus       105 -PKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~d-prNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~p~-N~SA  181 (331)
T 3dss_A          105 -PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSS  181 (331)
T ss_dssp             -TTCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCSC-CHHH
T ss_pred             -CCCHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHCCC-CHHH
Confidence             578888988888888888  4899999999998775 5588899888888888888 58999999999987544 7788


Q ss_pred             HHHHHHHHHhc--------------CChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhc-----------cccccchhh
Q 046446          174 FGTLIHGFIRI--------------NEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKN-----------EISLNSLPS  228 (244)
Q Consensus       174 ~~~l~~~~~~~--------------g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----------g~~~~a~~~  228 (244)
                      |+.....+.+.              +.++++++.+.+..... +-|...|+-+-..+.+.           +.++++++.
T Consensus       182 W~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~-P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~  260 (331)
T 3dss_A          182 WHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELES  260 (331)
T ss_dssp             HHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHH
Confidence            88776665554              45778888888888754 22566666555555544           345566666


Q ss_pred             hhhhhh
Q 046446          229 FTVHER  234 (244)
Q Consensus       229 ~~~~~~  234 (244)
                      ++.+.+
T Consensus       261 ~~elle  266 (331)
T 3dss_A          261 CKELQE  266 (331)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            655543

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.26  E-value=7.5e-06  Score=50.85  Aligned_cols=61  Identities=21%  Similarity=0.177  Sum_probs=27.0

Q ss_pred             HHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhccc
Q 046446           68 TYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPR  129 (244)
Q Consensus        68 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  129 (244)
                      .+..+...+...|++++|.+.|++..+.. +.+...+..+..++...|++++|...+++..+
T Consensus         6 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~   66 (111)
T 2l6j_A            6 KQKEQGNSLFKQGLYREAVHCYDQLITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLR   66 (111)
T ss_dssp             HHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            34444444444444444444444444432 23344444444444444444444444444443

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.26  E-value=0.00021  Score=57.10  Aligned_cols=205  Identities=10%  Similarity=-0.069  Sum_probs=133.9

Q ss_pred             hhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHH
Q 046446           12 IEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRT   91 (244)
Q Consensus        12 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~   91 (244)
                      .+++..+|+++.... +.+...|...+..+.+.|+.+.|..+|++....  +.+...+.    .|+...+.++   +++.
T Consensus       195 ~~Rv~~~ye~al~~~-p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l~~----~y~~~~e~~~---~~~~  264 (493)
T 2uy1_A          195 ESRMHFIHNYILDSF-YYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFLSL----YYGLVMDEEA---VYGD  264 (493)
T ss_dssp             HHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHH----HHHHHTTCTH---HHHH
T ss_pred             HHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHHHH----HHHhhcchhH---HHHH
Confidence            345778899888753 556778888888888999999999999999987  33333332    2222111111   1233


Q ss_pred             HHHhC------------CCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHc-cCChHHHHHH
Q 046446           92 LRILK------------CELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYN-DGQMDKAHDL  158 (244)
Q Consensus        92 ~~~~~------------~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~-~~~~~~a~~~  158 (244)
                      +.+.-            .......|...+....+.++.+.|..+|++. ... ..+...|......-.. .++.+.|..+
T Consensus       265 l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~~-~~~~~v~i~~A~lE~~~~~d~~~ar~i  342 (493)
T 2uy1_A          265 LKRKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GNE-GVGPHVFIYCAFIEYYATGSRATPYNI  342 (493)
T ss_dssp             HHHHTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TTS-CCCHHHHHHHHHHHHHHHCCSHHHHHH
T ss_pred             HHHHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hCC-CCChHHHHHHHHHHHHHCCChHHHHHH
Confidence            22210            0112356777777777888999999999999 321 2244445432222222 3369999999


Q ss_pred             HHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchhhhhhhhh
Q 046446          159 FLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFTVHER  234 (244)
Q Consensus       159 ~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  234 (244)
                      |+...+.. +-++..+...+......|+.+.|..+|+++.     .....+...++.=...|+.+.+..+++....
T Consensus       343 fe~al~~~-~~~~~~~~~yid~e~~~~~~~~aR~l~er~~-----k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          343 FSSGLLKH-PDSTLLKEEFFLFLLRIGDEENARALFKRLE-----KTSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHSC-----CBHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH-----HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            99988753 2234456666777778899999999999862     2456677777666777888877777776654

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.16  E-value=2.9e-05  Score=46.19  Aligned_cols=61  Identities=10%  Similarity=0.138  Sum_probs=25.6

Q ss_pred             hHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHH
Q 046446           33 IHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRI   94 (244)
Q Consensus        33 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~   94 (244)
                      .+..+...+...|++++|+..|++..+.. +.+..++..+..++.+.|++++|.+.+++..+
T Consensus        11 ~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~   71 (91)
T 1na3_A           11 AWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALE   71 (91)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            33334444444444444444444444331 11333344444444444444444444444443

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.16  E-value=4.7e-05  Score=45.22  Aligned_cols=83  Identities=13%  Similarity=0.133  Sum_probs=68.0

Q ss_pred             ChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHH
Q 046446           65 DTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIH  144 (244)
Q Consensus        65 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  144 (244)
                      +...+..+...+...|++++|...+++..+.. +.+..++..+..++...|++++|...+++..+.. +.+...+..+..
T Consensus         8 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~   85 (91)
T 1na3_A            8 SAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAKQNLGN   85 (91)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCHHHHHHHHH
Confidence            35677888899999999999999999998875 4577888999999999999999999999987753 345677777777


Q ss_pred             HHHcc
Q 046446          145 GLYND  149 (244)
Q Consensus       145 ~~~~~  149 (244)
                      ++...
T Consensus        86 ~~~~~   90 (91)
T 1na3_A           86 AKQKQ   90 (91)
T ss_dssp             HHHHH
T ss_pred             HHHhc
Confidence            76554

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.15  E-value=3.2e-05  Score=48.51  Aligned_cols=81  Identities=12%  Similarity=0.071  Sum_probs=57.8

Q ss_pred             hHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHH
Q 046446           13 EGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTL   92 (244)
Q Consensus        13 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~   92 (244)
                      +.|+..|++..+.. +.+...+..+...+...|++++|+..|++..+.. +.+...|..+..++...|++++|...|++.
T Consensus         2 ~~a~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~a   79 (115)
T 2kat_A            2 QAITERLEAMLAQG-TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESG   79 (115)
T ss_dssp             CCHHHHHHHHHTTT-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            35667777776653 3456677777777788888888888888877753 235667777777888888888888888777


Q ss_pred             HHh
Q 046446           93 RIL   95 (244)
Q Consensus        93 ~~~   95 (244)
                      .+.
T Consensus        80 l~~   82 (115)
T 2kat_A           80 LAA   82 (115)
T ss_dssp             HHH
T ss_pred             HHh
Confidence            654

>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=98.08  E-value=4.3e-05  Score=50.70  Aligned_cols=99  Identities=11%  Similarity=-0.035  Sum_probs=63.3

Q ss_pred             hhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchH----------HHHHHHHHHHHHcCCCCChhHHHHHHHH
Q 046446            6 YCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQV----------ERAFKLFDEMQRDGVAADTRTYTIFIDG   75 (244)
Q Consensus         6 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~----------~~a~~~~~~m~~~~~~~~~~~~~~ll~~   75 (244)
                      ..+.+++++|.+.++...+.. +.+...|..+..++...+++          ++|+..|++..+.... +..+|..+..+
T Consensus        12 ~~r~~~feeA~~~~~~Ai~l~-P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~-~~~A~~~LG~a   89 (158)
T 1zu2_A           12 FDRILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPK-KDEAVWCIGNA   89 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHhHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcC-cHHHHHHHHHH
Confidence            345667778888888777763 44666777777777766654          4777777777765322 45667777777


Q ss_pred             HHhCC-----------cHHHHHHHHHHHHHhCCCccHHhHHHHH
Q 046446           76 LCKNG-----------YIVESVELFRTLRILKCELDIQAYSCLI  108 (244)
Q Consensus        76 ~~~~~-----------~~~~a~~~~~~~~~~~~~~~~~~~~~ll  108 (244)
                      |...|           ++++|++.|++..+..  |+...|...+
T Consensus        90 y~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l~--P~~~~y~~al  131 (158)
T 1zu2_A           90 YTSFAFLTPDETEAKHNFDLATQFFQQAVDEQ--PDNTHYLKSL  131 (158)
T ss_dssp             HHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHC--TTCHHHHHHH
T ss_pred             HHHhcccCcchhhhhccHHHHHHHHHHHHHhC--CCCHHHHHHH
Confidence            76653           6777777777766653  4444443333

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.05  E-value=4e-05  Score=48.04  Aligned_cols=24  Identities=4%  Similarity=-0.034  Sum_probs=9.0

Q ss_pred             HHHHHHHHHhCCcHHHHHHHHHHH
Q 046446           69 YTIFIDGLCKNGYIVESVELFRTL   92 (244)
Q Consensus        69 ~~~ll~~~~~~~~~~~a~~~~~~~   92 (244)
                      +..+...+...|++++|...|++.
T Consensus        22 ~~~lg~~~~~~g~~~~A~~~~~~a   45 (115)
T 2kat_A           22 RFTLGKTYAEHEQFDAALPHLRAA   45 (115)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHH
Confidence            333333333333333333333333

>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=98.04  E-value=2.9e-05  Score=51.48  Aligned_cols=88  Identities=13%  Similarity=0.136  Sum_probs=62.2

Q ss_pred             HhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcH----------HHHHHHHHHHHHhCCCccHHhHHHHHHH
Q 046446           41 LFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYI----------VESVELFRTLRILKCELDIQAYSCLIDG  110 (244)
Q Consensus        41 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~----------~~a~~~~~~~~~~~~~~~~~~~~~ll~~  110 (244)
                      ..+.+.+++|...+++..+.. +-+...|..+..++...+++          ++|+..|++..+.. +.+..+|..+..+
T Consensus        12 ~~r~~~feeA~~~~~~Ai~l~-P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ld-P~~~~A~~~LG~a   89 (158)
T 1zu2_A           12 FDRILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNA   89 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHhHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhC-cCcHHHHHHHHHH
Confidence            346678889999998888874 33777888888888777654          57888888877765 4566777778777


Q ss_pred             HHcCC-----------CHHHHHHHHHhcccC
Q 046446          111 LCKSG-----------RLEIALELFHSLPRG  130 (244)
Q Consensus       111 ~~~~~-----------~~~~a~~~~~~~~~~  130 (244)
                      |...|           ++++|...|++..+.
T Consensus        90 y~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l  120 (158)
T 1zu2_A           90 YTSFAFLTPDETEAKHNFDLATQFFQQAVDE  120 (158)
T ss_dssp             HHHHHHHCCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhcccCcchhhhhccHHHHHHHHHHHHHh
Confidence            77664           555565555555544

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.95  E-value=5.7e-05  Score=46.15  Aligned_cols=61  Identities=15%  Similarity=0.054  Sum_probs=28.1

Q ss_pred             hhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhc
Q 046446           66 TRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSL  127 (244)
Q Consensus        66 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~  127 (244)
                      ...+..+...+.+.|++++|+..|++..+.. +.+..+|..+..+|...|++++|...|++.
T Consensus         7 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~a   67 (100)
T 3ma5_A            7 PFTRYALAQEHLKHDNASRALALFEELVETD-PDYVGTYYHLGKLYERLDRTDDAIDTYAQG   67 (100)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            3344444444444444444444444444443 223344444444444444444444444443

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.94  E-value=0.0001  Score=44.96  Aligned_cols=62  Identities=16%  Similarity=0.140  Sum_probs=31.1

Q ss_pred             HHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHH
Q 046446          136 VVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMK  198 (244)
Q Consensus       136 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  198 (244)
                      ...+..+...|...|++++|...|+...+.... +...|..+..++...|++++|...+++..
T Consensus         7 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al   68 (100)
T 3ma5_A            7 PFTRYALAQEHLKHDNASRALALFEELVETDPD-YVGTYYHLGKLYERLDRTDDAIDTYAQGI   68 (100)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            444555555555555555555555555443211 33445555555555555555555555544

>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=97.91  E-value=0.00086  Score=50.87  Aligned_cols=142  Identities=11%  Similarity=-0.004  Sum_probs=85.2

Q ss_pred             CCCChhHHHHHHHHHHh--C---CcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHc----CC----C---HHHHHHHHH
Q 046446           62 VAADTRTYTIFIDGLCK--N---GYIVESVELFRTLRILKCELDIQAYSCLIDGLCK----SG----R---LEIALELFH  125 (244)
Q Consensus        62 ~~~~~~~~~~ll~~~~~--~---~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~----~---~~~a~~~~~  125 (244)
                      .+.+...|...+++...  .   .+..+|..+|++..+.. |-....|..+..+|..    .+    .   ...+.+-..
T Consensus       190 ~p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~lD-P~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~~  268 (372)
T 3ly7_A          190 LPHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQSS-PEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNIV  268 (372)
T ss_dssp             SCSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHHH
Confidence            34456666666655432  2   22356677777776654 2333444433333321    00    0   111222111


Q ss_pred             hcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC
Q 046446          126 SLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPD  205 (244)
Q Consensus       126 ~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  205 (244)
                      .+..  .+.+..+|..+...+...|++++|...++.+...+  |+...|..+...+.-.|++++|.+.+.+....  .|.
T Consensus       269 a~~~--~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL--~P~  342 (372)
T 3ly7_A          269 TLPE--LNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNL--RPG  342 (372)
T ss_dssp             TCGG--GTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCS
T ss_pred             hccc--CCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCC
Confidence            1111  24567777777777777789999999999888765  67777777777788889999999998887775  466


Q ss_pred             hhhHH
Q 046446          206 ASIVS  210 (244)
Q Consensus       206 ~~~~~  210 (244)
                      ..||.
T Consensus       343 ~~t~~  347 (372)
T 3ly7_A          343 ANTLY  347 (372)
T ss_dssp             HHHHH
T ss_pred             cChHH
Confidence            66654

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=97.87  E-value=0.004  Score=49.75  Aligned_cols=177  Identities=8%  Similarity=-0.066  Sum_probs=112.0

Q ss_pred             HHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHh
Q 046446           47 VERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHS  126 (244)
Q Consensus        47 ~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~  126 (244)
                      .+.+..+|+++... .+.+...|...+..+.+.|+.+.|..++++....  |.+...|...... ...++.  ...+.+.
T Consensus       195 ~~Rv~~~ye~al~~-~p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l~~~y~~~-~e~~~~--~~~l~~~  268 (493)
T 2uy1_A          195 ESRMHFIHNYILDS-FYYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFLSLYYGLV-MDEEAV--YGDLKRK  268 (493)
T ss_dssp             HHHHHHHHHHHHHH-TTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHHHHHHH-TTCTHH--HHHHHHH
T ss_pred             HHHHHHHHHHHHHc-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHHHHHHHhh-cchhHH--HHHHHHH
Confidence            45677889988876 4456788888888888999999999999999987  4454444322221 111111  1122222


Q ss_pred             cccCC--------ccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHh-cCChhHHHHHHHHH
Q 046446          127 LPRGV--------LVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIR-INEPSKVIELLHKM  197 (244)
Q Consensus       127 ~~~~~--------~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~-~g~~~~a~~~~~~~  197 (244)
                      .....        .......|...+....+.++.+.|..+|+.. .. ...+...|......-.. .++.+.|..+|+..
T Consensus       269 ~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~-~~~~~~v~i~~A~lE~~~~~d~~~ar~ife~a  346 (493)
T 2uy1_A          269 YSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GN-EGVGPHVFIYCAFIEYYATGSRATPYNIFSSG  346 (493)
T ss_dssp             TC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TT-SCCCHHHHHHHHHHHHHHHCCSHHHHHHHHHH
T ss_pred             HHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hC-CCCChHHHHHHHHHHHHHCCChHHHHHHHHHH
Confidence            11000        0112356777778777888999999999998 32 12344445432222222 34699999999998


Q ss_pred             HHCCCCCChhhHHHHHHHHHhccccccchhhhhhh
Q 046446          198 KEKNVMPDASIVSIVVDLLAKNEISLNSLPSFTVH  232 (244)
Q Consensus       198 ~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  232 (244)
                      .+.- +-+...+...++...+.|+.+.|..+|+..
T Consensus       347 l~~~-~~~~~~~~~yid~e~~~~~~~~aR~l~er~  380 (493)
T 2uy1_A          347 LLKH-PDSTLLKEEFFLFLLRIGDEENARALFKRL  380 (493)
T ss_dssp             HHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHS
T ss_pred             HHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            8753 223444555677777888888888888765

>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=97.74  E-value=0.00015  Score=56.76  Aligned_cols=86  Identities=7%  Similarity=-0.063  Sum_probs=56.7

Q ss_pred             hhchHHHHHHHHHHHHHc---CCCCC----hhHHHHHHHHHHhCCcHHHHHHHHHHHHHh-----C--CCccHHhHHHHH
Q 046446           43 EIHQVERAFKLFDEMQRD---GVAAD----TRTYTIFIDGLCKNGYIVESVELFRTLRIL-----K--CELDIQAYSCLI  108 (244)
Q Consensus        43 ~~~~~~~a~~~~~~m~~~---~~~~~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-----~--~~~~~~~~~~ll  108 (244)
                      ..|++++|+.++++..+.   -+.|+    ..+++.+..+|...|++++|+.++++....     |  .+....+++.|.
T Consensus       299 ~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l~nLa  378 (429)
T 3qwp_A          299 AHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQVMKVG  378 (429)
T ss_dssp             HTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHH
T ss_pred             hhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHHHHHH
Confidence            456777777777777643   12222    356777777787888888888877776532     2  122344577777


Q ss_pred             HHHHcCCCHHHHHHHHHhcc
Q 046446          109 DGLCKSGRLEIALELFHSLP  128 (244)
Q Consensus       109 ~~~~~~~~~~~a~~~~~~~~  128 (244)
                      ..|...|++++|+.++++..
T Consensus       379 ~~~~~~g~~~eA~~~~~~Al  398 (429)
T 3qwp_A          379 KLQLHQGMFPQAMKNLRLAF  398 (429)
T ss_dssp             HHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhcCCHHHHHHHHHHHH
Confidence            88888888888777777654

>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=97.70  E-value=0.00012  Score=57.40  Aligned_cols=85  Identities=2%  Similarity=-0.203  Sum_probs=58.1

Q ss_pred             chHHHHHHHHHHHHHc---CCCCC----hhHHHHHHHHHHhCCcHHHHHHHHHHHHHh-----C--CCccHHhHHHHHHH
Q 046446           45 HQVERAFKLFDEMQRD---GVAAD----TRTYTIFIDGLCKNGYIVESVELFRTLRIL-----K--CELDIQAYSCLIDG  110 (244)
Q Consensus        45 ~~~~~a~~~~~~m~~~---~~~~~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-----~--~~~~~~~~~~ll~~  110 (244)
                      |++++|+.++++..+.   -+.|+    ..+++.|..+|...|++++|+.++++....     |  .+-...+++.|...
T Consensus       312 g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~  391 (433)
T 3qww_A          312 KSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGRL  391 (433)
T ss_dssp             SCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHH
Confidence            5677777777766542   12222    356788888888888888888888876542     2  22234557888888


Q ss_pred             HHcCCCHHHHHHHHHhccc
Q 046446          111 LCKSGRLEIALELFHSLPR  129 (244)
Q Consensus       111 ~~~~~~~~~a~~~~~~~~~  129 (244)
                      |...|++++|+.++++..+
T Consensus       392 ~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          392 YMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHhccCHHHHHHHHHHHHH
Confidence            8888888888888876543

>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=97.69  E-value=0.00013  Score=57.08  Aligned_cols=84  Identities=6%  Similarity=-0.149  Sum_probs=64.1

Q ss_pred             cHHHHHHHHHHHHHh-------CCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccC-----C--ccccHHHHHHHHHHH
Q 046446           81 YIVESVELFRTLRIL-------KCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRG-----V--LVADVVTYSIMIHGL  146 (244)
Q Consensus        81 ~~~~a~~~~~~~~~~-------~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-----~--~~~~~~~~~~li~~~  146 (244)
                      ++++|+.++++..+.       ..+....+++.|..+|...|++++|+.++++....     |  .+-...+++.|...|
T Consensus       313 ~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~  392 (433)
T 3qww_A          313 SPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGRLY  392 (433)
T ss_dssp             CHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHH
Confidence            567777777766542       12234567999999999999999999999876531     2  222366799999999


Q ss_pred             HccCChHHHHHHHHHHHH
Q 046446          147 YNDGQMDKAHDLFLDMEE  164 (244)
Q Consensus       147 ~~~~~~~~a~~~~~~~~~  164 (244)
                      ...|++++|..++++..+
T Consensus       393 ~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          393 MGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HhccCHHHHHHHHHHHHH
Confidence            999999999999988664

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.68  E-value=0.00048  Score=58.28  Aligned_cols=100  Identities=15%  Similarity=0.108  Sum_probs=48.3

Q ss_pred             HhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHH
Q 046446           77 CKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAH  156 (244)
Q Consensus        77 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~  156 (244)
                      ...|+++.|.++.+.+      .+...|..+...+.+.|+++.|.+.|.++..         |..+...+...|+.+...
T Consensus       663 l~~~~~~~A~~~~~~~------~~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~  727 (814)
T 3mkq_A          663 LKVGQLTLARDLLTDE------SAEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLV  727 (814)
T ss_dssp             HHHTCHHHHHHHHTTC------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHH
T ss_pred             hhcCCHHHHHHHHHhh------CcHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHH
Confidence            3445555555543321      3445555555666666666666655555543         223333334455555544


Q ss_pred             HHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHH
Q 046446          157 DLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKM  197 (244)
Q Consensus       157 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~  197 (244)
                      ++.+.....|.      ++....+|.+.|++++|.+++.++
T Consensus       728 ~~~~~a~~~~~------~~~A~~~~~~~g~~~~a~~~~~~~  762 (814)
T 3mkq_A          728 TLAKDAETTGK------FNLAFNAYWIAGDIQGAKDLLIKS  762 (814)
T ss_dssp             HHHHHHHHTTC------HHHHHHHHHHHTCHHHHHHHHHHT
T ss_pred             HHHHHHHHcCc------hHHHHHHHHHcCCHHHHHHHHHHc
Confidence            44444333221      233344455556666666655543

>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=97.68  E-value=0.0032  Score=47.82  Aligned_cols=144  Identities=10%  Similarity=-0.031  Sum_probs=99.4

Q ss_pred             CCChhhHHHHHHHHhh-----hchHHHHHHHHHHHHHcCCCCC-hhHHHHHHHHHHh----CC-cHHHHH---HHHHHHH
Q 046446           28 KPDVVIHNTLFIGLFE-----IHQVERAFKLFDEMQRDGVAAD-TRTYTIFIDGLCK----NG-YIVESV---ELFRTLR   93 (244)
Q Consensus        28 ~~~~~~~~~li~~~~~-----~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~----~~-~~~~a~---~~~~~~~   93 (244)
                      +.+...|...+++...     .....+|..+|++..+.  .|+ ...+..+.-+|..    .+ ......   ..++...
T Consensus       191 p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~l--DP~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~~  268 (372)
T 3ly7_A          191 PHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQS--SPEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNIV  268 (372)
T ss_dssp             CSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHHH
Confidence            5677788888866543     24568999999999986  444 3445444444421    11 111111   1222111


Q ss_pred             H-hCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHh
Q 046446           94 I-LKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVI  172 (244)
Q Consensus        94 ~-~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~  172 (244)
                      . ..-+.+..+|..+...+...|++++|...+++....+  |+...|..+...+.-.|++++|.+.+++....  .|...
T Consensus       269 a~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL--~P~~~  344 (372)
T 3ly7_A          269 TLPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNL--RPGAN  344 (372)
T ss_dssp             TCGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCSHH
T ss_pred             hcccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCcC
Confidence            1 1225678888888888888899999999999999875  78888888888999999999999999998875  46776


Q ss_pred             HHHHH
Q 046446          173 TFGTL  177 (244)
Q Consensus       173 ~~~~l  177 (244)
                      +|...
T Consensus       345 t~~~~  349 (372)
T 3ly7_A          345 TLYWI  349 (372)
T ss_dssp             HHHHH
T ss_pred             hHHHH
Confidence            66543

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.68  E-value=0.0026  Score=53.80  Aligned_cols=28  Identities=11%  Similarity=0.057  Sum_probs=16.6

Q ss_pred             ChhHHHHHHHHHHhCCcHHHHHHHHHHH
Q 046446           65 DTRTYTIFIDGLCKNGYIVESVELFRTL   92 (244)
Q Consensus        65 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~   92 (244)
                      +...|..+...+.+.++++.|.+.|.++
T Consensus       680 ~~~~W~~la~~al~~~~~~~A~~~y~~~  707 (814)
T 3mkq_A          680 AEMKWRALGDASLQRFNFKLAIEAFTNA  707 (814)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             cHhHHHHHHHHHHHcCCHHHHHHHHHHc
Confidence            4455666666666666666666665554

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=97.63  E-value=0.00021  Score=55.95  Aligned_cols=89  Identities=12%  Similarity=-0.006  Sum_probs=69.4

Q ss_pred             HHhCCcHHHHHHHHHHHHHhC-------CCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccC-------CccccHHHHHH
Q 046446           76 LCKNGYIVESVELFRTLRILK-------CELDIQAYSCLIDGLCKSGRLEIALELFHSLPRG-------VLVADVVTYSI  141 (244)
Q Consensus        76 ~~~~~~~~~a~~~~~~~~~~~-------~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~  141 (244)
                      +.+.|++++|+.++++..+..       .+....+++.+..+|...|++++|+.++++....       ..+....+++.
T Consensus       297 ~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l~n  376 (429)
T 3qwp_A          297 LKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQVMK  376 (429)
T ss_dssp             HHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHH
T ss_pred             HHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHHHH
Confidence            335689999999999887531       1234567899999999999999999998876431       12233667899


Q ss_pred             HHHHHHccCChHHHHHHHHHHHH
Q 046446          142 MIHGLYNDGQMDKAHDLFLDMEE  164 (244)
Q Consensus       142 li~~~~~~~~~~~a~~~~~~~~~  164 (244)
                      |...|...|++++|..++++..+
T Consensus       377 La~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          377 VGKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHH
Confidence            99999999999999999988653

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.62  E-value=0.00055  Score=41.30  Aligned_cols=57  Identities=14%  Similarity=0.223  Sum_probs=34.3

Q ss_pred             HHHhhhchHHHHHHHHHHHHHcCCCCChh-HHHHHHHHHHhCCcHHHHHHHHHHHHHhC
Q 046446           39 IGLFEIHQVERAFKLFDEMQRDGVAADTR-TYTIFIDGLCKNGYIVESVELFRTLRILK   96 (244)
Q Consensus        39 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~   96 (244)
                      ..+...|++++|+..|++..+.. +.+.. .+..+..++...|++++|.+.|++..+..
T Consensus         8 ~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~   65 (99)
T 2kc7_A            8 KELINQGDIENALQALEEFLQTE-PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELN   65 (99)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHC-SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            34555666666666666666542 22344 56666666666666666666666666554

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.37  E-value=0.00075  Score=40.69  Aligned_cols=81  Identities=10%  Similarity=0.077  Sum_probs=59.3

Q ss_pred             hhhhhhcCChhHHHHHHHHHHhCCCCCChh-hHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCc
Q 046446            3 INGYCKNKEIEGALNLYSEMLSKGIKPDVV-IHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGY   81 (244)
Q Consensus         3 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~   81 (244)
                      ...+.+.|++++|+..|++..+.. +.+.. .+..+..++...|++++|...|++..+.... +..++..        +.
T Consensus         7 a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~--------~~   76 (99)
T 2kc7_A            7 IKELINQGDIENALQALEEFLQTE-PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELNPD-SPALQAR--------KM   76 (99)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC-SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-STHHHHH--------HH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-cHHHHHH--------HH
Confidence            346788999999999999998863 34556 8888899999999999999999999887332 3333311        34


Q ss_pred             HHHHHHHHHHHH
Q 046446           82 IVESVELFRTLR   93 (244)
Q Consensus        82 ~~~a~~~~~~~~   93 (244)
                      +.++...|++..
T Consensus        77 ~~~a~~~~~~~~   88 (99)
T 2kc7_A           77 VMDILNFYNKDM   88 (99)
T ss_dssp             HHHHHHHHCCTT
T ss_pred             HHHHHHHHHHHh
Confidence            455555555443

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=97.35  E-value=0.0047  Score=37.80  Aligned_cols=67  Identities=9%  Similarity=-0.031  Sum_probs=42.0

Q ss_pred             ChhhHHHHHHHHhhhchHHHHHHHHHHHHHcC------CCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhC
Q 046446           30 DVVIHNTLFIGLFEIHQVERAFKLFDEMQRDG------VAADTRTYTIFIDGLCKNGYIVESVELFRTLRILK   96 (244)
Q Consensus        30 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~------~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~   96 (244)
                      +..-+..+...+.+.|+++.|...|+...+..      -.+...++..+..++.+.|+++.|...+++..+..
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~   76 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELD   76 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC
Confidence            44555566666777777777777777665431      12244556666667777777777777777666543

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.30  E-value=0.0028  Score=38.02  Aligned_cols=65  Identities=15%  Similarity=0.020  Sum_probs=30.7

Q ss_pred             ChhHHHHHHHHHHhCCc---HHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccC
Q 046446           65 DTRTYTIFIDGLCKNGY---IVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRG  130 (244)
Q Consensus        65 ~~~~~~~ll~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  130 (244)
                      |+..+..+..++...++   .++|..++++..+.. +-+..+...+...+...|++++|...|+.+.+.
T Consensus         5 ~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~d-p~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~   72 (93)
T 3bee_A            5 TATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLE-PYNEAALSLIANDHFISFRFQEAIDTWVLLLDS   72 (93)
T ss_dssp             CHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTC
T ss_pred             CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            34444444444432222   355555555555444 334444444555555555555555555555444

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=97.12  E-value=0.0048  Score=40.52  Aligned_cols=84  Identities=10%  Similarity=0.081  Sum_probs=43.1

Q ss_pred             CChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhc---hHHHHHHHHHHHHHcCCCC--ChhHHHHHHHHHHhCCcHHH
Q 046446           10 KEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIH---QVERAFKLFDEMQRDGVAA--DTRTYTIFIDGLCKNGYIVE   84 (244)
Q Consensus        10 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~---~~~~a~~~~~~m~~~~~~~--~~~~~~~ll~~~~~~~~~~~   84 (244)
                      .....+.+-|.+..+.| +++..+.-.+..++++.+   +.++++.++++..+.. .|  ....+..+.-++.+.|++++
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 EDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEK   89 (152)
T ss_dssp             HHHHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHH
T ss_pred             HHHHHHHHHHHHHHccC-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHH
Confidence            34444555555554444 244444444444555544   4556666666655543 12  23344445555566666666


Q ss_pred             HHHHHHHHHHh
Q 046446           85 SVELFRTLRIL   95 (244)
Q Consensus        85 a~~~~~~~~~~   95 (244)
                      |.+.++.+.+.
T Consensus        90 A~~y~~~lL~i  100 (152)
T 1pc2_A           90 ALKYVRGLLQT  100 (152)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHhc
Confidence            66666666554

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.03  E-value=0.018  Score=34.45  Aligned_cols=67  Identities=10%  Similarity=0.030  Sum_probs=38.0

Q ss_pred             ccHHHHHHHHHHHHccCC---hHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCC
Q 046446          134 ADVVTYSIMIHGLYNDGQ---MDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKN  201 (244)
Q Consensus       134 ~~~~~~~~li~~~~~~~~---~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  201 (244)
                      .+...+..+..++...++   .++|..++++..+.... +......+...+.+.|++++|...|+++.+..
T Consensus         4 ~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~-~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~   73 (93)
T 3bee_A            4 VTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPY-NEAALSLIANDHFISFRFQEAIDTWVLLLDSN   73 (93)
T ss_dssp             CCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCC
T ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            345555555555543333   46666666666654322 44555555566666666666666666666553

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=97.02  E-value=0.011  Score=36.12  Aligned_cols=67  Identities=10%  Similarity=-0.059  Sum_probs=40.0

Q ss_pred             CChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhC------CCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccC
Q 046446           64 ADTRTYTIFIDGLCKNGYIVESVELFRTLRILK------CELDIQAYSCLIDGLCKSGRLEIALELFHSLPRG  130 (244)
Q Consensus        64 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  130 (244)
                      .++.-+..|...+.+.+++..|...|+...+..      -.+....+..+..++.+.|+++.|...+++..+.
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            345556667777777777777777777665431      1233445555666666666666666666655543

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=97.00  E-value=0.02  Score=38.58  Aligned_cols=103  Identities=13%  Similarity=0.172  Sum_probs=80.4

Q ss_pred             HHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChH
Q 046446           74 DGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMD  153 (244)
Q Consensus        74 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~  153 (244)
                      ....+.|+++.|.++.+.+      .+...|..|.......|+++-|++.|.+...         +..+.-.|...|+.+
T Consensus        13 ~LAL~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e   77 (177)
T 3mkq_B           13 DLALEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVN   77 (177)
T ss_dssp             HHHHHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHH
T ss_pred             HHHHhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHH
Confidence            4456789999999997765      5788999999999999999999999998875         344555566678888


Q ss_pred             HHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHH
Q 046446          154 KAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKM  197 (244)
Q Consensus       154 ~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~  197 (244)
                      ...++-+.....|      -++.....+.-.|+++++.++|.+.
T Consensus        78 ~L~kla~iA~~~g------~~n~af~~~l~lGdv~~~i~lL~~~  115 (177)
T 3mkq_B           78 KLSKMQNIAQTRE------DFGSMLLNTFYNNSTKERSSIFAEG  115 (177)
T ss_dssp             HHHHHHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHCc------cHHHHHHHHHHcCCHHHHHHHHHHC
Confidence            8777766655543      2566667777889999999998653

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.91  E-value=0.016  Score=37.99  Aligned_cols=83  Identities=17%  Similarity=0.085  Sum_probs=49.5

Q ss_pred             hHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCC---cHHHHHHHHHHHHHhCCCc--cHHhHHHHHHHHHcCCCHHHH
Q 046446           46 QVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNG---YIVESVELFRTLRILKCEL--DIQAYSCLIDGLCKSGRLEIA  120 (244)
Q Consensus        46 ~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~---~~~~a~~~~~~~~~~~~~~--~~~~~~~ll~~~~~~~~~~~a  120 (244)
                      ....+.+-|.+..+.|. ++..+...+.-++++.+   +.++++.+++...+.+ .|  +...+-.+.-+|.+.|++++|
T Consensus        13 ~l~~~~~~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A   90 (152)
T 1pc2_A           13 DLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKA   90 (152)
T ss_dssp             HHHHHHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHH
T ss_pred             HHHHHHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHH
Confidence            34455555555555443 46666666666666666   5557777777766654 23  234444455566777777777


Q ss_pred             HHHHHhcccC
Q 046446          121 LELFHSLPRG  130 (244)
Q Consensus       121 ~~~~~~~~~~  130 (244)
                      .+.++.+.+.
T Consensus        91 ~~y~~~lL~i  100 (152)
T 1pc2_A           91 LKYVRGLLQT  100 (152)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHhc
Confidence            7777776664

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.79  E-value=0.059  Score=36.33  Aligned_cols=128  Identities=10%  Similarity=0.111  Sum_probs=92.2

Q ss_pred             HHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHH
Q 046446           40 GLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEI  119 (244)
Q Consensus        40 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~  119 (244)
                      ...+.|+++.|.++.+.+      -+...|..|.......|+++-|.+.|.+...         +..+.-.|...|+.+.
T Consensus        14 LAL~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~   78 (177)
T 3mkq_B           14 LALEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNK   78 (177)
T ss_dssp             HHHHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHH
T ss_pred             HHHhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHH
Confidence            345789999999997765      3788999999999999999999999998753         2446666777888887


Q ss_pred             HHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHH
Q 046446          120 ALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKM  197 (244)
Q Consensus       120 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~  197 (244)
                      -.++-+.....|      -++.....+...|+++++.++|.+...   .|      ..+......|-.+.|.++.+++
T Consensus        79 L~kla~iA~~~g------~~n~af~~~l~lGdv~~~i~lL~~~~r---~~------eA~~~A~t~g~~~~a~~~~~~~  141 (177)
T 3mkq_B           79 LSKMQNIAQTRE------DFGSMLLNTFYNNSTKERSSIFAEGGS---LP------LAYAVAKANGDEAAASAFLEQA  141 (177)
T ss_dssp             HHHHHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHHTTC---HH------HHHHHHHHTTCHHHHHHHHHHT
T ss_pred             HHHHHHHHHHCc------cHHHHHHHHHHcCCHHHHHHHHHHCCC---hH------HHHHHHHHcCcHHHHHHHHHHh
Confidence            776666655544      245555666778999999999864332   22      1122223467777888887665

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=96.73  E-value=0.031  Score=40.95  Aligned_cols=83  Identities=12%  Similarity=0.032  Sum_probs=44.5

Q ss_pred             HHHHHHHHHHHHHcCCCCC---hhHHHHHHHHHHhC-----CcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcC-CCH
Q 046446           47 VERAFKLFDEMQRDGVAAD---TRTYTIFIDGLCKN-----GYIVESVELFRTLRILKCELDIQAYSCLIDGLCKS-GRL  117 (244)
Q Consensus        47 ~~~a~~~~~~m~~~~~~~~---~~~~~~ll~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~-~~~  117 (244)
                      ...|...+++..+.  .|+   -..|..+...|.+.     |+.++|.+.|++..+.+..-+..++......++.. |+.
T Consensus       179 l~~A~a~lerAleL--DP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~  256 (301)
T 3u64_A          179 VHAAVMMLERACDL--WPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNR  256 (301)
T ss_dssp             HHHHHHHHHHHHHH--CTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCH
T ss_pred             HHHHHHHHHHHHHh--CCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCH
Confidence            34555555555543  333   34555566666553     66666666666666554211355555555555553 666


Q ss_pred             HHHHHHHHhcccCC
Q 046446          118 EIALELFHSLPRGV  131 (244)
Q Consensus       118 ~~a~~~~~~~~~~~  131 (244)
                      +++.+.+++.....
T Consensus       257 ~~a~~~L~kAL~a~  270 (301)
T 3u64_A          257 AGFDEALDRALAID  270 (301)
T ss_dssp             HHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHcCC
Confidence            66666666655543

>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=0.024  Score=36.94  Aligned_cols=65  Identities=20%  Similarity=0.199  Sum_probs=44.5

Q ss_pred             CChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHH
Q 046446          150 GQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLL  216 (244)
Q Consensus       150 ~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  216 (244)
                      ++.++|.++|+.+.+.+-.. ...|......-.++|+...|.+++......+.+|. ..+...++-+
T Consensus        74 ~D~d~aR~vy~~a~~~hKkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~~-~~le~a~~nl  138 (161)
T 4h7y_A           74 QEPDDARDYFQMARANCKKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAVPL-EMLEIALRNL  138 (161)
T ss_dssp             HCGGGCHHHHHHHHHHCTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBCH-HHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHhHHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCcH-HHHHHHHHhh
Confidence            67888888888887653333 66666666666788889999999888888765543 3444444433

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=96.61  E-value=0.025  Score=41.42  Aligned_cols=95  Identities=17%  Similarity=0.130  Sum_probs=73.8

Q ss_pred             ChhHHHHHHHHHHhCCCCCC---hhhHHHHHHHHhhh-----chHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHh-CCc
Q 046446           11 EIEGALNLYSEMLSKGIKPD---VVIHNTLFIGLFEI-----HQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCK-NGY   81 (244)
Q Consensus        11 ~~~~a~~~~~~~~~~~~~~~---~~~~~~li~~~~~~-----~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~-~~~   81 (244)
                      ....|...+++..+.  .|+   ...|..+...|...     |+.++|.+.|++..+.+..-+..++......++. .|+
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            346777888888876  455   56788888888884     9999999999999996443247778888888888 499


Q ss_pred             HHHHHHHHHHHHHhCCC--ccHHhHHHH
Q 046446           82 IVESVELFRTLRILKCE--LDIQAYSCL  107 (244)
Q Consensus        82 ~~~a~~~~~~~~~~~~~--~~~~~~~~l  107 (244)
                      .+.+.+.+++.......  |+....+.+
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            99999999999987655  555544443

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=96.23  E-value=0.068  Score=44.78  Aligned_cols=124  Identities=15%  Similarity=0.096  Sum_probs=80.7

Q ss_pred             hhhhhhhcCC-hhHHHHHHHHHHhCCCCCChhhH--HHHHHHHhhhc-hHHHHHHHHHHHHHc------CCCCCh-----
Q 046446            2 LINGYCKNKE-IEGALNLYSEMLSKGIKPDVVIH--NTLFIGLFEIH-QVERAFKLFDEMQRD------GVAADT-----   66 (244)
Q Consensus         2 li~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~--~~li~~~~~~~-~~~~a~~~~~~m~~~------~~~~~~-----   66 (244)
                      |+..+...++ ++.|..+|+++...  .|...++  ..++..+...+ +--+|.+++.+..+.      ...+..     
T Consensus       254 Ll~~~~~t~~~~~~a~~~le~L~~~--~p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~~~~  331 (754)
T 4gns_B          254 LKSFIAITPSLVDFTIDYLKGLTKK--DPIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDADSAR  331 (754)
T ss_dssp             HHHHHHTCGGGHHHHHHHHHHHHHH--CGGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHHHHH
T ss_pred             HHHHHcccccHHHHHHHHHHHHHhh--CCchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhccccccccc
Confidence            3445555666 58899999999887  4543332  23333333332 233444444444321      122111     


Q ss_pred             ------hHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcc
Q 046446           67 ------RTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLP  128 (244)
Q Consensus        67 ------~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  128 (244)
                            ...+.=.+.+...|+++.|+++-++..... |-+-.+|..|..+|...|+++.|+-.+..+.
T Consensus       332 ~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~a-PseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          332 LMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTELA-LDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             ccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHhcC-chhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence                  122222345667899999999999998875 5678899999999999999999999999874

>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=96.18  E-value=0.068  Score=34.86  Aligned_cols=54  Identities=13%  Similarity=0.108  Sum_probs=36.1

Q ss_pred             CCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCC
Q 046446          115 GRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAP  169 (244)
Q Consensus       115 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p  169 (244)
                      ++.++|.++|+.+.+.+-.. ...|....+.=.+.|+.+.|.+++......+..|
T Consensus        74 ~D~d~aR~vy~~a~~~hKkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~  127 (161)
T 4h7y_A           74 QEPDDARDYFQMARANCKKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAVP  127 (161)
T ss_dssp             HCGGGCHHHHHHHHHHCTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBC
T ss_pred             cCHHHHHHHHHHHHHHhHHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCc
Confidence            56677777777665433222 6666666666677888888888887777765553

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=96.18  E-value=0.08  Score=44.37  Aligned_cols=125  Identities=10%  Similarity=0.007  Sum_probs=79.8

Q ss_pred             HHHHHHHhhhch-HHHHHHHHHHHHHcCCCCChhH--HHHHHHHHHhCCc-HHHHHHHHHHHHHh------CCCccH---
Q 046446           35 NTLFIGLFEIHQ-VERAFKLFDEMQRDGVAADTRT--YTIFIDGLCKNGY-IVESVELFRTLRIL------KCELDI---  101 (244)
Q Consensus        35 ~~li~~~~~~~~-~~~a~~~~~~m~~~~~~~~~~~--~~~ll~~~~~~~~-~~~a~~~~~~~~~~------~~~~~~---  101 (244)
                      ..++..+...++ .+.|..+++++....  |...+  ...++..+.+.++ --+|.+++.+..+.      ..++..   
T Consensus       252 ~~Ll~~~~~t~~~~~~a~~~le~L~~~~--p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~~  329 (754)
T 4gns_B          252 YSLKSFIAITPSLVDFTIDYLKGLTKKD--PIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDADS  329 (754)
T ss_dssp             HHHHHHHHTCGGGHHHHHHHHHHHHHHC--GGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHHH
T ss_pred             HHHHHHHcccccHHHHHHHHHHHHHhhC--CchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhccccccc
Confidence            345555555555 688999999998873  33333  2233444433332 22455555444321      111111   


Q ss_pred             --------HhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHH
Q 046446          102 --------QAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDM  162 (244)
Q Consensus       102 --------~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  162 (244)
                              .....=...+...|+++.|+.+-++....- +-+-.+|..|..+|...|+++.|+-.++.+
T Consensus       330 ~~~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~a-PseF~tW~~La~vYi~l~d~e~ALLtLNSc  397 (754)
T 4gns_B          330 ARLMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTELA-LDSFESWYNLARCHIKKEEYEKALFAINSM  397 (754)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             ccccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHhcC-chhhHHHHHHHHHHHHhccHHHHHHHHhcC
Confidence                    112222345667899999999999987763 445889999999999999999999999876

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=96.10  E-value=0.12  Score=32.62  Aligned_cols=82  Identities=10%  Similarity=-0.012  Sum_probs=41.8

Q ss_pred             HHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHH---HHHHHHhcccCCcc-ccHHHHHHHHHHHHccCChHHHHHH
Q 046446           83 VESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEI---ALELFHSLPRGVLV-ADVVTYSIMIHGLYNDGQMDKAHDL  158 (244)
Q Consensus        83 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~---a~~~~~~~~~~~~~-~~~~~~~~li~~~~~~~~~~~a~~~  158 (244)
                      ..+.+-|......|. ++..+--.+..++.+......   +..+++.+...+.+ -.......|.-++.+.|++++|.+.
T Consensus        18 ~~~~~~y~~e~~~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~A~~~   96 (126)
T 1nzn_A           18 LKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKY   96 (126)
T ss_dssp             HHHHHHHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHhccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHHHHH
Confidence            334444444444342 555555555555555554443   55666665554311 1233344445556666666666666


Q ss_pred             HHHHHHc
Q 046446          159 FLDMEEN  165 (244)
Q Consensus       159 ~~~~~~~  165 (244)
                      ++.+.+.
T Consensus        97 ~~~lL~~  103 (126)
T 1nzn_A           97 VRGLLQT  103 (126)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHh
Confidence            6666653

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=95.93  E-value=0.14  Score=32.29  Aligned_cols=87  Identities=16%  Similarity=0.113  Sum_probs=54.8

Q ss_pred             hhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHH---HHHHHHHHHHhCCC-ccHHhHHHHHHHHHcCCCHH
Q 046446           43 EIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVE---SVELFRTLRILKCE-LDIQAYSCLIDGLCKSGRLE  118 (244)
Q Consensus        43 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~---a~~~~~~~~~~~~~-~~~~~~~~ll~~~~~~~~~~  118 (244)
                      .......+.+-|......|. |+..+-..+.-++.+......   ++.+++.+.+.+.+ ......-.|.-++.+.|+++
T Consensus        13 ~~~~l~~~~~~y~~e~~~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~   91 (126)
T 1nzn_A           13 SVEDLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYE   91 (126)
T ss_dssp             HHHHHHHHHHHHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             CHHHHHHHHHHHHHHhccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHH
Confidence            34445555566665555444 566666667777777666555   77777777665421 13333444566778888888


Q ss_pred             HHHHHHHhcccC
Q 046446          119 IALELFHSLPRG  130 (244)
Q Consensus       119 ~a~~~~~~~~~~  130 (244)
                      +|.+.++.+.+.
T Consensus        92 ~A~~~~~~lL~~  103 (126)
T 1nzn_A           92 KALKYVRGLLQT  103 (126)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            888888887765

>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=95.78  E-value=0.036  Score=42.75  Aligned_cols=73  Identities=7%  Similarity=0.063  Sum_probs=59.5

Q ss_pred             hHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHH-----hCCCccHHhHHH
Q 046446           33 IHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRI-----LKCELDIQAYSC  106 (244)
Q Consensus        33 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~~  106 (244)
                      ....++..+...|+.++++..+..+... .+.+...+..+|.++.+.|+..+|++.|++..+     .|+.|+..+-..
T Consensus       173 a~~~~~~~~l~~g~~~~a~~~l~~~~~~-~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~l  250 (388)
T 2ff4_A          173 AHTAKAEAEIACGRASAVIAELEALTFE-HPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRAL  250 (388)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH-STTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHHH
Confidence            4556777888899999999999888776 455778999999999999999999999988754     588888776543

>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=95.70  E-value=0.16  Score=30.52  Aligned_cols=46  Identities=11%  Similarity=0.154  Sum_probs=22.8

Q ss_pred             HHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHH
Q 046446          153 DKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMK  198 (244)
Q Consensus       153 ~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  198 (244)
                      -+..+-++.+....+.|++......+++|.+.+++..|.++++-.+
T Consensus        27 ~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK   72 (109)
T 1v54_E           27 WELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVK   72 (109)
T ss_dssp             HHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            3444444444444445555555555555555555555555555444

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=95.68  E-value=0.38  Score=42.75  Aligned_cols=209  Identities=12%  Similarity=0.098  Sum_probs=121.7

Q ss_pred             hhhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCC-------------------
Q 046446            3 INGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVA-------------------   63 (244)
Q Consensus         3 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-------------------   63 (244)
                      +..+...+.++.|.++....     +.++...-.+..++...|++++|.+.|++... |+.                   
T Consensus       819 ~~~l~~~~~~~~~~~l~~~~-----~~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~-~~~~~~~l~~~~~~~~~~~~~~  892 (1139)
T 4fhn_B          819 VEKLFLFKQYNACMQLIGWL-----NSDPIAVYLKALIYLKSKEAVKAVRCFKTTSL-VLYSHTSQFAVLREFQEIAEKY  892 (1139)
T ss_dssp             HHHHHHHSCTTHHHHHHHHS-----CCCHHHHHHHHHHHHHTTCHHHHHHHHHTCCC-SCTTCCCSCSSHHHHHHHHHTT
T ss_pred             HHHHHHhhhHHHHHHHhhhc-----cCCcHHHHHHHHHHHhcCCHHHHHHHHHHHhh-hhcccchhhhhhcccccccccc
Confidence            34455666666666544322     22444445666778888999999999976421 110                   


Q ss_pred             ----CChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCcc----HHhHHHHHHHHHcCCCHHHHHHHHHhcccCCcccc
Q 046446           64 ----ADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELD----IQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVAD  135 (244)
Q Consensus        64 ----~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~  135 (244)
                          .-..-|..++..+.+.+.++.+.++-+...+...+.+    ...|..+.+.+...|++++|...+-.+.....  -
T Consensus       893 ~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~--r  970 (1139)
T 4fhn_B          893 HHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPL--K  970 (1139)
T ss_dssp             TSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSS--C
T ss_pred             cccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHH--H
Confidence                0123467788888888888888888777665432211    22578888999999999999988877765432  2


Q ss_pred             HHHHHHHHHHHHccCCh------------HHHHHHHHHHHHc--CCCCcHhHHHHHHHHHHhcCChhHHHHH-HHHHHHC
Q 046446          136 VVTYSIMIHGLYNDGQM------------DKAHDLFLDMEEN--AVAPNVITFGTLIHGFIRINEPSKVIEL-LHKMKEK  200 (244)
Q Consensus       136 ~~~~~~li~~~~~~~~~------------~~a~~~~~~~~~~--~~~p~~~~~~~l~~~~~~~g~~~~a~~~-~~~~~~~  200 (244)
                      ......++...+..|..            ++..+++..-.+.  .....+.-|..|-.-....|++..|..+ |+.+.+.
T Consensus       971 ~~cLr~LV~~lce~~~~~~L~~lpf~gl~~~Vd~IL~~kAr~~~~~~~~p~Yy~iLYs~ri~r~dyR~AA~vmYe~~~RL 1050 (1139)
T 4fhn_B          971 KSCLLDFVNQLTKQGKINQLLNYSMPTLRQDVDNLLERKAFQMINVESQPCWYNILFSWRYKHQNYRDAAAIIYEKLSRY 1050 (1139)
T ss_dssp             HHHHHHHHHHHHHHCCHHHHHHHTTTSCHHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHHTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCChhhhhCCCCccHHHHHHHHHHHHHHhCCccccCCCHHHHhHhhhhccCChHHHHHHHHHHHHHh
Confidence            45566666666655543            4444444332111  1111122355555556667777665554 4554432


Q ss_pred             C---CCCC-------hhhHHHHHHHHHhc
Q 046446          201 N---VMPD-------ASIVSIVVDLLAKN  219 (244)
Q Consensus       201 ~---~~~~-------~~~~~~l~~~~~~~  219 (244)
                      +   -.+.       ...|-++|+++.-.
T Consensus      1051 ~~~~~~~~~~~~~~q~~~yL~~INaLslv 1079 (1139)
T 4fhn_B         1051 ISTTELIGKKERTFIIEHYLIVLNTLELL 1079 (1139)
T ss_dssp             HHHHCCCCHHHHHHHHHHHHHHHHHHHHS
T ss_pred             hhccccccchhHHHHHHHHHHHHHHHhcC
Confidence            1   1111       24566666666544

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=95.65  E-value=0.23  Score=31.91  Aligned_cols=138  Identities=13%  Similarity=0.095  Sum_probs=83.7

Q ss_pred             hchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHH
Q 046446           44 IHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALEL  123 (244)
Q Consensus        44 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~  123 (244)
                      .|..++..++..+....   .+..-+|-++--....-+-+-..++++.+-+   ..|.          ..+|++......
T Consensus        20 dG~v~qGveii~k~~~s---sni~E~NW~ICNiiD~a~C~y~v~vLd~IGk---iFDi----------s~C~NlKrVi~C   83 (172)
T 1wy6_A           20 DGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGS---YFDL----------DKCQNLKSVVEC   83 (172)
T ss_dssp             TTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGG---GSCG----------GGCSCTHHHHHH
T ss_pred             hhhHHHHHHHHHHHcCC---CCccccceeeeecchhhchhHHHHHHHHHhh---hcCc----------HhhhcHHHHHHH
Confidence            35566666666555543   1333333333333333344444444443321   1221          234555555555


Q ss_pred             HHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCC
Q 046446          124 FHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVM  203 (244)
Q Consensus       124 ~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  203 (244)
                      +-.+-.     +...+...+......|..+...+++..+.. +.+|++...-.+..+|.+.|+..++.+++.+.-+.|++
T Consensus        84 ~~~~n~-----~se~vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~k  157 (172)
T 1wy6_A           84 GVINNT-----LNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  157 (172)
T ss_dssp             HHHTTC-----CCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHhcc-----hHHHHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhhH
Confidence            444432     345567777888888999988888888644 34677888888888999999999999999988888864

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=95.57  E-value=0.25  Score=31.75  Aligned_cols=140  Identities=14%  Similarity=0.085  Sum_probs=94.8

Q ss_pred             hhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHH
Q 046446            7 CKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESV   86 (244)
Q Consensus         7 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~   86 (244)
                      .-.|.+++..++..+....   .+..-||.+|--....-+-+-..++++..-..   .|..          ..|+...+.
T Consensus        18 ildG~v~qGveii~k~~~s---sni~E~NW~ICNiiD~a~C~y~v~vLd~IGki---FDis----------~C~NlKrVi   81 (172)
T 1wy6_A           18 LLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSY---FDLD----------KCQNLKSVV   81 (172)
T ss_dssp             HHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG---SCGG----------GCSCTHHHH
T ss_pred             HHhhhHHHHHHHHHHHcCC---CCccccceeeeecchhhchhHHHHHHHHHhhh---cCcH----------hhhcHHHHH
Confidence            3468888888888888764   36667888877766666666666666655432   2322          233444444


Q ss_pred             HHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcC
Q 046446           87 ELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENA  166 (244)
Q Consensus        87 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~  166 (244)
                      ..+-.+     ..+.......++.....|..++-.+++..+... .+|++.....+..+|.+.|+..++.+++.+.-+.|
T Consensus        82 ~C~~~~-----n~~se~vd~ALd~lv~~~KkDqLdki~~~~l~n-~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG  155 (172)
T 1wy6_A           82 ECGVIN-----NTLNEHVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKKG  155 (172)
T ss_dssp             HHHHHT-----TCCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHh-----cchHHHHHHHHHHHHHhccHhHHHHHHHHHhcc-CCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhh
Confidence            443332     234455666777888888888888888885443 26778888888889999999999998888888877


Q ss_pred             CC
Q 046446          167 VA  168 (244)
Q Consensus       167 ~~  168 (244)
                      ++
T Consensus       156 ~k  157 (172)
T 1wy6_A          156 EK  157 (172)
T ss_dssp             CH
T ss_pred             hH
Confidence            64

>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=95.33  E-value=0.23  Score=29.88  Aligned_cols=68  Identities=10%  Similarity=0.052  Sum_probs=50.1

Q ss_pred             HHcCC-CHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHH
Q 046446          111 LCKSG-RLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIH  179 (244)
Q Consensus       111 ~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  179 (244)
                      +.+.. +.-+..+-++.+....+.|++....+.+++|.+.+++..|.++|+.++.+ ..+...+|..++.
T Consensus        19 F~~~~iD~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K-~~~~~~iY~~~lq   87 (109)
T 1v54_E           19 FNKPDIDAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQ   87 (109)
T ss_dssp             HTCTTCCHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHH
T ss_pred             cCCcCccHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCchhhHHHHHH
Confidence            33444 45567777888888888889999999999999999999999999887754 2233455766654

>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=95.21  E-value=0.29  Score=37.75  Aligned_cols=75  Identities=8%  Similarity=0.070  Sum_probs=56.1

Q ss_pred             HHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHH-----CCCCCChhhHHHHH
Q 046446          139 YSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKE-----KNVMPDASIVSIVV  213 (244)
Q Consensus       139 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-----~~~~~~~~~~~~l~  213 (244)
                      ...++..+...|+++++...+..+.... +.+...|..++.++.+.|+..+|.+.|+.+..     .|+.|+..+-...-
T Consensus       174 ~~~~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~l~~  252 (388)
T 2ff4_A          174 HTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRALNE  252 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHH
Confidence            3455677778888888888888877643 34777888888999999999999888888653     48888877655443


Q ss_pred             H
Q 046446          214 D  214 (244)
Q Consensus       214 ~  214 (244)
                      .
T Consensus       253 ~  253 (388)
T 2ff4_A          253 R  253 (388)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=95.03  E-value=0.37  Score=30.69  Aligned_cols=61  Identities=15%  Similarity=0.227  Sum_probs=31.0

Q ss_pred             HHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHH
Q 046446          153 DKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVD  214 (244)
Q Consensus       153 ~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  214 (244)
                      -+..+-++.+....+.|++......+.+|.+.+++..|.++++-.+.+ ..+....|..+++
T Consensus        70 wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K-~~~~~~iY~y~lq  130 (152)
T 2y69_E           70 WELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQ  130 (152)
T ss_dssp             HHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHH
T ss_pred             HHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHh-cCCchhhHHHHHH
Confidence            344444444545555555555555555555555555555555555433 1223334444444

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=94.75  E-value=1.2  Score=35.07  Aligned_cols=49  Identities=8%  Similarity=0.036  Sum_probs=30.3

Q ss_pred             CChhHHHHHHHHHHhC-----CCCCChhhHHHHHHHHhhhchHHHHHHHHHHHH
Q 046446           10 KEIEGALNLYSEMLSK-----GIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQ   58 (244)
Q Consensus        10 ~~~~~a~~~~~~~~~~-----~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~   58 (244)
                      |+++.|++.+-.+.+.     +...+......++..|...|+++...+.+.-+.
T Consensus        30 ~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Ls   83 (445)
T 4b4t_P           30 NDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLS   83 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            5677777766555432     233345566677777777787777766555443

>2y69_E Cytochrome C oxidase subunit 5A; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}

Probab=94.54  E-value=0.52  Score=30.05  Aligned_cols=64  Identities=9%  Similarity=0.031  Sum_probs=50.2

Q ss_pred             CHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHH
Q 046446          116 RLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHG  180 (244)
Q Consensus       116 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~  180 (244)
                      +.-+..+-++.+...++.|++....+.+.+|.+.+|+..|.++|+-++.+ ..+...+|..+++-
T Consensus        68 D~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K-~~~~~~iY~y~lqE  131 (152)
T 2y69_E           68 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQE  131 (152)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHh-cCCchhhHHHHHHH
Confidence            44566777788888888999999999999999999999999999988754 33445567766653

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=93.79  E-value=1.6  Score=34.15  Aligned_cols=56  Identities=13%  Similarity=0.042  Sum_probs=31.5

Q ss_pred             hhhhhcCChhHHHHHHHHHHhC--CCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHH
Q 046446            4 NGYCKNKEIEGALNLYSEMLSK--GIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQR   59 (244)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   59 (244)
                      ..|.+.|+++.|.+.|.++...  +...-...+-..++.+...+++..+...+++...
T Consensus       139 ~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~~  196 (429)
T 4b4t_R          139 EYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAVNS  196 (429)
T ss_dssp             HHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            4455666666666666666553  2222334455555666666666666666665543

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=93.58  E-value=3.8  Score=36.52  Aligned_cols=144  Identities=12%  Similarity=-0.017  Sum_probs=92.3

Q ss_pred             HHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccC----Cc---------------
Q 046446           72 FIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRG----VL---------------  132 (244)
Q Consensus        72 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~---------------  132 (244)
                      ++..+...+..+.+.++...     ++.+...--.+..+|...|++++|..+|++.-..    +.               
T Consensus       818 l~~~l~~~~~~~~~~~l~~~-----~~~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~~~~~~~~l~~~~~~~~~~~~~~  892 (1139)
T 4fhn_B          818 LVEKLFLFKQYNACMQLIGW-----LNSDPIAVYLKALIYLKSKEAVKAVRCFKTTSLVLYSHTSQFAVLREFQEIAEKY  892 (1139)
T ss_dssp             HHHHHHHHSCTTHHHHHHHH-----SCCCHHHHHHHHHHHHHTTCHHHHHHHHHTCCCSCTTCCCSCSSHHHHHHHHHTT
T ss_pred             HHHHHHHhhhHHHHHHHhhh-----ccCCcHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccchhhhhhcccccccccc
Confidence            44445555555555443322     2334444445667888999999999999875321    00               


Q ss_pred             ---cccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCc----HhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC
Q 046446          133 ---VADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPN----VITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPD  205 (244)
Q Consensus       133 ---~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  205 (244)
                         ..-..-|..++..+-+.+.++.+.++-....+....-+    ...|..++.++...|++++|...+-.+.....+  
T Consensus       893 ~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~r--  970 (1139)
T 4fhn_B          893 HHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPLK--  970 (1139)
T ss_dssp             TSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSSC--
T ss_pred             cccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHHH--
Confidence               00112366777888888889888888777665322112    125778888899999999999888887765433  


Q ss_pred             hhhHHHHHHHHHhcccc
Q 046446          206 ASIVSIVVDLLAKNEIS  222 (244)
Q Consensus       206 ~~~~~~l~~~~~~~g~~  222 (244)
                      ...+..|+..++..|..
T Consensus       971 ~~cLr~LV~~lce~~~~  987 (1139)
T 4fhn_B          971 KSCLLDFVNQLTKQGKI  987 (1139)
T ss_dssp             HHHHHHHHHHHHHHCCH
T ss_pred             HHHHHHHHHHHHhCCCh
Confidence            45667777777776655

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=93.54  E-value=0.66  Score=30.82  Aligned_cols=115  Identities=10%  Similarity=0.037  Sum_probs=61.2

Q ss_pred             hhhhhhcCChhHHHHHHHHHHhC-CCCCCh-------hhHHHHHHHHhhhchHHHHHHHHHHHHHc--CCCCChhHHHHH
Q 046446            3 INGYCKNKEIEGALNLYSEMLSK-GIKPDV-------VIHNTLFIGLFEIHQVERAFKLFDEMQRD--GVAADTRTYTIF   72 (244)
Q Consensus         3 i~~~~~~~~~~~a~~~~~~~~~~-~~~~~~-------~~~~~li~~~~~~~~~~~a~~~~~~m~~~--~~~~~~~~~~~l   72 (244)
                      +..+...|.++.|+-+.+.+... +..|+.       .++..+..++...+++.+|...|++..+.  .+.-+..+...+
T Consensus        27 ik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~~k~l~k~~s~~~~~  106 (167)
T 3ffl_A           27 VRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQKKALSKTSKVRPST  106 (167)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHCC----------
T ss_pred             HHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHhcCCCccccc
Confidence            34566777888888777775543 112331       24455667777788888888888876432  111111111111


Q ss_pred             HHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccC
Q 046446           73 IDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRG  130 (244)
Q Consensus        73 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  130 (244)
                      . .  . .....         ......+...--.+..+|...+++++|+.+++.+...
T Consensus       107 ~-~--~-ss~p~---------s~~~~~e~Elkykia~C~~~l~~~~~Ai~~Le~Ip~k  151 (167)
T 3ffl_A          107 G-N--S-ASTPQ---------SQCLPSEIEVKYKLAECYTVLKQDKDAIAILDGIPSR  151 (167)
T ss_dssp             -----------------------CCCCHHHHHHHHHHHHHHTTCHHHHHHHHHTSCGG
T ss_pred             c-c--c-CCCcc---------cccccchHHHHHHHHHHHHHHCCHHHHHHHHhcCCch
Confidence            0 0  0 00000         0011233344444778888999999999999887655

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=93.32  E-value=0.00024  Score=55.57  Aligned_cols=118  Identities=13%  Similarity=0.045  Sum_probs=71.3

Q ss_pred             ChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHH
Q 046446           30 DVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLID  109 (244)
Q Consensus        30 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  109 (244)
                      |+..|..+|.+..+.|.+++-+.++.-.++.  .-++..=+.|+-+|++.++..+.++++.       .||..-...+.+
T Consensus        82 Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~--~ke~~IDteLi~ayAk~~rL~elEefl~-------~~N~A~iq~VGD  152 (624)
T 3lvg_A           82 DPSSYMEVVQAANTSGNWEELVKYLQMARKK--ARESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGD  152 (624)
T ss_dssp             CCCSSSHHHHHTTTSSCCTTHHHHHHTTSTT--CCSTTTTHHHHHHHHTSCSSSTTTSTTS-------CCSSSCTHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHH--hcccccHHHHHHHHHhhCcHHHHHHHHc-------CCCcccHHHHHH
Confidence            5667778888888888888888877655544  2244555678888888877655443332       355555566666


Q ss_pred             HHHcCCCHHHHHHHHHhcccCC--------------------ccccHHHHHHHHHHHHccCChHHHH
Q 046446          110 GLCKSGRLEIALELFHSLPRGV--------------------LVADVVTYSIMIHGLYNDGQMDKAH  156 (244)
Q Consensus       110 ~~~~~~~~~~a~~~~~~~~~~~--------------------~~~~~~~~~~li~~~~~~~~~~~a~  156 (244)
                      -|...|.++.|.-+|..+....                    ..-++.||-.+..+|...+.+.-|.
T Consensus       153 rcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~ktWKeV~~ACvd~~EfrLAq  219 (624)
T 3lvg_A          153 RCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTRTWKEVCFACVDGKEFRLAQ  219 (624)
T ss_dssp             HHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSCSHHHHTHHHHHSCTTTTTT
T ss_pred             HHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChhHHHHHHHHHhCchHHHHHH
Confidence            6666666666665555443211                    0124556666666666655554443

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=93.14  E-value=2.5  Score=33.20  Aligned_cols=190  Identities=11%  Similarity=0.096  Sum_probs=117.2

Q ss_pred             hchHHHHHHHHHHHHHc-----CCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHH----HcC
Q 046446           44 IHQVERAFKLFDEMQRD-----GVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGL----CKS  114 (244)
Q Consensus        44 ~~~~~~a~~~~~~m~~~-----~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~----~~~  114 (244)
                      .|+++.|++.+..+.+.     ....+......++..|...++++...+.+.-+.+..-.. ......+++.+    ...
T Consensus        29 ~~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~ql-k~ai~~~V~~~~~~l~~~  107 (445)
T 4b4t_P           29 QNDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQL-KLSIQYMIQKVMEYLKSS  107 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTS-HHHHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhh-HHHHHHHHHHHHHHHhcC
Confidence            47888888887766543     334456778889999999999999988877665432121 22223333333    222


Q ss_pred             CC--HHHHHHHHHhccc--CC-ccc---cHHHHHHHHHHHHccCChHHHHHHHHHHHHc--CCCCc---HhHHHHHHHHH
Q 046446          115 GR--LEIALELFHSLPR--GV-LVA---DVVTYSIMIHGLYNDGQMDKAHDLFLDMEEN--AVAPN---VITFGTLIHGF  181 (244)
Q Consensus       115 ~~--~~~a~~~~~~~~~--~~-~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~--~~~p~---~~~~~~l~~~~  181 (244)
                      ..  .+.-..+.+....  .| +-.   .......|...+...|++.+|..++..+...  |..+.   ...+...++.|
T Consensus       108 ~~~d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~  187 (445)
T 4b4t_P          108 KSLDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELS  187 (445)
T ss_dssp             CTTHHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHH
T ss_pred             CchhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHH
Confidence            32  2222333333221  11 111   2234467788899999999999999987632  22222   34566778889


Q ss_pred             HhcCChhHHHHHHHHHHH----CCCCCC--hhhHHHHHHHHHhccccccchhhhhhhhh
Q 046446          182 IRINEPSKVIELLHKMKE----KNVMPD--ASIVSIVVDLLAKNEISLNSLPSFTVHER  234 (244)
Q Consensus       182 ~~~g~~~~a~~~~~~~~~----~~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  234 (244)
                      ...+++.+|..++..+..    ....|+  ...+...+..+...+++.+|-+.|..+-.
T Consensus       188 l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~~  246 (445)
T 4b4t_P          188 ILKGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIYQ  246 (445)
T ss_dssp             HHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            999999999999888653    222222  23455666677777788777666655543

>2zu6_B Programmed cell death protein 4; protein-protein complex, ATP-binding, helicase, hydrolase, initiation factor, nucleotide-binding; 2.80A {Homo sapiens} PDB: 3eij_A

Probab=92.09  E-value=2.4  Score=31.46  Aligned_cols=80  Identities=9%  Similarity=0.177  Sum_probs=45.9

Q ss_pred             HHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCC--hhHHHHHHHHHHHCCCCCChhhHHHHHHHH
Q 046446          139 YSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINE--PSKVIELLHKMKEKNVMPDASIVSIVVDLL  216 (244)
Q Consensus       139 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~--~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  216 (244)
                      ...++.-|...|+.++|.+.++++..-... ...+...+..++-+.++  .+.+..++..+.+.|+-+.......+.+.+
T Consensus       169 i~~lL~EY~~~~D~~EA~~ci~EL~~p~f~-~e~V~~ai~~alE~~~~~~re~~~~LL~~L~~~~~ls~~q~~~Gf~~vl  247 (307)
T 2zu6_B          169 IDMLLKEYLLSGDISEAEHCLKELEVPHFH-HELVYEAIIMVLESTGESTFKMILDLLKSLWKSSTITVDQMKRGYERIY  247 (307)
T ss_dssp             HHHHHHHHHHHCCHHHHHHHHHHHCCGGGH-HHHHHHHHHHHHTCCSSHHHHHHHHHHHHHHHHCSSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHcCCCcch-HHHHHHHHHHHHccCChHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHH
Confidence            457777888889999999988887631111 12233333344444332  355667777777666655544444444444


Q ss_pred             Hhc
Q 046446          217 AKN  219 (244)
Q Consensus       217 ~~~  219 (244)
                      ...
T Consensus       248 ~~l  250 (307)
T 2zu6_B          248 NEI  250 (307)
T ss_dssp             HHH
T ss_pred             Hhc
Confidence            433

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=92.02  E-value=1.5  Score=34.29  Aligned_cols=97  Identities=7%  Similarity=-0.109  Sum_probs=64.6

Q ss_pred             hhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCC--ChhHHHHHHHHHHhCCcHHHHHHHHHHHHHh---CCCccHHh--H
Q 046446           32 VIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAA--DTRTYTIFIDGLCKNGYIVESVELFRTLRIL---KCELDIQA--Y  104 (244)
Q Consensus        32 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~--~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~--~  104 (244)
                      .++..+...|.+.|+++.|.+.|.++...-..+  -...+-.+++.+...+++..+...+.+....   +..|+...  .
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            356778888889999999999999988753332  3456777888888889999998888887543   21222211  1


Q ss_pred             HHHHHHHHcCCCHHHHHHHHHhcc
Q 046446          105 SCLIDGLCKSGRLEIALELFHSLP  128 (244)
Q Consensus       105 ~~ll~~~~~~~~~~~a~~~~~~~~  128 (244)
                      ..-...+...+++.+|...|-+..
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            111223345678888887776643

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=91.97  E-value=1.8  Score=28.73  Aligned_cols=127  Identities=9%  Similarity=-0.061  Sum_probs=72.1

Q ss_pred             CCCCChh--hHHHHHHHHhhhchHHHHHHHHHHHHHcC-CCCCh-------hHHHHHHHHHHhCCcHHHHHHHHHHHHHh
Q 046446           26 GIKPDVV--IHNTLFIGLFEIHQVERAFKLFDEMQRDG-VAADT-------RTYTIFIDGLCKNGYIVESVELFRTLRIL   95 (244)
Q Consensus        26 ~~~~~~~--~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~~~~~-------~~~~~ll~~~~~~~~~~~a~~~~~~~~~~   95 (244)
                      |+.|...  .+-.-+..+...+.++.|+-+.+-+.... ..|+.       .++..+.+++...+.+..|...|++..+.
T Consensus        13 ~~~~~~~~~~l~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~   92 (167)
T 3ffl_A           13 GLVPRGSHMNVIDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQ   92 (167)
T ss_dssp             --------CCHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CCCCCccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHH
Confidence            4445433  34455777888899999988887754431 22331       36677888999999999999999997543


Q ss_pred             C--CCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHc
Q 046446           96 K--CELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEEN  165 (244)
Q Consensus        96 ~--~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  165 (244)
                      .  +..+..+...+-    .......         ......+...-.-+...|.+.+++++|+.+++.+...
T Consensus        93 ~k~l~k~~s~~~~~~----~~ss~p~---------s~~~~~e~Elkykia~C~~~l~~~~~Ai~~Le~Ip~k  151 (167)
T 3ffl_A           93 KKALSKTSKVRPSTG----NSASTPQ---------SQCLPSEIEVKYKLAECYTVLKQDKDAIAILDGIPSR  151 (167)
T ss_dssp             HHCC---------------------------------CCCCHHHHHHHHHHHHHHTTCHHHHHHHHHTSCGG
T ss_pred             HHHHhcCCCcccccc----ccCCCcc---------cccccchHHHHHHHHHHHHHHCCHHHHHHHHhcCCch
Confidence            2  221221111110    0000000         0111335555566888899999999999999876543

>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=91.97  E-value=3.4  Score=31.87  Aligned_cols=164  Identities=10%  Similarity=-0.080  Sum_probs=83.9

Q ss_pred             hHHHHHHHHhhhchHHHHHHHHHHHHHc-CCCC---ChhHHHHHHHHHHhCC-cHHHHHHHHHHHHHhCCCccHHhH---
Q 046446           33 IHNTLFIGLFEIHQVERAFKLFDEMQRD-GVAA---DTRTYTIFIDGLCKNG-YIVESVELFRTLRILKCELDIQAY---  104 (244)
Q Consensus        33 ~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~~---~~~~~~~ll~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~---  104 (244)
                      ....+...|.+.|+.++..+++...+.- +..|   .......++..+.... ..+.-.++..+..+.. .-...+|   
T Consensus        21 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a-~~~~r~flr~   99 (394)
T 3txn_A           21 GILQQGELYKQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWA-KQEKRTFLRQ   99 (394)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHH-HHTTCHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHH-HHHHHHHHHH
Confidence            3445666677777777777776665432 1111   1234556666665532 3333334443333221 0111222   


Q ss_pred             ---HHHHHHHHcCCCHHHHHHHHHhcccC----C-ccccHHHHHHHHHHHHccCChHHHHHHHHHHHHc--CCCCcHhHH
Q 046446          105 ---SCLIDGLCKSGRLEIALELFHSLPRG----V-LVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEEN--AVAPNVITF  174 (244)
Q Consensus       105 ---~~ll~~~~~~~~~~~a~~~~~~~~~~----~-~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~--~~~p~~~~~  174 (244)
                         ..++..|...|++.+|.+++.++.+.    + -..-...+-.-+..|...+++.++...+......  .+.+++...
T Consensus       100 ~l~~kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~~~~~ai~~~p~i~  179 (394)
T 3txn_A          100 SLEARLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSARTTANAIYCPPKVQ  179 (394)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhhccCCCCHHHH
Confidence               25677777777777777776665431    1 0111334555566777777777777777665421  122333222


Q ss_pred             HHH----HHHHH-hcCChhHHHHHHHHH
Q 046446          175 GTL----IHGFI-RINEPSKVIELLHKM  197 (244)
Q Consensus       175 ~~l----~~~~~-~~g~~~~a~~~~~~~  197 (244)
                      ..+    ...+. ..++|..|...|-+.
T Consensus       180 a~i~~~~Gi~~l~~~rdyk~A~~~F~ea  207 (394)
T 3txn_A          180 GALDLQSGILHAADERDFKTAFSYFYEA  207 (394)
T ss_dssp             HHHHHHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHhccCHHHHHHHHHHH
Confidence            211    12233 567777777666554

>3eiq_C Programmed cell death protein 4; PDCD4, anti-oncogene, apoptosis, cell cycle, nucleus, phosph RNA-binding, ATP-binding, helicase, hydrolase; 3.50A {Mus musculus}

Probab=91.01  E-value=4.1  Score=30.95  Aligned_cols=214  Identities=11%  Similarity=0.050  Sum_probs=103.9

Q ss_pred             hhhhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhc--hHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhC
Q 046446            2 LINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIH--QVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKN   79 (244)
Q Consensus         2 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~--~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~   79 (244)
                      +|.-|...++.++|...++++.....  .......+|......+  .-+.+-.++..+.. ++-+.......+...+...
T Consensus        60 ii~EYf~~~d~~Ea~~~l~eL~~p~~--~~~~v~~~I~~aLdr~~~erE~~s~LLs~L~~-~~ls~~~i~~gf~~lle~l  136 (358)
T 3eiq_C           60 IIQEYFEHGDTNEVAEMLRDLNLGEM--KSGVPVLAVSLALEGKASHREMTSKLLSDLCG-TVMSTNDVEKSFDKLLKDL  136 (358)
T ss_dssp             HHHHHHHHCCHHHHHHHHHTTTCCGG--GGGHHHHHHHHHTTSCHHHHHHHHHHHHTTTT-TSCCHHHHHHHHHHHHHTH
T ss_pred             HHHHHhcCCCHHHHHHHHHHhCCchh--HHHHHHHHHHHHhcCChHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhh
Confidence            57788889999999998888653221  2333344444433333  34556666666663 4444444444444433333


Q ss_pred             Cc----HHHHHHHH----HHHHHhCC-CccHHhHHHHHHHHHcCC--CHHHHHHHHH------hcc-----cCCcccc--
Q 046446           80 GY----IVESVELF----RTLRILKC-ELDIQAYSCLIDGLCKSG--RLEIALELFH------SLP-----RGVLVAD--  135 (244)
Q Consensus        80 ~~----~~~a~~~~----~~~~~~~~-~~~~~~~~~ll~~~~~~~--~~~~a~~~~~------~~~-----~~~~~~~--  135 (244)
                      .+    ...|..++    .++...++ +|... .......-+..|  -.+.|..++.      ++.     ..+..|.  
T Consensus       137 dDl~lDiP~a~~~la~flaRaV~d~~l~~~~l-~~~~~~~~~~~~~~~l~~a~~~L~~~~~~~~~~~~WG~g~~~~~vee  215 (358)
T 3eiq_C          137 PELALDTPRAPQLVGQFIARAVGDGILCNTYI-DSYKGTVDCVQARAALDKATVLLSMSKGGKRKDSVWGSGGGQQPVNH  215 (358)
T ss_dssp             HHHHHHCTTHHHHHHHHHHHHHHTTCSCSSTT-GGGC---CCHHHHHHHHHHHHHHTC---------CCCCCCSSSCHHH
T ss_pred             hhhccccccHHHHHHHHHHHHHHhCCCCHHHH-HHHhhcccchHHHHHHHHHHHHHhccchHHHHHHhcCCCCCCccHHH
Confidence            22    12233333    33333332 22211 100000000000  0122222221      011     1112232  


Q ss_pred             -HHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCC--hhHHHHHHHHHHHCCCCCChhhHHHH
Q 046446          136 -VVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINE--PSKVIELLHKMKEKNVMPDASIVSIV  212 (244)
Q Consensus       136 -~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~--~~~a~~~~~~~~~~~~~~~~~~~~~l  212 (244)
                       ....+.++.=|...++.++|.+.++++..-... ...+...+..++-+.++  .+.+..++..+...|+-+.......+
T Consensus       216 lkkki~~lL~EY~~s~D~~EA~~ci~EL~~p~fh-he~V~~av~~aLE~~~~~~re~~~~LL~~L~~~glls~~q~~~Gf  294 (358)
T 3eiq_C          216 LVKEIDMLLKEYLLSGDISEAEHCLKELEVPHFH-HELVYEAIVMVLESTGESAFKMILDLLKSLWKSSTITIDQMKRGY  294 (358)
T ss_dssp             HHHHHHHHHHHHHHHCCHHHHHHHHHHHCCTTCH-HHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHTTCSCHHHHHHHH
T ss_pred             HHHHHHHHHHHhccCCCHHHHHHHHHHccCCcch-HHHHHHHHHHHHccCchHHHHHHHHHHHHHHHCCCCCHHHHHHHH
Confidence             223577888888899999999999888642111 23334444445544433  35677788888877766555555555


Q ss_pred             HHHHHhcc
Q 046446          213 VDLLAKNE  220 (244)
Q Consensus       213 ~~~~~~~g  220 (244)
                      .+.+....
T Consensus       295 ~~vl~~ld  302 (358)
T 3eiq_C          295 ERIYNEIP  302 (358)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHhcc
Confidence            55444433

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=90.93  E-value=2  Score=27.31  Aligned_cols=68  Identities=16%  Similarity=0.072  Sum_probs=30.6

Q ss_pred             CCChhHHHHHHHHHHhCCc---HHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccC
Q 046446           63 AADTRTYTIFIDGLCKNGY---IVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRG  130 (244)
Q Consensus        63 ~~~~~~~~~ll~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  130 (244)
                      .|+..+--...-++.+..+   ...++.+++.+.+.+.......+--|.-++.+.|++++|.+..+.+.+.
T Consensus        37 ~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~  107 (134)
T 3o48_A           37 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH  107 (134)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT
T ss_pred             CCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhh
Confidence            3444444344444444332   2345555555544431112333333444555555555555555555544

>1k1a_A B-cell lymphoma 3-encoded protein; BCL-3, NF-kappab transcription factors, ikappab proteins; 1.86A {Homo sapiens} SCOP: d.211.1.1 PDB: 1k1b_A

Probab=90.54  E-value=3.2  Score=28.90  Aligned_cols=86  Identities=8%  Similarity=-0.043  Sum_probs=46.2

Q ss_pred             hhhhhhhcCChhHHHHHHHHHHhCCCCCChhh--HHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHH--HHHHHHHH
Q 046446            2 LINGYCKNKEIEGALNLYSEMLSKGIKPDVVI--HNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTY--TIFIDGLC   77 (244)
Q Consensus         2 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~--~~ll~~~~   77 (244)
                      .+...++.|+.+.+..+++.+.+.|..++...  -.+.+...+..|+.+-    ++.+.+.|..++....  .+.+...+
T Consensus        12 ~L~~A~~~g~~~~v~~Ll~~~~~~~~~~~~~~~~g~t~L~~A~~~~~~~~----v~~Ll~~g~~~~~~~~~g~t~l~~A~   87 (241)
T 1k1a_A           12 PLHIAVVQGNLPAVHRLVNLFQQGGRELDIYNNLRQTPLHLAVITTLPSV----VRLLVTAGASPMALDRHGQTAAHLAC   87 (241)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTTCCSCCCCTTSCCHHHHHHHTTCHHH----HHHHHHTTCCTTCCCTTSCCHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCCCCcccccCCCHHHHHHHcCCHHH----HHHHHHcCCCccccCCCCCCHHHHHH
Confidence            45667788888888888877766665544321  1123334445666543    3444555655443211  12333444


Q ss_pred             hCCcHHHHHHHHHH
Q 046446           78 KNGYIVESVELFRT   91 (244)
Q Consensus        78 ~~~~~~~a~~~~~~   91 (244)
                      ..|+.+-+..+++.
T Consensus        88 ~~~~~~~~~~Ll~~  101 (241)
T 1k1a_A           88 EHRSPTCLRALLDS  101 (241)
T ss_dssp             HTTCHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHc
Confidence            56676655555544

>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=90.20  E-value=5.2  Score=30.85  Aligned_cols=161  Identities=10%  Similarity=-0.022  Sum_probs=95.6

Q ss_pred             hhhhhhhcCChhHHHHHHHHHHhC-CCCC---ChhhHHHHHHHHhhh-chHHHHHHHHHHHHHcCCCCChhHH------H
Q 046446            2 LINGYCKNKEIEGALNLYSEMLSK-GIKP---DVVIHNTLFIGLFEI-HQVERAFKLFDEMQRDGVAADTRTY------T   70 (244)
Q Consensus         2 li~~~~~~~~~~~a~~~~~~~~~~-~~~~---~~~~~~~li~~~~~~-~~~~~a~~~~~~m~~~~~~~~~~~~------~   70 (244)
                      |...|.+.|+.++..+++.....- +.-|   .......++..+... +..+.-.++..+..+..- -+..+|      .
T Consensus        25 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a~-~~~r~flr~~l~~  103 (394)
T 3txn_A           25 QGELYKQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWAK-QEKRTFLRQSLEA  103 (394)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHH-HTTCHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHH-HHHHHHHHHHHHH
Confidence            456788889988888888776543 1112   233455677776553 334444444444433210 022233      2


Q ss_pred             HHHHHHHhCCcHHHHHHHHHHHHHhCCC-----ccHHhHHHHHHHHHcCCCHHHHHHHHHhcccC--CccccHHHHH---
Q 046446           71 IFIDGLCKNGYIVESVELFRTLRILKCE-----LDIQAYSCLIDGLCKSGRLEIALELFHSLPRG--VLVADVVTYS---  140 (244)
Q Consensus        71 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~-----~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~---  140 (244)
                      .++..|...|++.+|.+++.++.+.--.     .-...+..-+..|...+++.++...+......  .+.+++..-.   
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            5788889999999999988888764212     12334666677888889988888888765432  1112222211   


Q ss_pred             -HHHHHHH-ccCChHHHHHHHHHHH
Q 046446          141 -IMIHGLY-NDGQMDKAHDLFLDME  163 (244)
Q Consensus       141 -~li~~~~-~~~~~~~a~~~~~~~~  163 (244)
                       .-...+. ..+++..|...|-+..
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             1123345 6788888888776653

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=89.14  E-value=11  Score=32.89  Aligned_cols=90  Identities=19%  Similarity=0.153  Sum_probs=43.6

Q ss_pred             HHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHH--HHHHHHHhcCC
Q 046446          109 DGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFG--TLIHGFIRINE  186 (244)
Q Consensus       109 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~--~l~~~~~~~g~  186 (244)
                      ..+.-.|+.+....++..+.+.. .-+..-.-.+.-++...|+.+.+..+++.+... ..|....-.  .+.-+|+..|+
T Consensus       498 li~vGTgn~~ai~~LL~~~~e~~-~e~vrR~aalgLGll~~g~~e~~~~li~~L~~~-~dp~vRygaa~alglAyaGTGn  575 (963)
T 4ady_A          498 LCMLGTGKPEAIHDMFTYSQETQ-HGNITRGLAVGLALINYGRQELADDLITKMLAS-DESLLRYGGAFTIALAYAGTGN  575 (963)
T ss_dssp             HHHTTCCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTCGGGGHHHHHHHHHC-SCHHHHHHHHHHHHHHTTTSCC
T ss_pred             hhhcccCCHHHHHHHHHHHhccC-cHHHHHHHHHHHHhhhCCChHHHHHHHHHHHhC-CCHHHHHHHHHHHHHHhcCCCC
Confidence            33445566666666666554431 111222222223334567777777777666642 112222111  22234556666


Q ss_pred             hhHHHHHHHHHHHC
Q 046446          187 PSKVIELLHKMKEK  200 (244)
Q Consensus       187 ~~~a~~~~~~~~~~  200 (244)
                      .....+++..+...
T Consensus       576 ~~aIq~LL~~~~~d  589 (963)
T 4ady_A          576 NSAVKRLLHVAVSD  589 (963)
T ss_dssp             HHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHhccC
Confidence            66555566666653

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=88.40  E-value=2.1  Score=31.02  Aligned_cols=54  Identities=22%  Similarity=0.273  Sum_probs=26.9

Q ss_pred             HhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHh
Q 046446           41 LFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRIL   95 (244)
Q Consensus        41 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~   95 (244)
                      ..+.|++++++.....-.+.. +-|...=..++..+|-.|+++.|.+-++...+.
T Consensus         7 ll~~g~L~~al~~~~~~VR~~-P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l   60 (273)
T 1zbp_A            7 ALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKL   60 (273)
T ss_dssp             HTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHhCCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh
Confidence            334455555555555444432 224444445555555555555555555555443

>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=87.92  E-value=3.7  Score=26.13  Aligned_cols=66  Identities=17%  Similarity=0.127  Sum_probs=28.9

Q ss_pred             ccHHhHHHHHHHHHcCCC---HHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHH
Q 046446           99 LDIQAYSCLIDGLCKSGR---LEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEE  164 (244)
Q Consensus        99 ~~~~~~~~ll~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  164 (244)
                      |+..+--.+..++.+..+   ..++..+++.+.+.+..-....+..+.-++.+.|++++|.+..+.+.+
T Consensus        38 vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~  106 (134)
T 3o48_A           38 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  106 (134)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHT
T ss_pred             CChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            444443334444444333   224444554444432111233344444455555555555555555544

>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=87.17  E-value=3.4  Score=24.85  Aligned_cols=47  Identities=15%  Similarity=0.110  Sum_probs=19.5

Q ss_pred             HHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHH
Q 046446          111 LCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDME  163 (244)
Q Consensus       111 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~  163 (244)
                      +...|++++|..+.+..-    .||...|-+|...  +.|-.+++..-+..+.
T Consensus        50 LmNrG~Yq~Al~l~~~~c----~pdlepw~ALce~--rlGl~s~le~rL~~la   96 (116)
T 2p58_C           50 LMNRGDYASALQQGNKLA----YPDLEPWLALCEY--RLGLGSALESRLNRLA   96 (116)
T ss_dssp             HHHTTCHHHHHHHHTTSC----CGGGHHHHHHHHH--HHTCHHHHHHHHHHHT
T ss_pred             HHcchhHHHHHHhcCCCC----CchHHHHHHHHHH--hcccHHHHHHHHHHHH
Confidence            344444444444444333    2444444444332  3334444444443333

>3esl_A Checkpoint serine/threonine-protein kinase BUB1; mitotic spindle checkpoint, TPR motif, all-alpha domain, MAD3-like domain; HET: NHE; 1.74A {Saccharomyces cerevisiae}

Probab=86.76  E-value=5.9  Score=27.25  Aligned_cols=56  Identities=13%  Similarity=-0.135  Sum_probs=34.6

Q ss_pred             CcHHHHHHHHHHHHHhCCC-ccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCcccc
Q 046446           80 GYIVESVELFRTLRILKCE-LDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVAD  135 (244)
Q Consensus        80 ~~~~~a~~~~~~~~~~~~~-~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~  135 (244)
                      +...+...+|..|...|+- --...|......+...|++++|..+|+.-.+.+-.|-
T Consensus        93 ~~~~~p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~GI~~~A~P~  149 (202)
T 3esl_A           93 NNFHESENTFKYMFNKGIGTKLSLFYEEFSKLLENAQFFLEAKVLLELGAENNCRPY  149 (202)
T ss_dssp             TCHHHHHHHHHHHHHHTSSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBSH
T ss_pred             cccCCHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCccH
Confidence            3355666777777666542 2344466666666677777777777776666655553

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=86.34  E-value=0.0089  Score=47.10  Aligned_cols=118  Identities=13%  Similarity=0.161  Sum_probs=65.1

Q ss_pred             cHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHH
Q 046446          100 DIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIH  179 (244)
Q Consensus       100 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  179 (244)
                      .+..|..|..++...++..+|.+.|-+..      |+..|..+|.+..+.|.+++...++...++..-  ++..=+.|+-
T Consensus        53 ~p~VWs~LgkAqL~~~~v~eAIdsyIkA~------Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~k--e~~IDteLi~  124 (624)
T 3lvg_A           53 EPAVWSQLAKAQLQKGMVKEAIDSYIKAD------DPSSYMEVVQAANTSGNWEELVKYLQMARKKAR--ESYVETELIF  124 (624)
T ss_dssp             CCCCSSSHHHHTTTSSSCTTTTTSSCCCS------CCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTCC--STTTTHHHHH
T ss_pred             CccHHHHHHHHHHccCchHHHHHHHHhCC------ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhc--ccccHHHHHH
Confidence            34456666666666666655554332211      344566666666667777766666655554322  3333456666


Q ss_pred             HHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchhhhhhh
Q 046446          180 GFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFTVH  232 (244)
Q Consensus       180 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  232 (244)
                      +|++.++..+.++++.       .||..-...+.+-|...|.++.|.-+|..+
T Consensus       125 ayAk~~rL~elEefl~-------~~N~A~iq~VGDrcf~e~lYeAAKilys~i  170 (624)
T 3lvg_A          125 ALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV  170 (624)
T ss_dssp             HHHTSCSSSTTTSTTS-------CCSSSCTHHHHHHHHHSCCSTTSSTTGGGS
T ss_pred             HHHhhCcHHHHHHHHc-------CCCcccHHHHHHHHHHccCHHHHHHHHHhC
Confidence            6666666554433221       255555556666666666666665555443

>2d2s_A Exocyst complex component EXO84; tethering complex, EXO84P, endocytosis/exocytosis complex; 2.85A {Saccharomyces cerevisiae} SCOP: a.118.17.2

Probab=84.62  E-value=8.7  Score=27.22  Aligned_cols=88  Identities=15%  Similarity=0.124  Sum_probs=45.7

Q ss_pred             hhhhhhcCChhHHHHHHHHHHhC--CCCC----ChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHH
Q 046446            3 INGYCKNKEIEGALNLYSEMLSK--GIKP----DVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGL   76 (244)
Q Consensus         3 i~~~~~~~~~~~a~~~~~~~~~~--~~~~----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~   76 (244)
                      ++.+....++++|.+++++..+.  ++++    ........+..-.....-.-+..+.+.+. .  .++.......+..+
T Consensus        25 LDv~IA~r~feeAv~lle~~~~~l~~~~~~~~~~~~~~~~~l~~ki~eR~~~L~~~L~~~l~-~--~~~~~~~r~~v~~L  101 (235)
T 2d2s_A           25 IDIELARLRFESAVETLLDIESQLEDLSERISDEELMLLNLISLKIEQRREAISSKLSQSIL-S--SNEIVHLKSGTENM  101 (235)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTC-------CHHHHHHHHHHHHHHHHHHHHHHHHHH-T--CSSHHHHHHHHHHH
T ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHhCcccccccchHHHHHHHHHHHHHHHHHHHHHHHHHH-h--cCCHHHHHHHHHHH
Confidence            45566677777777777765542  2222    11222233333333333344444444442 2  34555556666677


Q ss_pred             HhCCcHHHHHHHHHHHH
Q 046446           77 CKNGYIVESVELFRTLR   93 (244)
Q Consensus        77 ~~~~~~~~a~~~~~~~~   93 (244)
                      .+.|+.++|.++|-+..
T Consensus       102 ~rLg~~~~A~~lfL~~r  118 (235)
T 2d2s_A          102 IKLGLPEQALDLFLQNR  118 (235)
T ss_dssp             HHTTCHHHHHHHHHHHH
T ss_pred             HHCCChhHHHHHHHHHH
Confidence            77777777777665543

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=84.20  E-value=5  Score=24.11  Aligned_cols=50  Identities=12%  Similarity=0.054  Sum_probs=24.2

Q ss_pred             HHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCC
Q 046446           76 LCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGV  131 (244)
Q Consensus        76 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  131 (244)
                      +...|++++|..+.+...    .||...|.+|..  .+.|..+++..-+.++...|
T Consensus        49 LmNrG~Yq~Al~l~~~~c----~pdlepw~ALce--~rlGl~s~le~rL~~la~sg   98 (115)
T 2uwj_G           49 LANQGRYQEALAFAHGNP----WPALEPWFALCE--WHLGLGAALDRRLAGLGGSS   98 (115)
T ss_dssp             HHHTTCHHHHHGGGTTCC----CGGGHHHHHHHH--HHTTCHHHHHHHHHHHHTCS
T ss_pred             HHcchhHHHHHHhcCCCC----CchHHHHHHHHH--HhcccHHHHHHHHHHHHhCC
Confidence            344555555555444322    455555544432  34455555555554554444

>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=83.57  E-value=5.4  Score=24.01  Aligned_cols=83  Identities=14%  Similarity=0.151  Sum_probs=43.8

Q ss_pred             hHHHHHHHHHHHHHcCCCCChhHHHHH--HHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHH
Q 046446           46 QVERAFKLFDEMQRDGVAADTRTYTIF--IDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALEL  123 (244)
Q Consensus        46 ~~~~a~~~~~~m~~~~~~~~~~~~~~l--l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~  123 (244)
                      .-++|..+-+-+...+.    .-...+  +..+...|++++|..+.+...    .||...|.+|..  .+.|..+++..-
T Consensus        22 ~HqEA~tIAdwL~~~~~----~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c----~pdlepw~ALce--~rlGl~s~le~r   91 (116)
T 2p58_C           22 YHEEANCIAEWLHLKGE----EEAVQLIRLSSLMNRGDYASALQQGNKLA----YPDLEPWLALCE--YRLGLGSALESR   91 (116)
T ss_dssp             CHHHHHHHHHHHHHTTC----HHHHHHHHHHHHHHTTCHHHHHHHHTTSC----CGGGHHHHHHHH--HHHTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCc----HHHHHHHHHHHHHcchhHHHHHHhcCCCC----CchHHHHHHHHH--HhcccHHHHHHH
Confidence            45566555555554432    222222  233455677777766655432    466666655543  345666666666


Q ss_pred             HHhcccCCccccHHHH
Q 046446          124 FHSLPRGVLVADVVTY  139 (244)
Q Consensus       124 ~~~~~~~~~~~~~~~~  139 (244)
                      +.++...| .|....|
T Consensus        92 L~~la~sg-~p~~q~F  106 (116)
T 2p58_C           92 LNRLARSQ-DPRIQTF  106 (116)
T ss_dssp             HHHHTTCC-CHHHHHH
T ss_pred             HHHHHhCC-CHHHHHH
Confidence            65665555 3444444

>3hra_A Ankyrin repeat family protein; structural protein; 1.69A {Enterococcus faecalis}

Probab=83.48  E-value=6.5  Score=26.37  Aligned_cols=16  Identities=0%  Similarity=0.057  Sum_probs=8.5

Q ss_pred             hhhhhcCChhHHHHHH
Q 046446            4 NGYCKNKEIEGALNLY   19 (244)
Q Consensus         4 ~~~~~~~~~~~a~~~~   19 (244)
                      ...+..|+.+.+..++
T Consensus        10 ~~A~~~g~~~~v~~ll   25 (201)
T 3hra_A           10 LEAANQRDTKKVKEIL   25 (201)
T ss_dssp             HHHHHTTCHHHHHHHH
T ss_pred             HHHHHhccHHHHHHHH
Confidence            3445556655555554

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=83.18  E-value=12  Score=27.79  Aligned_cols=121  Identities=8%  Similarity=-0.005  Sum_probs=69.8

Q ss_pred             hhhhcCChhHHHHHHHHHHhCCC---CCC--hhhHHHHHHHHhhhchHHHHHHH----HHHHHHcCCCCChhHHHHHHHH
Q 046446            5 GYCKNKEIEGALNLYSEMLSKGI---KPD--VVIHNTLFIGLFEIHQVERAFKL----FDEMQRDGVAADTRTYTIFIDG   75 (244)
Q Consensus         5 ~~~~~~~~~~a~~~~~~~~~~~~---~~~--~~~~~~li~~~~~~~~~~~a~~~----~~~m~~~~~~~~~~~~~~ll~~   75 (244)
                      .....|++=+|.+.++....+-+   +.+  ......-...+.+.|+...|-++    .+...+.+.+++......++..
T Consensus        22 ~~I~~G~yYEAhQ~~Rtl~~Ry~~~~~~~eAidlL~~ga~~ll~~~Q~~sa~DLa~llvev~~~~~~~~~~~~~~rl~~l  101 (312)
T 2wpv_A           22 NKIKAGDYYEAHQTLRTIANRYVRSKSYEHAIELISQGALSFLKAKQGGSGTDLIFYLLEVYDLAEVKVDDISVARLVRL  101 (312)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCCSHHHHHHHHHH
T ss_pred             HHhhccChHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Confidence            34556777777776665443200   111  11122222334456666555554    4555667888888888888888


Q ss_pred             HHhCCcHH-HHHHHHHHHH----HhC--CCccHHhHHHHHHHHHcCCCHHHHHHHHH
Q 046446           76 LCKNGYIV-ESVELFRTLR----ILK--CELDIQAYSCLIDGLCKSGRLEIALELFH  125 (244)
Q Consensus        76 ~~~~~~~~-~a~~~~~~~~----~~~--~~~~~~~~~~ll~~~~~~~~~~~a~~~~~  125 (244)
                      +.....-+ .-.++++++.    +.|  ..-++..+..+...|.+.|++.+|+..|-
T Consensus       102 ~~~~p~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~~~~A~~H~i  158 (312)
T 2wpv_A          102 IAELDPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAERYFM  158 (312)
T ss_dssp             HTTCCTTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHCCCCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHH
Confidence            76643211 1233333333    332  12467788888899999999988887663

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=82.80  E-value=24  Score=30.85  Aligned_cols=85  Identities=12%  Similarity=0.046  Sum_probs=35.9

Q ss_pred             HhhhchHHHHHHHHHHHHHcCCCCChhHHHHHH--HHHHhCCcHHHHHHHHHHHHHhCCCccHHhHH--HHHHHHHcCCC
Q 046446           41 LFEIHQVERAFKLFDEMQRDGVAADTRTYTIFI--DGLCKNGYIVESVELFRTLRILKCELDIQAYS--CLIDGLCKSGR  116 (244)
Q Consensus        41 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll--~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~ll~~~~~~~~  116 (244)
                      +...|+-+....++..+.+..   +..+...+.  -++...|+.+.+..+++.+.... .|....-.  ++.-+|+..|+
T Consensus       500 ~vGTgn~~ai~~LL~~~~e~~---~e~vrR~aalgLGll~~g~~e~~~~li~~L~~~~-dp~vRygaa~alglAyaGTGn  575 (963)
T 4ady_A          500 MLGTGKPEAIHDMFTYSQETQ---HGNITRGLAVGLALINYGRQELADDLITKMLASD-ESLLRYGGAFTIALAYAGTGN  575 (963)
T ss_dssp             HTTCCCHHHHHHHHHHHHHCS---CHHHHHHHHHHHHHHTTTCGGGGHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTSCC
T ss_pred             hcccCCHHHHHHHHHHHhccC---cHHHHHHHHHHHHhhhCCChHHHHHHHHHHHhCC-CHHHHHHHHHHHHHHhcCCCC
Confidence            334455555555555544321   222222222  22334555555555555554421 12221111  22334455555


Q ss_pred             HHHHHHHHHhccc
Q 046446          117 LEIALELFHSLPR  129 (244)
Q Consensus       117 ~~~a~~~~~~~~~  129 (244)
                      .....++++.+..
T Consensus       576 ~~aIq~LL~~~~~  588 (963)
T 4ady_A          576 NSAVKRLLHVAVS  588 (963)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcc
Confidence            5554445555543

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=82.69  E-value=7.6  Score=25.07  Aligned_cols=67  Identities=16%  Similarity=0.070  Sum_probs=28.1

Q ss_pred             CChhHHHHHHHHHHhCCc---HHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccC
Q 046446           64 ADTRTYTIFIDGLCKNGY---IVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRG  130 (244)
Q Consensus        64 ~~~~~~~~ll~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  130 (244)
                      |+..+-....-++.+...   ..+++.+++.+.+.+........-.|.-++.+.|++++|.+..+.+.+.
T Consensus        37 vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~  106 (144)
T 1y8m_A           37 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH  106 (144)
T ss_dssp             SCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHT
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhc
Confidence            444444444444444332   2334445554444331112222223334445555555555555554443

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=82.23  E-value=7.9  Score=24.98  Aligned_cols=66  Identities=17%  Similarity=0.150  Sum_probs=30.5

Q ss_pred             ccHHhHHHHHHHHHcCCCH---HHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHH
Q 046446           99 LDIQAYSCLIDGLCKSGRL---EIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEE  164 (244)
Q Consensus        99 ~~~~~~~~ll~~~~~~~~~---~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  164 (244)
                      |+..+--.+..++.+..+.   .++..+++.+...+..-.......|.-++.+.|++++|.++.+.+.+
T Consensus        37 vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~  105 (144)
T 1y8m_A           37 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  105 (144)
T ss_dssp             SCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            4444444444444444432   34555555544432111233333444455555555555555555554

>2fe3_A Peroxide operon regulator; oxidative stress regulator, DNA binding protein; 1.75A {Bacillus subtilis} PDB: 3f8n_A 2rgv_A*

Probab=81.85  E-value=8.1  Score=24.87  Aligned_cols=61  Identities=7%  Similarity=0.050  Sum_probs=35.5

Q ss_pred             HHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcccc
Q 046446          161 DMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEIS  222 (244)
Q Consensus       161 ~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  222 (244)
                      .+.+.|.+++.. -..++..+...+..-.|.++++.+.+.+...+..|...-++.+.+.|..
T Consensus        12 ~l~~~g~r~T~q-R~~Il~~L~~~~~~~sa~ei~~~l~~~~~~is~aTVYR~L~~L~e~Glv   72 (145)
T 2fe3_A           12 TLKETGVRITPQ-RHAILEYLVNSMAHPTADDIYKALEGKFPNMSVATVYNNLRVFRESGLV   72 (145)
T ss_dssp             HHHHTTCCCCHH-HHHHHHHHHHCSSCCCHHHHHHHHGGGCTTCCHHHHHHHHHHHHHTTSE
T ss_pred             HHHHcCCCCCHH-HHHHHHHHHhCCCCCCHHHHHHHHHHhCCCCChhhHHHHHHHHHHCCCE
Confidence            345566655443 2333444444555566777777776666555666666666666666655

>3jxi_A Vanilloid receptor-related osmotically activated protein; ankyrin repeats, ANK repeat, ION transport, ionic channel, R transmembrane, transport; 2.30A {Gallus gallus} PDB: 3jxj_A 4dx1_A 4dx2_A*

Probab=81.85  E-value=2.1  Score=30.38  Aligned_cols=55  Identities=15%  Similarity=0.052  Sum_probs=33.8

Q ss_pred             hhhhhhcCChhHHHHHHHHHHhCCCCCChhh-------HHHHHHHHh--hhchHHHHHHHHHHH
Q 046446            3 INGYCKNKEIEGALNLYSEMLSKGIKPDVVI-------HNTLFIGLF--EIHQVERAFKLFDEM   57 (244)
Q Consensus         3 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-------~~~li~~~~--~~~~~~~a~~~~~~m   57 (244)
                      +...++.|+.+....+++.+.+.|..++...       .+.|..+..  +.|+.+-+..+++.-
T Consensus         9 L~~A~~~g~~~~v~~ll~~l~~~~~~~~~~~~~~~~~g~t~L~~A~~~~~~g~~~~v~~Ll~~g   72 (260)
T 3jxi_A            9 LFDIVSRGSPDGLEGLLSFLLTHKKRLTDEEFREPSTGKTCLPKALLNLSAGRNDTIPILLDIA   72 (260)
T ss_dssp             HHHHHHHTCGGGGTTHHHHHHHHTCCTTSGGGSCTTTCCCHHHHHHTSCBTTBCTHHHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHhcCCCcchhhhhccCCCCcHHHHHHHHhhcCCHHHHHHHHHhc
Confidence            4556778888888888887777665555332       234444432  457766666666543

>1mzb_A Ferric uptake regulation protein; ferric uptake regulator, iron, DTXR, gene regulation; 1.80A {Pseudomonas aeruginosa} SCOP: a.4.5.42

Probab=81.11  E-value=8.3  Score=24.49  Aligned_cols=59  Identities=5%  Similarity=-0.004  Sum_probs=27.1

Q ss_pred             HHcCCCCcHhHHHHHHHHHHhcC-ChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcccc
Q 046446          163 EENAVAPNVITFGTLIHGFIRIN-EPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEIS  222 (244)
Q Consensus       163 ~~~~~~p~~~~~~~l~~~~~~~g-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  222 (244)
                      .+.|.+++.. -..++..+...+ ..-.|.++++.+.+.+...+..|...-++.+.+.|-.
T Consensus        10 ~~~g~r~T~q-R~~Il~~L~~~~~~~~sa~ei~~~l~~~~~~is~aTVYR~L~~L~e~Glv   69 (136)
T 1mzb_A           10 RKAGLKVTLP-RVKILQMLDSAEQRHMSAEDVYKALMEAGEDVGLATVYRVLTQFEAAGLV   69 (136)
T ss_dssp             HHTTCCCCHH-HHHHHHHHHCC-CCSBCHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTSE
T ss_pred             HHCCCCCCHH-HHHHHHHHHhCCCCCCCHHHHHHHHHhhCCCCCHHHHHHHHHHHHHCCcE
Confidence            3444444332 222333333333 4445555555555554444555555555555555544

>2d2s_A Exocyst complex component EXO84; tethering complex, EXO84P, endocytosis/exocytosis complex; 2.85A {Saccharomyces cerevisiae} SCOP: a.118.17.2

Probab=81.10  E-value=12  Score=26.44  Aligned_cols=88  Identities=15%  Similarity=0.065  Sum_probs=54.9

Q ss_pred             HHHHHhhhchHHHHHHHHHHHHHc--CCCC----ChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHH
Q 046446           37 LFIGLFEIHQVERAFKLFDEMQRD--GVAA----DTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDG  110 (244)
Q Consensus        37 li~~~~~~~~~~~a~~~~~~m~~~--~~~~----~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~  110 (244)
                      -++.+....++++|.+++++..+.  +.++    +.......++.-.....-.-+..+.+++..   .++.......+..
T Consensus        24 eLDv~IA~r~feeAv~lle~~~~~l~~~~~~~~~~~~~~~~~l~~ki~eR~~~L~~~L~~~l~~---~~~~~~~r~~v~~  100 (235)
T 2d2s_A           24 EIDIELARLRFESAVETLLDIESQLEDLSERISDEELMLLNLISLKIEQRREAISSKLSQSILS---SNEIVHLKSGTEN  100 (235)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTC-------CHHHHHHHHHHHHHHHHHHHHHHHHHHT---CSSHHHHHHHHHH
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHhCcccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHh---cCCHHHHHHHHHH
Confidence            356788889999999999887653  2332    112223333433333333444455555533   4556667777889


Q ss_pred             HHcCCCHHHHHHHHHhc
Q 046446          111 LCKSGRLEIALELFHSL  127 (244)
Q Consensus       111 ~~~~~~~~~a~~~~~~~  127 (244)
                      +.+.|+.++|..+|=+.
T Consensus       101 L~rLg~~~~A~~lfL~~  117 (235)
T 2d2s_A          101 MIKLGLPEQALDLFLQN  117 (235)
T ss_dssp             HHHTTCHHHHHHHHHHH
T ss_pred             HHHCCChhHHHHHHHHH
Confidence            99999999999888543

>2w57_A Ferric uptake regulation protein; gene regulation, transcription regulation, transport, iron, repressor, DNA-binding, transcription; 2.60A {Vibrio cholerae}

Probab=80.77  E-value=8.8  Score=24.90  Aligned_cols=61  Identities=10%  Similarity=0.064  Sum_probs=34.3

Q ss_pred             HHHcCCCCcHhHHHHHHHHHHhcC-ChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccc
Q 046446          162 MEENAVAPNVITFGTLIHGFIRIN-EPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISL  223 (244)
Q Consensus       162 ~~~~~~~p~~~~~~~l~~~~~~~g-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  223 (244)
                      +.+.|.+++.. -..++..+...+ ..-.|.++++.+.+.+...+..|...-++.+.+.|...
T Consensus         8 l~~~g~r~T~q-R~~Il~~L~~~~~~h~sa~ei~~~l~~~~~~is~aTVYR~L~~L~e~Glv~   69 (150)
T 2w57_A            8 LKDAGLKVTLP-RLKILEVLQQPECQHISAEELYKKLIDLGEEIGLATVYRVLNQFDDAGIVT   69 (150)
T ss_dssp             HHHTTCCCCHH-HHHHHHHHTSGGGSSEEHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTSEE
T ss_pred             HHHcCCCCCHH-HHHHHHHHHhCCCCCCCHHHHHHHHHHhCCCCCHHHHHHHHHHHHHCCcEE
Confidence            44556555443 223344444444 45566677777666655556666666666666666553

>3eyy_A Putative iron uptake regulatory protein; NUR, nickel-uptake regulator, D-domain, dimerization domain, DB-domain, DNA-binding domain; 2.40A {Streptomyces coelicolor}

Probab=80.11  E-value=7.4  Score=25.10  Aligned_cols=59  Identities=8%  Similarity=0.082  Sum_probs=30.9

Q ss_pred             HHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcccc
Q 046446          162 MEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEIS  222 (244)
Q Consensus       162 ~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  222 (244)
                      +.+.|.+++.. -..++..+...+ .-.|.++++.+.+.+...+..|...-++.+.+.|-.
T Consensus        10 L~~~g~r~T~q-R~~Il~~l~~~~-h~ta~ei~~~l~~~~~~is~~TVYR~L~~L~e~Glv   68 (145)
T 3eyy_A           10 LRQRGYRLTPQ-RQLVLEAVDTLE-HATPDDILGEVRKTASGINISTVYRTLELLEELGLV   68 (145)
T ss_dssp             HHTTTCCCCHH-HHHHHHHHHHHS-SBCHHHHHHHHHTTCTTCCHHHHHHHHHHHHHHTSE
T ss_pred             HHHcCCCcCHH-HHHHHHHHHhcC-CCCHHHHHHHHHhhCCCCCHhHHHHHHHHHHHCCcE
Confidence            44455554443 222333333444 455666666666655555555555566666665554

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	244
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.75
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.74
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.71
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.57
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.5
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.48
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.41
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.39
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.38
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.23
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.16
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	99.1
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.09
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	99.08
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	99.06
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.96
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.94
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.94
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.91
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.9
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.89
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.82
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.77
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	98.74
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.74
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.71
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.7
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.69
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.56
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.53
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.46
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.41
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.4
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.39
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.37
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.36
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.33
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.33
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	98.3
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.27
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.25
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.25
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.24
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.14
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	98.11
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.1
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.01
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.98
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.89
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.77
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.76
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.7
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	97.69
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.56
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	97.11
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	97.01
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	96.11
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	95.57
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	95.01
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	94.8
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	93.75
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	91.88
d1mzba_	134	Ferric uptake regulation protein, FUR {Pseudomonas	84.78
d2nsza1	129	Programmed cell death 4, PDCD4 {Mouse (Mus musculu	82.38

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.75  E-value=7.7e-16  Score=116.63  Aligned_cols=223  Identities=13%  Similarity=0.033  Sum_probs=149.4

Q ss_pred             hhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHH
Q 046446            6 YCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVES   85 (244)
Q Consensus         6 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   85 (244)
                      ....+....+...+....... +.+...+..+...+...|+++.|...+++..+.. +-+..++..+...+...|++++|
T Consensus       145 ~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A  222 (388)
T d1w3ba_         145 LKALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRA  222 (388)
T ss_dssp             HHTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHH
T ss_pred             ccccchhhhhHHHHHHhhccC-cchhHHHHhhcccccccCcHHHHHHHHHHHHHhC-cccHHHHHHHhhhhhccccHHHH
Confidence            344555566666666655542 3345566666677777777777777777776652 22456677777777777777777


Q ss_pred             HHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHc
Q 046446           86 VELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEEN  165 (244)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  165 (244)
                      ...+++....+ +.+...+..+...+.+.|++++|...|++..+.. +-+..++..+...+...|++++|.+.++.....
T Consensus       223 ~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  300 (388)
T d1w3ba_         223 VAAYLRALSLS-PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRL  300 (388)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhHHHh-hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhcc
Confidence            77777776665 3556666777777777777777777777766553 334667777777777777777777777776654


Q ss_pred             CCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchhhhhhhhh
Q 046446          166 AVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFTVHER  234 (244)
Q Consensus       166 ~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  234 (244)
                      . +.+...+..+...+...|++++|...+++..+.. +-+..++..+..+|.+.|++++|+..|+...+
T Consensus       301 ~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  367 (388)
T d1w3ba_         301 C-PTHADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIR  367 (388)
T ss_dssp             C-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHT
T ss_pred             C-CccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            2 3456666677777777777777777777766543 12455666777777777777777777766544

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.74  E-value=1e-15  Score=113.90  Aligned_cols=227  Identities=11%  Similarity=-0.007  Sum_probs=179.0

Q ss_pred             hhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHH
Q 046446            5 GYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVE   84 (244)
Q Consensus         5 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~   84 (244)
                      .+.+.|++++|+..|+++.+.. +-+...|..+..++...|++++|...|.+..+... -+...+..+...|...|++++
T Consensus        28 ~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~~~~~~  105 (323)
T d1fcha_          28 RRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELKP-DNQTALMALAVSFTNESLQRQ  105 (323)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhcccc-ccccccccccccccccccccc
Confidence            5788999999999999999873 34577899999999999999999999999988643 367788899999999999999


Q ss_pred             HHHHHHHHHHhCCCc--------------cHHhHHHHHHHHHcCCCHHHHHHHHHhcccCC-ccccHHHHHHHHHHHHcc
Q 046446           85 SVELFRTLRILKCEL--------------DIQAYSCLIDGLCKSGRLEIALELFHSLPRGV-LVADVVTYSIMIHGLYND  149 (244)
Q Consensus        85 a~~~~~~~~~~~~~~--------------~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~li~~~~~~  149 (244)
                      |.+.+++........              +.......+..+...+.+.+|...+.+..... -.++...+..+...+...
T Consensus       106 A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~~~~  185 (323)
T d1fcha_         106 ACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLS  185 (323)
T ss_dssp             HHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHT
T ss_pred             cccchhhHHHhccchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHH
Confidence            999999987643110              00111112233444566788888888765432 234577888899999999


Q ss_pred             CChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchhhh
Q 046446          150 GQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSF  229 (244)
Q Consensus       150 ~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  229 (244)
                      |++++|...++....... -+...|..+..++...|++++|.+.+++..+.. +-+...+..+..+|.+.|++++|+..|
T Consensus       186 ~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~  263 (323)
T d1fcha_         186 GEYDKAVDCFTAALSVRP-NDYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHREAVEHF  263 (323)
T ss_dssp             TCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHhhhhccccccccccc-ccccchhhhhhcccccccchhHHHHHHHHHHHh-hccHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            999999999999887542 357788889999999999999999999988753 225677888999999999999999999


Q ss_pred             hhhhhh
Q 046446          230 TVHERQ  235 (244)
Q Consensus       230 ~~~~~~  235 (244)
                      +...+.
T Consensus       264 ~~al~l  269 (323)
T d1fcha_         264 LEALNM  269 (323)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            876653

>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=99.71  E-value=1.2e-14  Score=109.97  Aligned_cols=212  Identities=13%  Similarity=0.037  Sum_probs=181.5

Q ss_pred             hhhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcH
Q 046446            3 INGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYI   82 (244)
Q Consensus         3 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~   82 (244)
                      ...+...|+++.|...++...+.. +-+...|..+...+...|++++|...+++....+ +.+...+..+...+.+.|++
T Consensus       176 ~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~  253 (388)
T d1w3ba_         176 GCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHGNLACVYYEQGLI  253 (388)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             cccccccCcHHHHHHHHHHHHHhC-cccHHHHHHHhhhhhccccHHHHHHHHHHhHHHh-hhHHHHHHHHHHHHHHCCCH
Confidence            345677899999999999988763 3456688899999999999999999999998874 34677888899999999999


Q ss_pred             HHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHH
Q 046446           83 VESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDM  162 (244)
Q Consensus        83 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  162 (244)
                      ++|.+.|++..+.. +.+..++..+...+...|++++|...++...... +.+...+..+...+...|++++|...|++.
T Consensus       254 ~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a  331 (388)
T d1w3ba_         254 DLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRKA  331 (388)
T ss_dssp             HHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccC-CccchhhhHHHHHHHHCCCHHHHHHHHHHH
Confidence            99999999998875 5678889999999999999999999999887664 567888999999999999999999999998


Q ss_pred             HHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCC-ChhhHHHHHHHHHhccc
Q 046446          163 EENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMP-DASIVSIVVDLLAKNEI  221 (244)
Q Consensus       163 ~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~  221 (244)
                      .+.. +-+..++..+..++...|++++|...|++..+.  .| +...+..+..+|.+.|+
T Consensus       332 l~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l--~P~~~~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         332 LEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI--SPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             TTSC-TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTT--CTTCHHHHHHHHHHHHHTCC
T ss_pred             HHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCC
Confidence            8753 225677888999999999999999999998875  45 46788889888887764

>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=99.57  E-value=1.4e-12  Score=96.69  Aligned_cols=219  Identities=15%  Similarity=0.040  Sum_probs=164.9

Q ss_pred             hhhhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChh--------------
Q 046446            2 LINGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTR--------------   67 (244)
Q Consensus         2 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~--------------   67 (244)
                      +..++...|++++|...|++..+.. +-+...|..+...+...|++++|.+.+++.....  |+..              
T Consensus        59 lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~  135 (323)
T d1fcha_          59 LGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNESLQRQACEILRDWLRYT--PAYAHLVTPAEEGAGGAG  135 (323)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS--TTTGGGCC----------
T ss_pred             HHHHHHHcCChHHHHHHHHhhhccc-cccccccccccccccccccccccccchhhHHHhc--cchHHHHHhhhhhhhhcc
Confidence            3467889999999999999998863 3456788889999999999999999999987752  2211              


Q ss_pred             --HHHHHHHHHHhCCcHHHHHHHHHHHHHhCC-CccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHH
Q 046446           68 --TYTIFIDGLCKNGYIVESVELFRTLRILKC-ELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIH  144 (244)
Q Consensus        68 --~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  144 (244)
                        .....+..+...+...++.+.+.+..+... ..+..++..+...+...|++++|...|++..... +-+...|..+..
T Consensus       136 ~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~  214 (323)
T d1fcha_         136 LGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGA  214 (323)
T ss_dssp             -----CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHhhhhcccccccccc-cccccchhhhhh
Confidence              111122233445677888888888776542 3456788889999999999999999999987654 345888999999


Q ss_pred             HHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHC---C-------CCCChhhHHHHHH
Q 046446          145 GLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEK---N-------VMPDASIVSIVVD  214 (244)
Q Consensus       145 ~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~-------~~~~~~~~~~l~~  214 (244)
                      .+...|++++|.+.|+...+... -+..+|..+..+|.+.|++++|...|++..+.   .       .......+..+-.
T Consensus       215 ~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~l~~  293 (323)
T d1fcha_         215 TLANGNQSEEAVAAYRRALELQP-GYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRL  293 (323)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHH
T ss_pred             cccccccchhHHHHHHHHHHHhh-ccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcChhhhhhhHHHHHHHHHHHHH
Confidence            99999999999999999887532 25778889999999999999999999998752   1       1112234555556


Q ss_pred             HHHhccccccc
Q 046446          215 LLAKNEISLNS  225 (244)
Q Consensus       215 ~~~~~g~~~~a  225 (244)
                      ++...|+.+.+
T Consensus       294 al~~~~~~d~~  304 (323)
T d1fcha_         294 ALSMLGQSDAY  304 (323)
T ss_dssp             HHHHHTCGGGH
T ss_pred             HHHHcCCHHHH
Confidence            66666655433

>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=99.50  E-value=2.3e-11  Score=89.54  Aligned_cols=221  Identities=10%  Similarity=-0.015  Sum_probs=168.5

Q ss_pred             hhHHHHHHHHHHhCCCCCChhhHHHHHHHHhh--------------hchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHH
Q 046446           12 IEGALNLYSEMLSKGIKPDVVIHNTLFIGLFE--------------IHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLC   77 (244)
Q Consensus        12 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~--------------~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~   77 (244)
                      .+++..+|+++...- +.++..|...+..+..              .+..++|..+|++..+...+.+...|...+....
T Consensus        32 ~~Rv~~vyerAl~~~-~~~~~lW~~y~~~~~~~~~~~~~~~~~~~~~~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~  110 (308)
T d2onda1          32 TKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEE  110 (308)
T ss_dssp             HHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCchHHHHHHHhhcccchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHH
Confidence            466888898887752 4455666665554432              2456889999999887645556677888888899


Q ss_pred             hCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHH-HHccCChHHHH
Q 046446           78 KNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHG-LYNDGQMDKAH  156 (244)
Q Consensus        78 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~-~~~~~~~~~a~  156 (244)
                      +.|+++.|..+|+++.+........+|...+..+.+.|+.+.|..+|+++.+.+ +.+...|...... +...|+.+.|.
T Consensus       111 ~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~-~~~~~~~~~~a~~e~~~~~~~~~a~  189 (308)
T d2onda1         111 SRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAF  189 (308)
T ss_dssp             HTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-TCCTHHHHHHHHHHHHTSCCHHHHH
T ss_pred             hcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhccCHHHHH
Confidence            999999999999999876533335578999999999999999999999988765 3344555444433 34568999999


Q ss_pred             HHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCC-CCCC--hhhHHHHHHHHHhccccccchhhhhhhh
Q 046446          157 DLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKN-VMPD--ASIVSIVVDLLAKNEISLNSLPSFTVHE  233 (244)
Q Consensus       157 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~  233 (244)
                      .+|+.+.+. .+.+...|...+......|+++.|..+|++..... ..|.  ...|...+..-...|+.+.+..+++.+.
T Consensus       190 ~i~e~~l~~-~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~  268 (308)
T d2onda1         190 KIFELGLKK-YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRF  268 (308)
T ss_dssp             HHHHHHHHH-HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHh-hhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            999998875 33467889999999999999999999999988764 3443  3467777887788899999988887665


Q ss_pred             hh
Q 046446          234 RQ  235 (244)
Q Consensus       234 ~~  235 (244)
                      +.
T Consensus       269 ~~  270 (308)
T d2onda1         269 TA  270 (308)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>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=99.48  E-value=1.2e-11  Score=91.29  Aligned_cols=220  Identities=10%  Similarity=0.045  Sum_probs=169.2

Q ss_pred             hhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhc-hHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHH
Q 046446            5 GYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIH-QVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIV   83 (244)
Q Consensus         5 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~-~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   83 (244)
                      .+.+.+.+++|+.+++.+++.. +-+...|+....++...| ++++|+..++...+.... +..+|..+...+.+.|+++
T Consensus        52 ~~~~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~-~~~a~~~~~~~~~~l~~~~  129 (315)
T d2h6fa1          52 VLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPK-NYQVWHHRRVLVEWLRDPS  129 (315)
T ss_dssp             HHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCT
T ss_pred             HHHhCCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHh-hhhHHHHHhHHHHhhccHH
Confidence            4667889999999999999973 345567888888887766 599999999999887433 7889999999999999999


Q ss_pred             HHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCC------hHHHHH
Q 046446           84 ESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQ------MDKAHD  157 (244)
Q Consensus        84 ~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~------~~~a~~  157 (244)
                      +|++.++++.+.. +.+..+|..+...+...|++++|+..++.+.+.+ +-+...|+.+...+.+.+.      +++|.+
T Consensus       130 eAl~~~~kal~~d-p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~-p~n~~a~~~r~~~l~~~~~~~~~~~~~~ai~  207 (315)
T d2h6fa1         130 QELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYNDRAVLEREVQ  207 (315)
T ss_dssp             THHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSCSHHHHHHHHH
T ss_pred             HHHHHHhhhhhhh-hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHC-CccHHHHHHHHHHHHHccccchhhhhHHhHH
Confidence            9999999999886 6789999999999999999999999999998875 4467888887777666555      578888


Q ss_pred             HHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCC-ChhhHHHHHHHHHhc--cccccchhhhh
Q 046446          158 LFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMP-DASIVSIVVDLLAKN--EISLNSLPSFT  230 (244)
Q Consensus       158 ~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~--g~~~~a~~~~~  230 (244)
                      .+....+... .+...|..+...+.. ...+++.+.++...+....+ +...+..+...|...  +..+.+...++
T Consensus       208 ~~~~al~~~P-~~~~~~~~l~~ll~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~  281 (315)
T d2h6fa1         208 YTLEMIKLVP-HNESAWNYLKGILQD-RGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDNKEDILN  281 (315)
T ss_dssp             HHHHHHHHST-TCHHHHHHHHHHHTT-TCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTTCSSHHHHHH
T ss_pred             HHHHHHHhCC-CchHHHHHHHHHHHh-cChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            8888777542 367777777665544 45678888888877643332 455666777777654  33344443333

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.41  E-value=5.3e-11  Score=87.55  Aligned_cols=190  Identities=11%  Similarity=0.041  Sum_probs=152.0

Q ss_pred             cCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHH
Q 046446            9 NKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVEL   88 (244)
Q Consensus         9 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~   88 (244)
                      .+..++|..+|++..+...+.+...|...+......|+++.|..+|+++.+........+|...+....+.|+.+.|.++
T Consensus        77 ~~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i  156 (308)
T d2onda1          77 KLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMI  156 (308)
T ss_dssp             HHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHH
T ss_pred             ccchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHH
Confidence            34568899999999876545566778888888999999999999999998764333345788999999999999999999


Q ss_pred             HHHHHHhCCCccHHhHHHHHHH-HHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcC-
Q 046446           89 FRTLRILKCELDIQAYSCLIDG-LCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENA-  166 (244)
Q Consensus        89 ~~~~~~~~~~~~~~~~~~ll~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~-  166 (244)
                      |+++.+.+ +.+...|...... +...|+.+.|..+|+.+.... +.+...|...+......|+++.|..+|+...... 
T Consensus       157 ~~~al~~~-~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~-p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~  234 (308)
T d2onda1         157 FKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGS  234 (308)
T ss_dssp             HHHHHTST-TCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSS
T ss_pred             HHHHHHhC-CCcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhh-hhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCC
Confidence            99998765 3455555444433 445689999999999988763 4568899999999999999999999999987653 


Q ss_pred             CCCc--HhHHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 046446          167 VAPN--VITFGTLIHGFIRINEPSKVIELLHKMKEK  200 (244)
Q Consensus       167 ~~p~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  200 (244)
                      ..|.  ...|...+..-...|+.+.+..+++++.+.
T Consensus       235 ~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~  270 (308)
T d2onda1         235 LPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             SCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            3333  346888888778889999999999988764

>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=99.39  E-value=8.8e-11  Score=86.62  Aligned_cols=198  Identities=10%  Similarity=-0.046  Sum_probs=157.7

Q ss_pred             hhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCC-cHHHHHHHHHHHHHhCCCccHHhHHHHHH
Q 046446           31 VVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNG-YIVESVELFRTLRILKCELDIQAYSCLID  109 (244)
Q Consensus        31 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  109 (244)
                      ...|+.+...+.+.+.+++|+..++++.+.... +...|+....++...| ++++|+..++...+.. +-+..+|..+..
T Consensus        43 ~~a~~~~~~~~~~~e~~~~Al~~~~~ai~lnP~-~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~~  120 (315)
T d2h6fa1          43 RDVYDYFRAVLQRDERSERAFKLTRDAIELNAA-NYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRV  120 (315)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHHCCC-ChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHhH
Confidence            345667777788889999999999999997433 6678888888888876 5899999999998876 578999999999


Q ss_pred             HHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCC---
Q 046446          110 GLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINE---  186 (244)
Q Consensus       110 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~---  186 (244)
                      .+.+.|++++|+..++++.+.. +-+...|..+...+...|++++|.+.++.+.+.... +...|+.+...+.+.+.   
T Consensus       121 ~~~~l~~~~eAl~~~~kal~~d-p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~-n~~a~~~r~~~l~~~~~~~~  198 (315)
T d2h6fa1         121 LVEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISNTTGYND  198 (315)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCSCS
T ss_pred             HHHhhccHHHHHHHHhhhhhhh-hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCc-cHHHHHHHHHHHHHccccch
Confidence            9999999999999999998764 457899999999999999999999999999986533 67778877776666555   


Q ss_pred             ---hhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhccccccchhhhhhhhh
Q 046446          187 ---PSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEISLNSLPSFTVHER  234 (244)
Q Consensus       187 ---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  234 (244)
                         +++|...+....+.. +-+...+..+...+...| ..++.+.++....
T Consensus       199 ~~~~~~ai~~~~~al~~~-P~~~~~~~~l~~ll~~~~-~~~~~~~~~~~~~  247 (315)
T d2h6fa1         199 RAVLEREVQYTLEMIKLV-PHNESAWNYLKGILQDRG-LSKYPNLLNQLLD  247 (315)
T ss_dssp             HHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTTTC-GGGCHHHHHHHHH
T ss_pred             hhhhHHhHHHHHHHHHhC-CCchHHHHHHHHHHHhcC-hHHHHHHHHHHHH
Confidence               567888888877764 225666666666655544 4667776665543

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=99.38  E-value=2.6e-10  Score=81.40  Aligned_cols=223  Identities=9%  Similarity=-0.050  Sum_probs=137.2

Q ss_pred             hhhcCChhHHHHHHHHHHhCCC-CC--ChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcH
Q 046446            6 YCKNKEIEGALNLYSEMLSKGI-KP--DVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYI   82 (244)
Q Consensus         6 ~~~~~~~~~a~~~~~~~~~~~~-~~--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~   82 (244)
                      +....+.+.++.-+++...... .+  ...+|..+...|.+.|++++|+..|++..+.. +-++.+|..+..++.+.|++
T Consensus         9 ~~~~~~~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~   87 (259)
T d1xnfa_           9 LQPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNF   87 (259)
T ss_dssp             CCCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCH
T ss_pred             ccccHHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHH
Confidence            3344566777777777776421 11  23466677788888999999999999988863 33678888999999999999


Q ss_pred             HHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHH
Q 046446           83 VESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDM  162 (244)
Q Consensus        83 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  162 (244)
                      ++|++.|++..+.. +.+..++..+..+|...|++++|...|+...+.. +.+......+...+.+.+..+.+..+....
T Consensus        88 ~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  165 (259)
T d1xnfa_          88 DAAYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD-PNDPFRSLWLYLAEQKLDEKQAKEVLKQHF  165 (259)
T ss_dssp             HHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCHHHHHHHHHHHH
T ss_pred             HHhhhhhhHHHHHH-hhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhc-cccHHHHHHHHHHHHHhhhHHHHHHHHHHh
Confidence            99999999988876 4567788888889999999999999998887653 234444444444445555555555555544


Q ss_pred             HHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHC--CCCC-ChhhHHHHHHHHHhccccccchhhhhhhhh
Q 046446          163 EENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEK--NVMP-DASIVSIVVDLLAKNEISLNSLPSFTVHER  234 (244)
Q Consensus       163 ~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~--~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  234 (244)
                      ....  ++...++ ++..+...................  ...| ...++..+...|...|++++|+..|+....
T Consensus       166 ~~~~--~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~  237 (259)
T d1xnfa_         166 EKSD--KEQWGWN-IVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVA  237 (259)
T ss_dssp             HHSC--CCSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             hccc--hhhhhhh-HHHHHHHHHHHHHHHHHHHHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            4422  1211121 122222111111111111111000  0112 123556677777778888888877776543

>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Transcription factor MalT domain III
domain: Transcription factor MalT domain III
species: Escherichia coli [TaxId: 562]

Probab=99.23  E-value=2.4e-09  Score=79.37  Aligned_cols=229  Identities=13%  Similarity=0.008  Sum_probs=149.5

Q ss_pred             hhhhhcCChhHHHHHHHHHHhCCCCCC------hhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCC-CC----hhHHHHH
Q 046446            4 NGYCKNKEIEGALNLYSEMLSKGIKPD------VVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVA-AD----TRTYTIF   72 (244)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~~~~~~~~~~------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-~~----~~~~~~l   72 (244)
                      ..+...|++++|++++++..+..  |+      ...+..+...+...|++++|+..|++..+.... ++    ..++..+
T Consensus        20 ~~~~~~g~~~~A~~~~~~aL~~~--~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~   97 (366)
T d1hz4a_          20 QVAINDGNPDEAERLAKLALEEL--PPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQ   97 (366)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHTC--CTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhC--cCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHH
Confidence            45678899999999999988762  33      235667778888999999999999987653111 11    2345566


Q ss_pred             HHHHHhCCcHHHHHHHHHHHHHh----CCCc---cHHhHHHHHHHHHcCCCHHHHHHHHHhcccC----Ccccc------
Q 046446           73 IDGLCKNGYIVESVELFRTLRIL----KCEL---DIQAYSCLIDGLCKSGRLEIALELFHSLPRG----VLVAD------  135 (244)
Q Consensus        73 l~~~~~~~~~~~a~~~~~~~~~~----~~~~---~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~~~------  135 (244)
                      ...+...|++..+...+.+....    +.+.   ....+..+...+...|+++.+...+......    +....      
T Consensus        98 ~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  177 (366)
T d1hz4a_          98 SEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAM  177 (366)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHH
Confidence            67777888888888887765432    1111   1234455666777778877777766654321    11111      


Q ss_pred             -----------------------------------HHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCC---cHhHHHHH
Q 046446          136 -----------------------------------VVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAP---NVITFGTL  177 (244)
Q Consensus       136 -----------------------------------~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p---~~~~~~~l  177 (244)
                                                         ...+..+...+...|++++|...+..........   ....+..+
T Consensus       178 ~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l  257 (366)
T d1hz4a_         178 LIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNI  257 (366)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHH
T ss_pred             HHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHH
Confidence                                               1223444555666777777777776655432221   23345567


Q ss_pred             HHHHHhcCChhHHHHHHHHHHH----CCCCCC-hhhHHHHHHHHHhccccccchhhhhhhhh
Q 046446          178 IHGFIRINEPSKVIELLHKMKE----KNVMPD-ASIVSIVVDLLAKNEISLNSLPSFTVHER  234 (244)
Q Consensus       178 ~~~~~~~g~~~~a~~~~~~~~~----~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  234 (244)
                      ..++...|++++|...+++...    .+..|+ ...+..+..+|.+.|++++|.+.++....
T Consensus       258 a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~  319 (366)
T d1hz4a_         258 ARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  319 (366)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            7788889999999998888763    233343 45677788889999999999888876543

>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=99.16  E-value=8.4e-09  Score=73.34  Aligned_cols=190  Identities=13%  Similarity=-0.057  Sum_probs=132.2

Q ss_pred             hhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHH
Q 046446            4 NGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIV   83 (244)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   83 (244)
                      ..|.+.|++++|+..|++..+.. +-++.+|+.+..++.+.|++++|+..|++..+... -+..++..+..++...|+++
T Consensus        45 ~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~  122 (259)
T d1xnfa_          45 VLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDP-TYNYAHLNRGIALYYGGRDK  122 (259)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCTHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHHh-hhhhhHHHHHHHHHHHhhHH
Confidence            46788999999999999999863 45677899999999999999999999999998743 35678889999999999999


Q ss_pred             HHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCCh----HHHHHHH
Q 046446           84 ESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQM----DKAHDLF  159 (244)
Q Consensus        84 ~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~----~~a~~~~  159 (244)
                      +|.+.|+...+.. +.+......+..++.+.+..+.+..+........  ++...++ ++..+......    +.+...+
T Consensus       123 ~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~  198 (259)
T d1xnfa_         123 LAQDDLLAFYQDD-PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSD--KEQWGWN-IVEFYLGNISEQTLMERLKADA  198 (259)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSC--CCSTHHH-HHHHHTTSSCHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHhhc-cccHHHHHHHHHHHHHhhhHHHHHHHHHHhhccc--hhhhhhh-HHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999998875 3455555445555566666665555555544432  1111222 22333222222    2222222


Q ss_pred             HHHHHcCCCC-cHhHHHHHHHHHHhcCChhHHHHHHHHHHHCC
Q 046446          160 LDMEENAVAP-NVITFGTLIHGFIRINEPSKVIELLHKMKEKN  201 (244)
Q Consensus       160 ~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  201 (244)
                      .....  ..| ...+|..+...+...|++++|...|+......
T Consensus       199 ~~~~~--~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~  239 (259)
T d1xnfa_         199 TDNTS--LAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN  239 (259)
T ss_dssp             CSHHH--HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHhhh--cCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC
Confidence            11111  112 23567778899999999999999999988754

>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=99.10  E-value=1.2e-08  Score=69.30  Aligned_cols=121  Identities=8%  Similarity=-0.069  Sum_probs=76.9

Q ss_pred             HHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHH
Q 046446           39 IGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLE  118 (244)
Q Consensus        39 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~  118 (244)
                      ..+...|+++.|++.|.++    .+|++.+|..+..+|...|++++|++.|++..+.+ +.+...|..+..+|.+.|+++
T Consensus        13 ~~~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~~~~~g~~~   87 (192)
T d1hh8a_          13 VLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKYD   87 (192)
T ss_dssp             HHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh-hhhhhhHHHHHHHHHhhccHH
Confidence            3455667778887777653    34566777777777788888888888887777766 456777777777777788888


Q ss_pred             HHHHHHHhcccCCc--------------cc-cHHHHHHHHHHHHccCChHHHHHHHHHHHH
Q 046446          119 IALELFHSLPRGVL--------------VA-DVVTYSIMIHGLYNDGQMDKAHDLFLDMEE  164 (244)
Q Consensus       119 ~a~~~~~~~~~~~~--------------~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  164 (244)
                      +|...|++......              .+ ...++..+..++.+.|++++|.+.+....+
T Consensus        88 ~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~  148 (192)
T d1hh8a_          88 LAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATS  148 (192)
T ss_dssp             HHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            77777776543210              00 123344444555555555555555555444

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.09  E-value=7.7e-09  Score=76.57  Aligned_cols=218  Identities=11%  Similarity=-0.009  Sum_probs=152.7

Q ss_pred             ChhHHHHHHHHHHhCCCCCChh-hHHHHHHH----------HhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhC
Q 046446           11 EIEGALNLYSEMLSKGIKPDVV-IHNTLFIG----------LFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKN   79 (244)
Q Consensus        11 ~~~~a~~~~~~~~~~~~~~~~~-~~~~li~~----------~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~   79 (244)
                      ..++|+++++...+.  .|+.. .|+..-..          +...|.+++|+.+++...+.. +-+...|..+..++...
T Consensus        44 ~~~~al~~~~~~l~~--~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~-pk~~~~~~~~~~~~~~~  120 (334)
T d1dcea1          44 LDESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRL  120 (334)
T ss_dssp             CSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTC
T ss_pred             ccHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhC-CCcHHHHHHhhHHHHHh
Confidence            348999999999886  45543 44432222          334567899999999998863 33677777777777766


Q ss_pred             C--cHHHHHHHHHHHHHhCCCccHHhHH-HHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHH
Q 046446           80 G--YIVESVELFRTLRILKCELDIQAYS-CLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAH  156 (244)
Q Consensus        80 ~--~~~~a~~~~~~~~~~~~~~~~~~~~-~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~  156 (244)
                      +  ++++|...++++.+.. +++...+. .....+...+.+++|+..++.....+ +-+...|+.+..++...|++++|.
T Consensus       121 ~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~-p~~~~a~~~l~~~~~~~~~~~~A~  198 (334)
T d1dcea1         121 PEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSG  198 (334)
T ss_dssp             SSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHHHHHHSCCCCSS
T ss_pred             ccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCHHHHH
Confidence            5  5899999999998876 45566654 45577778899999999999998876 446888888888888877765432


Q ss_pred             HHH------------------------------HHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCh
Q 046446          157 DLF------------------------------LDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDA  206 (244)
Q Consensus       157 ~~~------------------------------~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  206 (244)
                      ..+                              ...... -+++...+..+...+...|++.+|...+.+...... -+.
T Consensus       199 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~a~~~~~~~l~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p-~~~  276 (334)
T d1dcea1         199 PQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLG-RAEPLFRCELSVEKSTVLQSELESCKELQELEPENK-WCL  276 (334)
T ss_dssp             SCCSSCHHHHHHHHHHHHHHHHHCSSCSHHHHHHHHHHS-CCCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTCH-HHH
T ss_pred             HHHHHhHHhHHHHHHHHHHHHHhcchhHHHHHHHHHHHh-CcchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhCc-hHH
Confidence            221                              111111 112233334455556667888888888887766542 255


Q ss_pred             hhHHHHHHHHHhccccccchhhhhhhhhh
Q 046446          207 SIVSIVVDLLAKNEISLNSLPSFTVHERQ  235 (244)
Q Consensus       207 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  235 (244)
                      ..+..+..+|.+.|+.++|++.++...+.
T Consensus       277 ~~~~~l~~~~~~~~~~~eA~~~~~~ai~l  305 (334)
T d1dcea1         277 LTIILLMRALDPLLYEKETLQYFSTLKAV  305 (334)
T ss_dssp             HHHHHHHHHHCTGGGHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            67788889999999999999999877654

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.08  E-value=3.9e-09  Score=76.67  Aligned_cols=202  Identities=12%  Similarity=0.027  Sum_probs=137.8

Q ss_pred             hHHHHHHHHhhhchHHHHHHHHHHHHHc----CCCC-ChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhC-----CCccHH
Q 046446           33 IHNTLFIGLFEIHQVERAFKLFDEMQRD----GVAA-DTRTYTIFIDGLCKNGYIVESVELFRTLRILK-----CELDIQ  102 (244)
Q Consensus        33 ~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~  102 (244)
                      .|......|...|++++|.+.|.+..+.    +-++ -..+|..+..+|.+.|++++|.+.+++..+..     ......
T Consensus        39 ~y~~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~  118 (290)
T d1qqea_          39 LCVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGAN  118 (290)
T ss_dssp             HHHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHH
Confidence            4666677788889999999999988653    2222 23578899999999999999999999876531     112244


Q ss_pred             hHHHHHHHHH-cCCCHHHHHHHHHhccc----CCccc-cHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcH-----
Q 046446          103 AYSCLIDGLC-KSGRLEIALELFHSLPR----GVLVA-DVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNV-----  171 (244)
Q Consensus       103 ~~~~ll~~~~-~~~~~~~a~~~~~~~~~----~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~-----  171 (244)
                      ++..+...|. ..|++++|...+++..+    .+.++ ...++..+...+...|++++|...|+.+.........     
T Consensus       119 ~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~  198 (290)
T d1qqea_         119 FKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSL  198 (290)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGH
T ss_pred             HHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhH
Confidence            5666676774 46999999999987643    22122 2456788899999999999999999998764322111     


Q ss_pred             -hHHHHHHHHHHhcCChhHHHHHHHHHHHCCCC-CC---hhhHHHHHHHHHhc--cccccchhhhhhhhh
Q 046446          172 -ITFGTLIHGFIRINEPSKVIELLHKMKEKNVM-PD---ASIVSIVVDLLAKN--EISLNSLPSFTVHER  234 (244)
Q Consensus       172 -~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~-~~---~~~~~~l~~~~~~~--g~~~~a~~~~~~~~~  234 (244)
                       ..+...+..+...|+++.|...+++..+.... ++   ......++.++...  +.+++++..|+.+.+
T Consensus       199 ~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~~~  268 (290)
T d1qqea_         199 KDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMR  268 (290)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSC
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhh
Confidence             12344555667789999999999988765321 11   23456677776652  345677776655443

>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=99.06  E-value=2.2e-08  Score=68.04  Aligned_cols=141  Identities=11%  Similarity=-0.068  Sum_probs=112.0

Q ss_pred             HHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCCh
Q 046446           73 IDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQM  152 (244)
Q Consensus        73 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~  152 (244)
                      ...+...|+++.|++.|.++    .+|+..+|..+..+|...|++++|++.|++..+.+ +.+...|..+..+|.+.|++
T Consensus        12 g~~~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~~~~~g~~   86 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKY   86 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh-hhhhhhHHHHHHHHHhhccH
Confidence            45677889999999999865    35788899999999999999999999999998775 45688999999999999999


Q ss_pred             HHHHHHHHHHHHcCCC--------------C-cHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHH
Q 046446          153 DKAHDLFLDMEENAVA--------------P-NVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLA  217 (244)
Q Consensus       153 ~~a~~~~~~~~~~~~~--------------p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  217 (244)
                      ++|...|+........              + ...++..+..++.+.|++++|.+.+.........|........+..+.
T Consensus        87 ~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~~~~~~~~~Al~~~~  166 (192)
T d1hh8a_          87 DLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEPRHSKIDKAMECVW  166 (192)
T ss_dssp             HHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSGGGGHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcchHHHHHHHHHHH
Confidence            9999999987653110              0 124566677888999999999999999887766655555554455444


Q ss_pred             h
Q 046446          218 K  218 (244)
Q Consensus       218 ~  218 (244)
                      +
T Consensus       167 ~  167 (192)
T d1hh8a_         167 K  167 (192)
T ss_dssp             T
T ss_pred             h
Confidence            3

>d1elwa_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.96  E-value=2.3e-08  Score=62.13  Aligned_cols=91  Identities=15%  Similarity=0.022  Sum_probs=63.4

Q ss_pred             HHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCH
Q 046446           38 FIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRL  117 (244)
Q Consensus        38 i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~  117 (244)
                      ...+...|++++|+..|++..+.. +-+...|..+..++...|++++|+..+++..+.+ +.+...|..+..++...|++
T Consensus        10 g~~~~~~g~~~eAi~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~~   87 (117)
T d1elwa_          10 GNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNRF   87 (117)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcC-CcchhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccCH
Confidence            445666677777777777776653 3356667777777777777777777777777665 45666777777777777777


Q ss_pred             HHHHHHHHhcccC
Q 046446          118 EIALELFHSLPRG  130 (244)
Q Consensus       118 ~~a~~~~~~~~~~  130 (244)
                      ++|...|++..+.
T Consensus        88 ~~A~~~~~~a~~~  100 (117)
T d1elwa_          88 EEAKRTYEEGLKH  100 (117)
T ss_dssp             HHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHh
Confidence            7777777777665

>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=98.94  E-value=2.2e-08  Score=68.29  Aligned_cols=98  Identities=12%  Similarity=-0.070  Sum_probs=54.2

Q ss_pred             CChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHH
Q 046446           29 PDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLI  108 (244)
Q Consensus        29 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll  108 (244)
                      |+...+......+.+.|++++|+..|++..+.. +-++..|..+..+|.+.|++++|+..|++..+.. |-+..+|..+.
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~-p~~~~a~~~lg   79 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLG   79 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhC-CCcHHHHHHHH
Confidence            444445555555556666666666665555542 2245555555556666666666666666555443 23445555555


Q ss_pred             HHHHcCCCHHHHHHHHHhcc
Q 046446          109 DGLCKSGRLEIALELFHSLP  128 (244)
Q Consensus       109 ~~~~~~~~~~~a~~~~~~~~  128 (244)
                      .+|...|++++|...|++..
T Consensus        80 ~~~~~l~~~~~A~~~~~~al   99 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAY   99 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHH
Confidence            66666666666666555544

>d1elwa_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.94  E-value=6e-08  Score=60.17  Aligned_cols=90  Identities=14%  Similarity=-0.008  Sum_probs=56.3

Q ss_pred             HHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCCh
Q 046446           73 IDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQM  152 (244)
Q Consensus        73 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~  152 (244)
                      ...+.+.|++++|+..|++..+.. |.+...|..+..+|...|++++|...+....+.+ +.+...|..+..++...|++
T Consensus        10 g~~~~~~g~~~eAi~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~~   87 (117)
T d1elwa_          10 GNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNRF   87 (117)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcC-CcchhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccCH
Confidence            445556666666666666666554 4555666666666666666666666666665543 34556666666666666666


Q ss_pred             HHHHHHHHHHHH
Q 046446          153 DKAHDLFLDMEE  164 (244)
Q Consensus       153 ~~a~~~~~~~~~  164 (244)
                      ++|...|+...+
T Consensus        88 ~~A~~~~~~a~~   99 (117)
T d1elwa_          88 EEAKRTYEEGLK   99 (117)
T ss_dssp             HHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHH
Confidence            666666666665

>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=98.91  E-value=5.5e-08  Score=70.46  Aligned_cols=194  Identities=8%  Similarity=-0.057  Sum_probs=131.9

Q ss_pred             hhhhhcCChhHHHHHHHHHHhC----CCCC-ChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCC-----CCChhHHHHHH
Q 046446            4 NGYCKNKEIEGALNLYSEMLSK----GIKP-DVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGV-----AADTRTYTIFI   73 (244)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-----~~~~~~~~~ll   73 (244)
                      ..|...|++++|.+.|.+....    +-++ -..+|..+..+|.+.|++++|...+++..+...     .....++..+.
T Consensus        45 ~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~  124 (290)
T d1qqea_          45 TIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELG  124 (290)
T ss_dssp             HHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHHH
Confidence            5677889999999999988653    2122 235788899999999999999999998765311     11245566777


Q ss_pred             HHHHh-CCcHHHHHHHHHHHHHh----CCCc-cHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCc-----ccc-HHHHHH
Q 046446           74 DGLCK-NGYIVESVELFRTLRIL----KCEL-DIQAYSCLIDGLCKSGRLEIALELFHSLPRGVL-----VAD-VVTYSI  141 (244)
Q Consensus        74 ~~~~~-~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-----~~~-~~~~~~  141 (244)
                      ..|.. .|++++|++.+++..+.    +.++ ...++..+...+...|++++|...|++......     ... ...+..
T Consensus       125 ~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (290)
T d1qqea_         125 EILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLK  204 (290)
T ss_dssp             HHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHH
T ss_pred             HhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHHHH
Confidence            77754 69999999999987642    2111 245578889999999999999999998765421     111 123345


Q ss_pred             HHHHHHccCChHHHHHHHHHHHHcCCC-Cc---HhHHHHHHHHHHh--cCChhHHHHHHHHH
Q 046446          142 MIHGLYNDGQMDKAHDLFLDMEENAVA-PN---VITFGTLIHGFIR--INEPSKVIELLHKM  197 (244)
Q Consensus       142 li~~~~~~~~~~~a~~~~~~~~~~~~~-p~---~~~~~~l~~~~~~--~g~~~~a~~~~~~~  197 (244)
                      .+..+...|+++.|.+.++...+.... ++   ......++.++..  .+.+++|...|+++
T Consensus       205 ~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~  266 (290)
T d1qqea_         205 KGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNF  266 (290)
T ss_dssp             HHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTS
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            555677889999999999988764321 11   2234556666554  23466676666543

>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=98.90  E-value=5e-08  Score=64.08  Aligned_cols=119  Identities=11%  Similarity=0.020  Sum_probs=81.1

Q ss_pred             HHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCC
Q 046446           37 LFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGR  116 (244)
Q Consensus        37 li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~  116 (244)
                      ....|.+.|++++|+..|++..+.. +-+...|..+..+|...|++++|.+.|++..+.. +.+..+|..+..++...|+
T Consensus        16 ~gn~~~~~~~y~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~~g~   93 (159)
T d1a17a_          16 QANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGK   93 (159)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHhhhccccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHHcCC
Confidence            3456777888888888888887764 3366777788888888888888888888887765 4566778888888888888


Q ss_pred             HHHHHHHHHhcccCCccccHHHHHHHHHH--HHccCChHHHHHH
Q 046446          117 LEIALELFHSLPRGVLVADVVTYSIMIHG--LYNDGQMDKAHDL  158 (244)
Q Consensus       117 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~--~~~~~~~~~a~~~  158 (244)
                      +++|...+++..... +-+...+..+...  ....+.++++...
T Consensus        94 ~~eA~~~~~~a~~~~-p~~~~~~~~l~~~~~~~~~~~~~~a~~~  136 (159)
T d1a17a_          94 FRAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAG  136 (159)
T ss_dssp             HHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            888888888777653 2234444443322  2333445555544

>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=98.89  E-value=7.8e-08  Score=63.13  Aligned_cols=94  Identities=9%  Similarity=-0.069  Sum_probs=77.2

Q ss_pred             HHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccC
Q 046446           71 IFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDG  150 (244)
Q Consensus        71 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~  150 (244)
                      .....|.+.|++++|+..|++..+.. +.+...|..+..+|...|++++|...|+...+.. +-+..+|..+..++...|
T Consensus        15 ~~gn~~~~~~~y~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~~g   92 (159)
T d1a17a_          15 TQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALG   92 (159)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHhhhccccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHHcC
Confidence            34566778899999999999888876 5678888888888999999999999998887764 446678888888888999


Q ss_pred             ChHHHHHHHHHHHHcC
Q 046446          151 QMDKAHDLFLDMEENA  166 (244)
Q Consensus       151 ~~~~a~~~~~~~~~~~  166 (244)
                      ++++|...++......
T Consensus        93 ~~~eA~~~~~~a~~~~  108 (159)
T d1a17a_          93 KFRAALRDYETVVKVK  108 (159)
T ss_dssp             CHHHHHHHHHHHHHHS
T ss_pred             CHHHHHHHHHHHHHcC
Confidence            9999999888888753

>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=98.82  E-value=4.6e-08  Score=66.68  Aligned_cols=99  Identities=11%  Similarity=-0.110  Sum_probs=64.1

Q ss_pred             CChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHH
Q 046446           64 ADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMI  143 (244)
Q Consensus        64 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li  143 (244)
                      |+...+......+.+.|++++|+..|++..+.. |.+..+|..+..+|.+.|++++|...|+...+.. +-+..+|..+.
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~-p~~~~a~~~lg   79 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLG   79 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhC-CCcHHHHHHHH
Confidence            555556666666667777777777776666654 4566666666667777777777777776666543 22455666666


Q ss_pred             HHHHccCChHHHHHHHHHHHH
Q 046446          144 HGLYNDGQMDKAHDLFLDMEE  164 (244)
Q Consensus       144 ~~~~~~~~~~~a~~~~~~~~~  164 (244)
                      .+|...|++++|...|+...+
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHH
Confidence            677777777777766666543

>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=98.77  E-value=2.3e-08  Score=73.98  Aligned_cols=206  Identities=6%  Similarity=-0.076  Sum_probs=142.0

Q ss_pred             hhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhc--hHHHHHHHHHHHHHcCCCCChhHHH-HHHHHHHhCCcH
Q 046446            6 YCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIH--QVERAFKLFDEMQRDGVAADTRTYT-IFIDGLCKNGYI   82 (244)
Q Consensus         6 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~--~~~~a~~~~~~m~~~~~~~~~~~~~-~ll~~~~~~~~~   82 (244)
                      +...|++++|+..++...+.. +-+...|..+..++...+  ++++|...++++.+.. +++...+. .....+...+.+
T Consensus        83 ~~~~~~~~~al~~~~~~l~~~-pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~  160 (334)
T d1dcea1          83 EESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAP  160 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCH
T ss_pred             HHHHHHHHHHHHHHHHHHHhC-CCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhcccc
Confidence            445567889999999988763 446667777766666654  5899999999998873 33555554 455777788999


Q ss_pred             HHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcc--------------cCC---------------cc
Q 046446           83 VESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLP--------------RGV---------------LV  133 (244)
Q Consensus        83 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~--------------~~~---------------~~  133 (244)
                      +.|++.++...+.+ +-+..+|+.+...+...|++++|...++...              ..+               -+
T Consensus       161 ~~Al~~~~~~i~~~-p~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~a~~~~~~~l~~~~  239 (334)
T d1dcea1         161 AEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGRA  239 (334)
T ss_dssp             HHHHHHHHTTTTTT-CCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHHHHHHHHHHHHHHHHCSSCSHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhHHHHHHHHHHHHHhcchhHHHHHHHHHHHhCc
Confidence            99999999998876 5678889888888888887654322221111              000               01


Q ss_pred             ccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCh-hhHHHH
Q 046446          134 ADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDA-SIVSIV  212 (244)
Q Consensus       134 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~l  212 (244)
                      ++...+..+...+...++.++|...+.+..+... .+..++..+..++...|++++|.+.+++..+.  .|+. .-|..+
T Consensus       240 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p-~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~l--dP~~~~y~~~L  316 (334)
T d1dcea1         240 EPLFRCELSVEKSTVLQSELESCKELQELEPENK-WCLLTIILLMRALDPLLYEKETLQYFSTLKAV--DPMRAAYLDDL  316 (334)
T ss_dssp             CCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTCH-HHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHH--CGGGHHHHHHH
T ss_pred             chhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhCc-hHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--CcccHHHHHHH
Confidence            2222333445566667888888888887775431 24567788888999999999999999999885  4653 344545


Q ss_pred             HHHHH
Q 046446          213 VDLLA  217 (244)
Q Consensus       213 ~~~~~  217 (244)
                      ...+.
T Consensus       317 ~~~~~  321 (334)
T d1dcea1         317 RSKFL  321 (334)
T ss_dssp             HHHHH
T ss_pred             HHHHh
Confidence            44444

>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=98.74  E-value=3.6e-06  Score=61.68  Aligned_cols=223  Identities=8%  Similarity=-0.032  Sum_probs=152.9

Q ss_pred             hhhhhcCChhHHHHHHHHHHhC----CCCCC---hhhHHHHHHHHhhhchHHHHHHHHHHHHHcCC----CCChhHHHHH
Q 046446            4 NGYCKNKEIEGALNLYSEMLSK----GIKPD---VVIHNTLFIGLFEIHQVERAFKLFDEMQRDGV----AADTRTYTIF   72 (244)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~~~~~----~~~~~---~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~----~~~~~~~~~l   72 (244)
                      ..+...|++..+...+......    +..+.   ...+..+...+...|+++.+...+........    .....++...
T Consensus        99 ~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~  178 (366)
T d1hz4a_          99 EILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAML  178 (366)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHH
Confidence            4566778888888887776532    11111   23455566778888999999999988876522    2234455666


Q ss_pred             HHHHHhCCcHHHHHHHHHHHHHhC----CC--ccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCc---cccHHHHHHHH
Q 046446           73 IDGLCKNGYIVESVELFRTLRILK----CE--LDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVL---VADVVTYSIMI  143 (244)
Q Consensus        73 l~~~~~~~~~~~a~~~~~~~~~~~----~~--~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~---~~~~~~~~~li  143 (244)
                      ...+...++...+...+.+.....    ..  .....+..+...+...|++++|...++.......   ......+..+.
T Consensus       179 ~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la  258 (366)
T d1hz4a_         179 IQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIA  258 (366)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHH
T ss_pred             HHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHH
Confidence            777888899999988887765421    11  1233466677788899999999999998765432   22345667788


Q ss_pred             HHHHccCChHHHHHHHHHHHH----cCCCCc-HhHHHHHHHHHHhcCChhHHHHHHHHHHHC----CCCC----ChhhHH
Q 046446          144 HGLYNDGQMDKAHDLFLDMEE----NAVAPN-VITFGTLIHGFIRINEPSKVIELLHKMKEK----NVMP----DASIVS  210 (244)
Q Consensus       144 ~~~~~~~~~~~a~~~~~~~~~----~~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~~~~----~~~~~~  210 (244)
                      .++...|++++|...++....    .+..|+ ...+..+..++.+.|++++|.+.+++..+.    |...    ....+.
T Consensus       259 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~l~~~~~~~~~~~~~~~~~~  338 (366)
T d1hz4a_         259 RAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKLANRTGFISHFVIEGEAMA  338 (366)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCCCHHHHTTHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhhcCcHHHHHHHHHHHH
Confidence            899999999999999988763    233333 456777888999999999999999987642    3211    123445


Q ss_pred             HHHHHHHhccccccch
Q 046446          211 IVVDLLAKNEISLNSL  226 (244)
Q Consensus       211 ~l~~~~~~~g~~~~a~  226 (244)
                      .++..+.+.+..+++.
T Consensus       339 ~~~~~l~~~~~l~e~e  354 (366)
T d1hz4a_         339 QQLRQLIQLNTLPELE  354 (366)
T ss_dssp             HHHHHHHHTTCSCHHH
T ss_pred             HHHHHHHhcCCChHHH
Confidence            5666666667666654

>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=98.74  E-value=4.9e-08  Score=60.95  Aligned_cols=94  Identities=17%  Similarity=0.157  Sum_probs=48.4

Q ss_pred             HHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCc---HHHHHHHHHHHHHhCCCcc-HHhHHHHHHHH
Q 046446           36 TLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGY---IVESVELFRTLRILKCELD-IQAYSCLIDGL  111 (244)
Q Consensus        36 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~---~~~a~~~~~~~~~~~~~~~-~~~~~~ll~~~  111 (244)
                      .+++.+...+++++|.+.|++....+ +.+..++..+..++.+.++   .++|+++++++...+..|+ ..++..+..+|
T Consensus         4 ~l~n~~~~~~~l~~Ae~~Y~~aL~~~-p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y   82 (122)
T d1nzna_           4 AVLNELVSVEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGN   82 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHH
Confidence            34455555556666666666555542 2244555555555554332   3345555555554432222 12445555556


Q ss_pred             HcCCCHHHHHHHHHhcccC
Q 046446          112 CKSGRLEIALELFHSLPRG  130 (244)
Q Consensus       112 ~~~~~~~~a~~~~~~~~~~  130 (244)
                      .+.|++++|.+.|+++.+.
T Consensus        83 ~~~g~~~~A~~~~~~aL~~  101 (122)
T d1nzna_          83 YRLKEYEKALKYVRGLLQT  101 (122)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhhhHHHHHHHHHHHHh
Confidence            6666666666666655554

>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=98.71  E-value=1.3e-07  Score=58.16  Aligned_cols=88  Identities=11%  Similarity=0.081  Sum_probs=52.1

Q ss_pred             HHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCC
Q 046446           37 LFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGR  116 (244)
Q Consensus        37 li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~  116 (244)
                      ....+.+.|++++|+..|++...... -+..+|..+..++.+.|++++|+..|++..+.. |.+..+|..+..+|...|+
T Consensus        22 ~g~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~~g~   99 (112)
T d1hxia_          22 EGLSMLKLANLAEAALAFEAVCQKEP-EREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHN   99 (112)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHhhhccccc-ccchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHHCCC
Confidence            33445556666666666666655422 245556666666666666666666666666554 3455566666666666666


Q ss_pred             HHHHHHHHHh
Q 046446          117 LEIALELFHS  126 (244)
Q Consensus       117 ~~~a~~~~~~  126 (244)
                      +++|.+.+++
T Consensus       100 ~~~A~~~l~~  109 (112)
T d1hxia_         100 ANAALASLRA  109 (112)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            6666666654

>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=98.70  E-value=8.6e-08  Score=58.94  Aligned_cols=90  Identities=10%  Similarity=-0.040  Sum_probs=58.6

Q ss_pred             HHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccC
Q 046446           71 IFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDG  150 (244)
Q Consensus        71 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~  150 (244)
                      .+...+.+.|++++|+..|++..+.. |-+..+|..+..++.+.|++++|...|++..+.. +.+...|..+...|...|
T Consensus        21 ~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~~g   98 (112)
T d1hxia_          21 EEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEH   98 (112)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHhhhcccc-cccchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHHCC
Confidence            34555666677777777777766654 3456666667777777777777777777666543 334666666666777777


Q ss_pred             ChHHHHHHHHHH
Q 046446          151 QMDKAHDLFLDM  162 (244)
Q Consensus       151 ~~~~a~~~~~~~  162 (244)
                      ++++|.+.+++.
T Consensus        99 ~~~~A~~~l~~~  110 (112)
T d1hxia_          99 NANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHH
Confidence            777776666654

>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=98.69  E-value=3.2e-07  Score=57.16  Aligned_cols=95  Identities=9%  Similarity=0.031  Sum_probs=68.6

Q ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCC---HHHHHHHHHhcccCCcccc-HHHHHHHHHH
Q 046446           70 TIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGR---LEIALELFHSLPRGVLVAD-VVTYSIMIHG  145 (244)
Q Consensus        70 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~---~~~a~~~~~~~~~~~~~~~-~~~~~~li~~  145 (244)
                      ..+++.+...+++++|.+.|++....+ +.+..++..+..++.+.++   +++|..+++++...+..|+ ..+|..+..+
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            456677777788888888888888776 5677777777777776544   4468888888776543333 2366777788


Q ss_pred             HHccCChHHHHHHHHHHHHc
Q 046446          146 LYNDGQMDKAHDLFLDMEEN  165 (244)
Q Consensus       146 ~~~~~~~~~a~~~~~~~~~~  165 (244)
                      |.+.|++++|.+.|+.+.+.
T Consensus        82 y~~~g~~~~A~~~~~~aL~~  101 (122)
T d1nzna_          82 NYRLKEYEKALKYVRGLLQT  101 (122)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhhhHHHHHHHHHHHHh
Confidence            88888888888888887774

>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=98.56  E-value=3.2e-06  Score=55.83  Aligned_cols=60  Identities=12%  Similarity=-0.105  Sum_probs=29.9

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHH
Q 046446          104 YSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEE  164 (244)
Q Consensus       104 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  164 (244)
                      |+.+..+|.+.|++++|+..++.....+ |.+..+|..+..+|...|++++|...|+...+
T Consensus        65 ~~nla~~y~k~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~  124 (170)
T d1p5qa1          65 HLNLAMCHLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQ  124 (170)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhhcccccchhhhhhhcc-ccchhhhHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            3444445555555555555555544432 22444555555555555555555555555544

>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=98.53  E-value=2e-06  Score=56.89  Aligned_cols=62  Identities=11%  Similarity=-0.058  Sum_probs=41.5

Q ss_pred             HHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccC
Q 046446           68 TYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRG  130 (244)
Q Consensus        68 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  130 (244)
                      +|+.+..+|.+.|++++|+..++...+.. |.+..+|..+..+|...|++++|...|+...+.
T Consensus        64 ~~~nla~~y~k~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  125 (170)
T d1p5qa1          64 SHLNLAMCHLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQL  125 (170)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcccccchhhhhhhcc-ccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHh
Confidence            45556666667777777777777766654 446666666777777777777777777766654

>d1ouva_ a.118.18.1 (A:) Cysteine rich protein C (HcpC) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein C (HcpC)
species: Helicobacter pylori [TaxId: 210]

Probab=98.46  E-value=7e-05  Score=52.75  Aligned_cols=215  Identities=8%  Similarity=-0.027  Sum_probs=149.6

Q ss_pred             hhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhh----hchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHh-
Q 046446            4 NGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFE----IHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCK-   78 (244)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~-   78 (244)
                      ..+.+.+++++|++.|++..+.|   +...+..|...|..    ..+...+..++......+   ++.....+...+.. 
T Consensus        10 ~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~---~~~a~~~l~~~~~~~   83 (265)
T d1ouva_          10 AKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHLLGNLYYSG   83 (265)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHT
T ss_pred             HHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc---ccchhhccccccccc
Confidence            34567899999999999999886   45555556666655    568899999998888765   33444455444443 


Q ss_pred             ---CCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHH----cCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHc---
Q 046446           79 ---NGYIVESVELFRTLRILKCELDIQAYSCLIDGLC----KSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYN---  148 (244)
Q Consensus        79 ---~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~---  148 (244)
                         ..+.+.|...+++..+.|. +..  ...+...+.    .......+...+......+   +...+..+...+..   
T Consensus        84 ~~~~~~~~~a~~~~~~a~~~g~-~~a--~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~L~~~~~~~~~  157 (265)
T d1ouva_          84 QGVSQNTNKALQYYSKACDLKY-AEG--CASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTILGSLYDAGRG  157 (265)
T ss_dssp             SSSCCCHHHHHHHHHHHHHTTC-HHH--HHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSS
T ss_pred             cccchhhHHHHHHHhhhhhhhh-hhH--HHhhcccccCCCcccchhHHHHHHhhhhhccc---ccchhhhhhhhhccCCC
Confidence               4678889999998888763 222  222322333    3445677777777766643   66677777777775   


Q ss_pred             -cCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHh----cCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHh----c
Q 046446          149 -DGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIR----INEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAK----N  219 (244)
Q Consensus       149 -~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~  219 (244)
                       ..+...+...++...+.|   +......+...+..    ..++++|..+|.+..+.|   ++..+..|...|.+    .
T Consensus       158 ~~~~~~~~~~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~LG~~y~~G~g~~  231 (265)
T d1ouva_         158 TPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGAMQYNGEGVT  231 (265)
T ss_dssp             SCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHTTSSSS
T ss_pred             cccccccchhhhhcccccc---ccccccchhhhcccCcccccchhhhhhhHhhhhccc---CHHHHHHHHHHHHcCCCCc
Confidence             456777888888777654   55566666555554    568999999999999887   45566677777765    3


Q ss_pred             cccccchhhhhhhhhhh
Q 046446          220 EISLNSLPSFTVHERQE  236 (244)
Q Consensus       220 g~~~~a~~~~~~~~~~~  236 (244)
                      .+.++|.+.|+.....+
T Consensus       232 ~n~~~A~~~~~kAa~~g  248 (265)
T d1ouva_         232 RNEKQAIENFKKGCKLG  248 (265)
T ss_dssp             CCSTTHHHHHHHHHHHT
T ss_pred             cCHHHHHHHHHHHHHCc
Confidence            36788999998776554

>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=98.41  E-value=3.8e-06  Score=52.63  Aligned_cols=57  Identities=14%  Similarity=0.060  Sum_probs=28.8

Q ss_pred             HHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHH
Q 046446           37 LFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRI   94 (244)
Q Consensus        37 li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~   94 (244)
                      +...+...|++++|+..|.+..+.+. .+..++..+..+|.+.|++++|++.++++.+
T Consensus        10 ~G~~~~~~~~y~~Ai~~y~~al~~~p-~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~   66 (128)
T d1elra_          10 LGNDAYKKKDFDTALKHYDKAKELDP-TNMTYITNQAAVYFEKGDYNKCRELCEKAIE   66 (128)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCc-ccHHHHHhHHHHHHHcCchHHHHHHHHHHHH
Confidence            34444555555555555555555422 2444555555555555555555555555443

>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=98.40  E-value=6.7e-06  Score=53.21  Aligned_cols=62  Identities=10%  Similarity=-0.042  Sum_probs=34.3

Q ss_pred             hHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHc
Q 046446          103 AYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEEN  165 (244)
Q Consensus       103 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  165 (244)
                      +|+.+..+|.+.|++++|+..++...+.+ +.+..+|..+..++...|++++|...|+...+.
T Consensus        69 ~~~Nla~~~~~l~~~~~Al~~~~~al~~~-p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l  130 (153)
T d2fbna1          69 CNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASL  130 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHhhHHHHHHHhcccchhhhhhhcccccc-chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHh
Confidence            44455555555555555555555555443 334555555555555556666666555555543

>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=98.39  E-value=3.2e-06  Score=52.96  Aligned_cols=96  Identities=7%  Similarity=0.035  Sum_probs=66.8

Q ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCc---c--cc-HHHHHHH
Q 046446           69 YTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVL---V--AD-VVTYSIM  142 (244)
Q Consensus        69 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~---~--~~-~~~~~~l  142 (244)
                      +..+...+.+.|++++|++.|.+..+.+ |.+..++..+..+|.+.|++++|...++++.+...   .  +. ..+|..+
T Consensus         7 ~k~~G~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~l   85 (128)
T d1elra_           7 EKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARI   85 (128)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHH
Confidence            4456677788888888888888887775 45677788888888888888888888877654310   0  00 2355666


Q ss_pred             HHHHHccCChHHHHHHHHHHHHc
Q 046446          143 IHGLYNDGQMDKAHDLFLDMEEN  165 (244)
Q Consensus       143 i~~~~~~~~~~~a~~~~~~~~~~  165 (244)
                      ...+...+++++|.+.|+.....
T Consensus        86 g~~~~~~~~~~~A~~~~~kal~~  108 (128)
T d1elra_          86 GNSYFKEEKYKDAIHFYNKSLAE  108 (128)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHhc
Confidence            66777777777777777766543

>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=3.8e-06  Score=55.34  Aligned_cols=80  Identities=10%  Similarity=-0.085  Sum_probs=54.2

Q ss_pred             cHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHH
Q 046446          100 DIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIH  179 (244)
Q Consensus       100 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  179 (244)
                      ....|..+..++.+.|++++|+..+.+..+.. +.+..+|..+..++.+.|++++|...|+...+... .+......+..
T Consensus        76 ~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~-p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p-~n~~~~~~l~~  153 (169)
T d1ihga1          76 ALSCVLNIGACKLKMSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAP-EDKAIQAELLK  153 (169)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhhcccchhhhhhhhhhhhh-hhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCC-CCHHHHHHHHH
Confidence            45556667777777888888888887777664 44577777777888888888888888877776532 24444444444


Q ss_pred             HH
Q 046446          180 GF  181 (244)
Q Consensus       180 ~~  181 (244)
                      +.
T Consensus       154 ~~  155 (169)
T d1ihga1         154 VK  155 (169)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=98.36  E-value=8.3e-06  Score=52.75  Aligned_cols=63  Identities=14%  Similarity=-0.045  Sum_probs=45.5

Q ss_pred             hHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccC
Q 046446           67 RTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRG  130 (244)
Q Consensus        67 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  130 (244)
                      .+|..+..+|.+.|++++|++.+++..+.+ |.+..+|..+..++...|++++|...|+...+.
T Consensus        68 ~~~~Nla~~~~~l~~~~~Al~~~~~al~~~-p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l  130 (153)
T d2fbna1          68 SCNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASL  130 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHhhHHHHHHHhcccchhhhhhhcccccc-chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHh
Confidence            356667777777777777777777777665 456677777777777777777777777777665

>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=98.33  E-value=1.4e-05  Score=52.57  Aligned_cols=84  Identities=15%  Similarity=0.078  Sum_probs=62.5

Q ss_pred             cHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHH
Q 046446          135 DVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVD  214 (244)
Q Consensus       135 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  214 (244)
                      ....|..+..++.+.|++++|+..++...+... .+...|..+..++...|++++|...|+...+... .+......+..
T Consensus        76 ~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p-~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p-~n~~~~~~l~~  153 (169)
T d1ihga1          76 ALSCVLNIGACKLKMSDWQGAVDSCLEALEIDP-SNTKALYRRAQGWQGLKEYDQALADLKKAQEIAP-EDKAIQAELLK  153 (169)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhhcccchhhhhhhhhhhhhh-hhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCC-CCHHHHHHHHH
Confidence            456777788888899999999999998887543 3677888888899999999999999998887532 24455555555


Q ss_pred             HHHhcc
Q 046446          215 LLAKNE  220 (244)
Q Consensus       215 ~~~~~g  220 (244)
                      +..+..
T Consensus       154 ~~~~l~  159 (169)
T d1ihga1         154 VKQKIK  159 (169)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            544433

>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=98.33  E-value=1e-05  Score=53.17  Aligned_cols=96  Identities=10%  Similarity=-0.067  Sum_probs=45.3

Q ss_pred             hHHHHHHHHhhhchHHHHHHHHHHHHHc---CCCCC-----------hhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCC
Q 046446           33 IHNTLFIGLFEIHQVERAFKLFDEMQRD---GVAAD-----------TRTYTIFIDGLCKNGYIVESVELFRTLRILKCE   98 (244)
Q Consensus        33 ~~~~li~~~~~~~~~~~a~~~~~~m~~~---~~~~~-----------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~   98 (244)
                      .+......+.+.|++.+|+..|++....   ...++           ..+|..+..+|.+.|++++|+..+++..+.. |
T Consensus        17 ~~~e~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~-p   95 (168)
T d1kt1a1          17 IVKEKGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD-S   95 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-T
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhccchhhhhhcchhHHHHHHhHHHHHHHhhhcccchhhhhhhhhcc-c
Confidence            3444556666777777777777665542   00000           1123333344444444444444444444433 3


Q ss_pred             ccHHhHHHHHHHHHcCCCHHHHHHHHHhccc
Q 046446           99 LDIQAYSCLIDGLCKSGRLEIALELFHSLPR  129 (244)
Q Consensus        99 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  129 (244)
                      .+..+|..+..++...|++++|...|++..+
T Consensus        96 ~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~  126 (168)
T d1kt1a1          96 ANEKGLYRRGEAQLLMNEFESAKGDFEKVLE  126 (168)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3444444444444444444444444444443

>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=98.30  E-value=4e-06  Score=59.42  Aligned_cols=122  Identities=15%  Similarity=0.054  Sum_probs=70.0

Q ss_pred             hhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHH
Q 046446           42 FEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIAL  121 (244)
Q Consensus        42 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~  121 (244)
                      .+.|++++|+..+++..+.. +-|...+..+...++..|++++|.+.++...+.. +-+...+..+...+...+..+++.
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~   84 (264)
T d1zbpa1           7 LSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKLF-PEYLPGASQLRHLVKAAQARKDFA   84 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHhccccHHHH
Confidence            45577777777777777653 3366677777777777777777777777776654 233444444444444433333333


Q ss_pred             HHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHc
Q 046446          122 ELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEEN  165 (244)
Q Consensus       122 ~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  165 (244)
                      .-.......+-+++...+......+...|+.++|.+.++.+.+.
T Consensus        85 ~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~  128 (264)
T d1zbpa1          85 QGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  128 (264)
T ss_dssp             TSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc
Confidence            22222122221233344444555666777777777777776654

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.27  E-value=4.8e-06  Score=64.71  Aligned_cols=119  Identities=11%  Similarity=-0.117  Sum_probs=57.9

Q ss_pred             ccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHH
Q 046446           99 LDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLI  178 (244)
Q Consensus        99 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~  178 (244)
                      ++...+..+...+.+.|+.++|...+.......   ...++..+...+...|++++|...|+...+.. +-+...|+.+.
T Consensus       118 ~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~---~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~-P~~~~~~~~Lg  193 (497)
T d1ya0a1         118 PCRVKSSQLGIISNKQTHTSAIVKPQSSSCSYI---CQHCLVHLGDIARYRNQTSQAESYYRHAAQLV-PSNGQPYNQLA  193 (497)
T ss_dssp             -------------------------CCHHHHHH---HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTBSHHHHHHH
T ss_pred             hhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCCC---HHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCchHHHHHHH
Confidence            345556666666666677766666555443321   13455666677777777777777777766643 22456677777


Q ss_pred             HHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcccc
Q 046446          179 HGFIRINEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEIS  222 (244)
Q Consensus       179 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  222 (244)
                      ..+...|+..+|...|.+..... .|-..++..|...+.+....
T Consensus       194 ~~~~~~~~~~~A~~~y~ral~~~-~~~~~a~~nL~~~~~~~~~~  236 (497)
T d1ya0a1         194 ILASSKGDHLTTIFYYCRSIAVK-FPFPAASTNLQKALSKALES  236 (497)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHSSS-BCCHHHHHHHHHHHHHHTTS
T ss_pred             HHHHHcCCHHHHHHHHHHHHhCC-CCCHHHHHHHHHHHHHhhhh
Confidence            77777777777777777766553 34556666666666554433

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=98.25  E-value=1.9e-05  Score=52.43  Aligned_cols=73  Identities=11%  Similarity=0.131  Sum_probs=51.1

Q ss_pred             HHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHH-----HcCCCCcHhHH
Q 046446          101 IQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDME-----ENAVAPNVITF  174 (244)
Q Consensus       101 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~-----~~~~~p~~~~~  174 (244)
                      ...+..+...+...|++++|...++++.... +-+...|..++.++.+.|+..+|++.|+.+.     +.|+.|...+-
T Consensus        67 ~~a~~~la~~~~~~g~~~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l~  144 (179)
T d2ff4a2          67 VLAHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLR  144 (179)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHH
T ss_pred             HHHHHHHHHHHHHCCCchHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHHH
Confidence            3456667777777777777777777776654 4567777777777777777777777777653     35777776543

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=98.25  E-value=2.1e-05  Score=52.15  Aligned_cols=123  Identities=9%  Similarity=0.024  Sum_probs=82.2

Q ss_pred             HHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCCh
Q 046446           73 IDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQM  152 (244)
Q Consensus        73 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~  152 (244)
                      .......|++++|.+.|.+.....  +....     ..+ ..+.+  +...-..+..    .....+..+...+...|++
T Consensus        18 g~~~~~~g~~e~A~~~~~~AL~l~--rG~~l-----~~~-~~~~w--~~~~r~~l~~----~~~~a~~~la~~~~~~g~~   83 (179)
T d2ff4a2          18 GVHAAAAGRFEQASRHLSAALREW--RGPVL-----DDL-RDFQF--VEPFATALVE----DKVLAHTAKAEAEIACGRA   83 (179)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTTC--CSSTT-----GGG-TTSTT--HHHHHHHHHH----HHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhC--ccccc-----ccC-cchHH--HHHHHHHHHH----HHHHHHHHHHHHHHHCCCc
Confidence            345667788888888888777542  11100     000 00110  1111111111    1345778889999999999


Q ss_pred             HHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHH-----CCCCCChhhHH
Q 046446          153 DKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKE-----KNVMPDASIVS  210 (244)
Q Consensus       153 ~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-----~~~~~~~~~~~  210 (244)
                      ++|...++.+.+... -+...|..++.++.+.|+..+|.+.|+++..     .|+.|+..+-.
T Consensus        84 ~~Al~~~~~al~~~P-~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l~~  145 (179)
T d2ff4a2          84 SAVIAELEALTFEHP-YREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRA  145 (179)
T ss_dssp             HHHHHHHHHHHHHST-TCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHH
T ss_pred             hHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHHHH
Confidence            999999999887643 4788899999999999999999999998753     58999876644

>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=98.24  E-value=2.8e-05  Score=51.00  Aligned_cols=28  Identities=14%  Similarity=-0.008  Sum_probs=22.1

Q ss_pred             hHHHHHHHHHHhCCcHHHHHHHHHHHHH
Q 046446           67 RTYTIFIDGLCKNGYIVESVELFRTLRI   94 (244)
Q Consensus        67 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~   94 (244)
                      ..+......+.+.|++.+|...|++...
T Consensus        16 ~~~~e~G~~~~~~~~~~~A~~~Y~~al~   43 (168)
T d1kt1a1          16 AIVKEKGTVYFKGGKYVQAVIQYGKIVS   43 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3455667788899999999999988664

>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=2.5e-05  Score=49.89  Aligned_cols=32  Identities=16%  Similarity=0.223  Sum_probs=15.8

Q ss_pred             HHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcC
Q 046446           82 IVESVELFRTLRILKCELDIQAYSCLIDGLCKS  114 (244)
Q Consensus        82 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~  114 (244)
                      +++|++.|++..+.+ |.+..+|..+..+|...
T Consensus        57 ~~~Ai~~~~kAl~l~-P~~~~a~~~lG~~y~~~   88 (145)
T d1zu2a1          57 IQEAITKFEEALLID-PKKDEAVWCIGNAYTSF   88 (145)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhc-chhhHHHhhHHHHHHHc
Confidence            345555555555544 34445555555555443

>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=98.11  E-value=2.8e-06  Score=60.24  Aligned_cols=123  Identities=15%  Similarity=0.027  Sum_probs=83.9

Q ss_pred             HHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHH
Q 046446           76 LCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKA  155 (244)
Q Consensus        76 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a  155 (244)
                      ..+.|++++|++.+++..+.. |.+...+..+...++..|++++|...++...+.. +-+...+..+...+...+..+++
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 ALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKLF-PEYLPGASQLRHLVKAAQARKDF   83 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHhccccHHH
Confidence            446799999999999999886 6789999999999999999999999999988763 22344555554444433333322


Q ss_pred             HHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 046446          156 HDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEK  200 (244)
Q Consensus       156 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  200 (244)
                      ..-.......+-+++...+......+...|+.++|.+.+.++.+.
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            211111011111222333444456677889999999999998765

>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=98.10  E-value=1.3e-05  Score=51.26  Aligned_cols=78  Identities=10%  Similarity=0.014  Sum_probs=46.5

Q ss_pred             CCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCC-----------hHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHh
Q 046446          115 GRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQ-----------MDKAHDLFLDMEENAVAPNVITFGTLIHGFIR  183 (244)
Q Consensus       115 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~-----------~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~  183 (244)
                      +.+++|...|++..+.+ +.+..+|..+..+|...|+           +++|.+.|+...+.  .|+...|...+..+  
T Consensus        55 ~~~~~Ai~~~~kAl~l~-P~~~~a~~~lG~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~l--~P~~~~~~~~L~~~--  129 (145)
T d1zu2a1          55 QMIQEAITKFEEALLID-PKKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVDE--QPDNTHYLKSLEMT--  129 (145)
T ss_dssp             HHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHH--
T ss_pred             HHHHHHHHHHHHHHHhc-chhhHHHhhHHHHHHHcccchhhHHHHHHhHHHhhhhhhccccc--CCCHHHHHHHHHHH--
Confidence            34567888888877654 4467788888777766543           46666666666653  45555554444333  


Q ss_pred             cCChhHHHHHHHHHHHCC
Q 046446          184 INEPSKVIELLHKMKEKN  201 (244)
Q Consensus       184 ~g~~~~a~~~~~~~~~~~  201 (244)
                          .++.+++.+..+.|
T Consensus       130 ----~ka~~~~~e~~k~~  143 (145)
T d1zu2a1         130 ----AKAPQLHAEAYKQG  143 (145)
T ss_dssp             ----HTHHHHHHHHHHSS
T ss_pred             ----HHHHHHHHHHHHHh
Confidence                34455555555544

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.01  E-value=8.3e-06  Score=63.36  Aligned_cols=110  Identities=10%  Similarity=-0.110  Sum_probs=57.7

Q ss_pred             HHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHc
Q 046446           34 HNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQAYSCLIDGLCK  113 (244)
Q Consensus        34 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~  113 (244)
                      +..+...+.+.|+.+.|...++......   ...++..+...+...|++++|...|++..+.. |-+...|+.|...+..
T Consensus       123 ~~~lg~~~~~~~~~~~A~~~~~~al~~~---~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~-P~~~~~~~~Lg~~~~~  198 (497)
T d1ya0a1         123 SSQLGIISNKQTHTSAIVKPQSSSCSYI---CQHCLVHLGDIARYRNQTSQAESYYRHAAQLV-PSNGQPYNQLAILASS  198 (497)
T ss_dssp             --------------------CCHHHHHH---HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTBSHHHHHHHHHHHH
T ss_pred             HHHhHHHHHhCCCHHHHHHHHHHHhCCC---HHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCchHHHHHHHHHHHH
Confidence            3333344444444444444444333211   12455566677777777777777777777665 4566677777777777


Q ss_pred             CCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHc
Q 046446          114 SGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYN  148 (244)
Q Consensus       114 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  148 (244)
                      .|+..+|...|.+..... +|...++..|...+.+
T Consensus       199 ~~~~~~A~~~y~ral~~~-~~~~~a~~nL~~~~~~  232 (497)
T d1ya0a1         199 KGDHLTTIFYYCRSIAVK-FPFPAASTNLQKALSK  232 (497)
T ss_dssp             TTCHHHHHHHHHHHHSSS-BCCHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHhCC-CCCHHHHHHHHHHHHH
Confidence            777777777777766654 4566667776666554

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.98  E-value=0.0012  Score=47.94  Aligned_cols=127  Identities=13%  Similarity=0.023  Sum_probs=69.7

Q ss_pred             hhhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcH
Q 046446            3 INGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYI   82 (244)
Q Consensus         3 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~   82 (244)
                      .+.|.+.|.++.|..+|..+.         -|..++..+.+.++++.|.+++.+.      -+..+|..+...+.+....
T Consensus        21 ~~~c~~~~lye~A~~lY~~~~---------d~~rl~~~~v~l~~~~~avd~~~k~------~~~~~~k~~~~~l~~~~e~   85 (336)
T d1b89a_          21 GDRCYDEKMYDAAKLLYNNVS---------NFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEF   85 (336)
T ss_dssp             --------CTTTHHHHHHHTT---------CHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHCCCHHHHHHHHHhCC---------CHHHHHHHHHhhccHHHHHHHHHHc------CCHHHHHHHHHHHHhCcHH
Confidence            345667788888888886433         3556666777777777777766433      1455666666666665544


Q ss_pred             HHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccC
Q 046446           83 VESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDG  150 (244)
Q Consensus        83 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~  150 (244)
                      ..+     .+.......+......++..|-..|.+++...+++...... .++...++.++..|++.+
T Consensus        86 ~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~-~~~~~~~~~L~~lyak~~  147 (336)
T d1b89a_          86 RLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFK  147 (336)
T ss_dssp             HHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTC
T ss_pred             HHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCC-ccchHHHHHHHHHHHHhC
Confidence            332     11122223344444566677777777777777777654332 345556666666666643

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.89  E-value=0.0019  Score=46.95  Aligned_cols=178  Identities=9%  Similarity=0.032  Sum_probs=104.7

Q ss_pred             hhhhhhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhCCcH
Q 046446            3 INGYCKNKEIEGALNLYSEMLSKGIKPDVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCKNGYI   82 (244)
Q Consensus         3 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~   82 (244)
                      +..+.+.+++..|.+++...      -+..+|..+...+.+......+     .+.......++.....++..|-..|.+
T Consensus        47 ~~~~v~l~~~~~avd~~~k~------~~~~~~k~~~~~l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~  115 (336)
T d1b89a_          47 ASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYF  115 (336)
T ss_dssp             HHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHhhccHHHHHHHHHHc------CCHHHHHHHHHHHHhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCCh
Confidence            44555666666666655432      2566777777777776655432     233334455667777899999999999


Q ss_pred             HHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccH--------HHHHHHHHHHHccCChHH
Q 046446           83 VESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADV--------VTYSIMIHGLYNDGQMDK  154 (244)
Q Consensus        83 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~--------~~~~~li~~~~~~~~~~~  154 (244)
                      ++...+++...... +.+...++.++..|++.+. ++..+.++..... +.+..        ..|.-++..|.+.|+++.
T Consensus       116 e~Li~~Le~~~~~~-~~~~~~~~~L~~lyak~~~-~kl~e~l~~~s~~-y~~~k~~~~c~~~~l~~elv~Ly~~~~~~~~  192 (336)
T d1b89a_         116 EELITMLEAALGLE-RAHMGMFTELAILYSKFKP-QKMREHLELFWSR-VNIPKVLRAAEQAHLWAELVFLYDKYEEYDN  192 (336)
T ss_dssp             HHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTCH-HHHHHHHHHHSTT-SCHHHHHHHHHTTTCHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHcCC-ccchHHHHHHHHHHHHhCh-HHHHHHHHhcccc-CCHHHHHHHHHHcCChHHHHHHHHhcCCHHH
Confidence            99999999876432 5677888999999998654 4444555443221 11111        124556666666777766


Q ss_pred             HHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHH
Q 046446          155 AHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKE  199 (244)
Q Consensus       155 a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  199 (244)
                      |..+.-   ++  .++..-....+..+.+..+++...++.....+
T Consensus       193 A~~~~i---~~--~~~~~~~~~f~e~~~k~~N~e~~~~~i~~yL~  232 (336)
T d1b89a_         193 AIITMM---NH--PTDAWKEGQFKDIITKVANVELYYRAIQFYLE  232 (336)
T ss_dssp             HHHHHH---HS--TTTTCCHHHHHHHHHHCSSTHHHHHHHHHHHH
T ss_pred             HHHHHH---Hc--chhhhhHHHHHHHHHccCChHHHHHHHHHHHH
Confidence            654432   21  12222233344555555555555554444433

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.77  E-value=0.00027  Score=41.26  Aligned_cols=77  Identities=12%  Similarity=-0.003  Sum_probs=48.8

Q ss_pred             ChhhHHHHHHHHhhhchHHHHHHHHHHHHHcC-----CCCC-hhHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCccHHh
Q 046446           30 DVVIHNTLFIGLFEIHQVERAFKLFDEMQRDG-----VAAD-TRTYTIFIDGLCKNGYIVESVELFRTLRILKCELDIQA  103 (244)
Q Consensus        30 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-----~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  103 (244)
                      +...+-.+...+.+.|+++.|...|++..+..     ..++ ..+++.+..++.+.|++++|+..+++..+.. |-+..+
T Consensus         4 saddc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~-P~~~~a   82 (95)
T d1tjca_           4 TAEDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELD-PEHQRA   82 (95)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHH
T ss_pred             cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhC-cCCHHH
Confidence            34445566667777788888888777765431     1111 3567777777777888888888887777765 334444


Q ss_pred             HHHH
Q 046446          104 YSCL  107 (244)
Q Consensus       104 ~~~l  107 (244)
                      ++.+
T Consensus        83 ~~Nl   86 (95)
T d1tjca_          83 NGNL   86 (95)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            4443

>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=97.76  E-value=0.00049  Score=44.18  Aligned_cols=55  Identities=5%  Similarity=-0.149  Sum_probs=29.8

Q ss_pred             HHHhhhchHHHHHHHHHHHHHcCC-CCC----------hhHHHHHHHHHHhCCcHHHHHHHHHHHH
Q 046446           39 IGLFEIHQVERAFKLFDEMQRDGV-AAD----------TRTYTIFIDGLCKNGYIVESVELFRTLR   93 (244)
Q Consensus        39 ~~~~~~~~~~~a~~~~~~m~~~~~-~~~----------~~~~~~ll~~~~~~~~~~~a~~~~~~~~   93 (244)
                      ..+...|++++|+..|++..+... .|+          ...|+.+..+|...|++++|.+.+++..
T Consensus        17 ~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al   82 (156)
T d2hr2a1          17 QRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKAL   82 (156)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhh
Confidence            344455667777777766654311 011          2345555666666666666666555544

>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=97.70  E-value=0.00025  Score=45.65  Aligned_cols=96  Identities=15%  Similarity=-0.000  Sum_probs=49.8

Q ss_pred             HHHHH--HHHHHhCCcHHHHHHHHHHHHHhCCC-c----------cHHhHHHHHHHHHcCCCHHHHHHHHHhcccC----
Q 046446           68 TYTIF--IDGLCKNGYIVESVELFRTLRILKCE-L----------DIQAYSCLIDGLCKSGRLEIALELFHSLPRG----  130 (244)
Q Consensus        68 ~~~~l--l~~~~~~~~~~~a~~~~~~~~~~~~~-~----------~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----  130 (244)
                      +|..+  ...+.+.|++++|++.|++..+.... |          ....|+.+..+|...|++++|...+++....    
T Consensus         9 a~~~l~~g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~   88 (156)
T d2hr2a1           9 AYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRR   88 (156)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhccccc
Confidence            44444  34455667788888888777653211 1          1244566666666666666666655554321    


Q ss_pred             -Cccc-----cHHHHHHHHHHHHccCChHHHHHHHHHHH
Q 046446          131 -VLVA-----DVVTYSIMIHGLYNDGQMDKAHDLFLDME  163 (244)
Q Consensus       131 -~~~~-----~~~~~~~li~~~~~~~~~~~a~~~~~~~~  163 (244)
                       ...+     ....++.+..+|...|++++|...|+...
T Consensus        89 ~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al  127 (156)
T d2hr2a1          89 GELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVV  127 (156)
T ss_dssp             CCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             ccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHH
Confidence             0001     11234444555555555555555555543

>d1ouva_ a.118.18.1 (A:) Cysteine rich protein C (HcpC) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein C (HcpC)
species: Helicobacter pylori [TaxId: 210]

Probab=97.69  E-value=0.0032  Score=43.83  Aligned_cols=191  Identities=9%  Similarity=-0.051  Sum_probs=127.8

Q ss_pred             ChhhHHHHHHHHhhhchHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHh----CCcHHHHHHHHHHHHHhCCCccHHhHH
Q 046446           30 DVVIHNTLFIGLFEIHQVERAFKLFDEMQRDGVAADTRTYTIFIDGLCK----NGYIVESVELFRTLRILKCELDIQAYS  105 (244)
Q Consensus        30 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~  105 (244)
                      |+..+..|...+.+.+++++|+++|++..+.|   +...+..|...|..    ..+...+...++...+.+.   .....
T Consensus         1 ~p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~~---~~a~~   74 (265)
T d1ouva_           1 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLNY---SNGCH   74 (265)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC---HHHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhcccccccc---cchhh
Confidence            34566677777888899999999999998876   56677778787776    5688999999998887663   33334


Q ss_pred             HHHHHHH----cCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHH----ccCChHHHHHHHHHHHHcCCCCcHhHHHHH
Q 046446          106 CLIDGLC----KSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLY----NDGQMDKAHDLFLDMEENAVAPNVITFGTL  177 (244)
Q Consensus       106 ~ll~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~----~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l  177 (244)
                      .+...+.    ...+.+.|...++.....|.   ......+...+.    .......+...+......   .+...+..+
T Consensus        75 ~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~---~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~L  148 (265)
T d1ouva_          75 LLGNLYYSGQGVSQNTNKALQYYSKACDLKY---AEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDL---NDGDGCTIL  148 (265)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT---TCHHHHHHH
T ss_pred             ccccccccccccchhhHHHHHHHhhhhhhhh---hhHHHhhcccccCCCcccchhHHHHHHhhhhhcc---cccchhhhh
Confidence            4444443    24678899999998887762   222233333332    244566677777666553   466667777


Q ss_pred             HHHHHh----cCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHh----ccccccchhhhhhhhhh
Q 046446          178 IHGFIR----INEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAK----NEISLNSLPSFTVHERQ  235 (244)
Q Consensus       178 ~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~  235 (244)
                      ...+..    ..+...+..+++...+.|   +......+...|..    ..+.++|+..|+...+.
T Consensus       149 ~~~~~~~~~~~~~~~~~~~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~  211 (265)
T d1ouva_         149 GSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACEL  211 (265)
T ss_dssp             HHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHT
T ss_pred             hhhhccCCCcccccccchhhhhcccccc---ccccccchhhhcccCcccccchhhhhhhHhhhhcc
Confidence            777764    456667777777777765   45555556555654    34667778888766554

>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=97.56  E-value=0.00032  Score=40.89  Aligned_cols=66  Identities=11%  Similarity=-0.061  Sum_probs=43.2

Q ss_pred             ChhHHHHHHHHHHhCCcHHHHHHHHHHHHHhC------CCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccC
Q 046446           65 DTRTYTIFIDGLCKNGYIVESVELFRTLRILK------CELDIQAYSCLIDGLCKSGRLEIALELFHSLPRG  130 (244)
Q Consensus        65 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  130 (244)
                      ++..+..+...+.+.|+++.|...|++..+..      ......+++.+..++.+.|++++|...++++.+.
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            44455567777778888888888877765431      0111345666777777777777777777776655

>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=97.11  E-value=0.01  Score=36.53  Aligned_cols=15  Identities=7%  Similarity=0.184  Sum_probs=6.7

Q ss_pred             hHHHHHHHHHHHHHc
Q 046446           46 QVERAFKLFDEMQRD   60 (244)
Q Consensus        46 ~~~~a~~~~~~m~~~   60 (244)
                      ++++|+.+|++..+.
T Consensus         8 d~~~A~~~~~kaa~~   22 (133)
T d1klxa_           8 DLKKAIQYYVKACEL   22 (133)
T ss_dssp             HHHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHC
Confidence            344444444444443

>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=97.01  E-value=0.013  Score=36.04  Aligned_cols=111  Identities=6%  Similarity=-0.080  Sum_probs=76.7

Q ss_pred             cHHHHHHHHHHHHHhCCCccHHhHHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHc----cCChHHHH
Q 046446           81 YIVESVELFRTLRILKCELDIQAYSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYN----DGQMDKAH  156 (244)
Q Consensus        81 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~a~  156 (244)
                      |+++|.+.|++..+.|.+   .....|.  .....+.++|...+++..+.|   +......|...|..    ..+.++|.
T Consensus         8 d~~~A~~~~~kaa~~g~~---~a~~~l~--~~~~~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~A~   79 (133)
T d1klxa_           8 DLKKAIQYYVKACELNEM---FGCLSLV--SNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAA   79 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCT---THHHHHH--TCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCh---hhhhhhc--cccccCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHHHH
Confidence            678899999998887732   2222232  344567889999999887776   45556666666554    45788999


Q ss_pred             HHHHHHHHcCCCCcHhHHHHHHHHHHh----cCChhHHHHHHHHHHHCCC
Q 046446          157 DLFLDMEENAVAPNVITFGTLIHGFIR----INEPSKVIELLHKMKEKNV  202 (244)
Q Consensus       157 ~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~  202 (244)
                      ++|+...+.|   ++.....|...|..    ..+.++|.++|++..+.|.
T Consensus        80 ~~~~~aa~~g---~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G~  126 (133)
T d1klxa_          80 QYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  126 (133)
T ss_dssp             HHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHhhhhccC---cchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCCC
Confidence            9999888765   44445555555554    4578889999988887763

>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=96.11  E-value=0.058  Score=32.51  Aligned_cols=62  Identities=15%  Similarity=0.166  Sum_probs=27.3

Q ss_pred             HHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHHHCCC
Q 046446          140 SIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMKEKNV  202 (244)
Q Consensus       140 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  202 (244)
                      +..+.....+|+-+...++++.+.+. -.|++...-.+..+|.+.|...++.+++.+.-+.|+
T Consensus        90 dlALd~lv~~~kkd~Ld~i~~~l~kn-~~i~~~~llkia~A~kkig~~re~nell~~ACe~G~  151 (161)
T d1wy6a1          90 NKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKKGE  151 (161)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhH
Confidence            33344444444444444444443332 233444444444444444444444444444444443

>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=95.57  E-value=0.082  Score=30.09  Aligned_cols=46  Identities=11%  Similarity=0.154  Sum_probs=23.4

Q ss_pred             HHHHHHHHHHHHcCCCCcHhHHHHHHHHHHhcCChhHHHHHHHHHH
Q 046446          153 DKAHDLFLDMEENAVAPNVITFGTLIHGFIRINEPSKVIELLHKMK  198 (244)
Q Consensus       153 ~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  198 (244)
                      -++.+-++.+......|++....+.+++|.+.+++..|.++++-.+
T Consensus        23 we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK   68 (105)
T d1v54e_          23 WELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVK   68 (105)
T ss_dssp             HHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            3444444444444455555555555555555555555555555444

>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=95.01  E-value=0.13  Score=29.21  Aligned_cols=63  Identities=10%  Similarity=0.035  Sum_probs=46.9

Q ss_pred             CHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCcHhHHHHHHH
Q 046446          116 RLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAVAPNVITFGTLIH  179 (244)
Q Consensus       116 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  179 (244)
                      +.-+..+-+..+......|++....+.+.+|.+.+++..|.++|+..+.. ..++...|..++.
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K-~~~~k~~y~yilq   83 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQ   83 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCcHHHHHHHHH
Confidence            45567777777777888888888888899999999999999988887744 2234556665554

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=94.80  E-value=0.2  Score=30.17  Aligned_cols=62  Identities=13%  Similarity=0.130  Sum_probs=29.2

Q ss_pred             HHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChHHHHHHHHHHHHcCC
Q 046446          105 SCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMDKAHDLFLDMEENAV  167 (244)
Q Consensus       105 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~  167 (244)
                      ...++.....|.-++-.+++..+.+.+ .|++...-.+..+|.+.|...++.+++.+.-+.|.
T Consensus        90 dlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~ACe~G~  151 (161)
T d1wy6a1          90 NKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKKGE  151 (161)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhH
Confidence            333444444444444444544433322 34444445555555555555555555555544443

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.75  E-value=0.35  Score=28.93  Aligned_cols=19  Identities=26%  Similarity=0.322  Sum_probs=7.4

Q ss_pred             HHHcCCCHHHHHHHHHhcc
Q 046446          110 GLCKSGRLEIALELFHSLP  128 (244)
Q Consensus       110 ~~~~~~~~~~a~~~~~~~~  128 (244)
                      +|.+.|++++|.+.++.+.
T Consensus        82 ~yyklgdy~~A~~~~~~~L  100 (124)
T d2pqrb1          82 GCYKLGEYSMAKRYVDTLF  100 (124)
T ss_dssp             HHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHH
Confidence            3333344444443333333

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=91.88  E-value=0.7  Score=27.56  Aligned_cols=67  Identities=12%  Similarity=0.140  Sum_probs=48.1

Q ss_pred             CChhhHHHHHHHHh---hhchHHHHHHHHHHHHHcCCCCCh-hHHHHHHHHHHhCCcHHHHHHHHHHHHHhC
Q 046446           29 PDVVIHNTLFIGLF---EIHQVERAFKLFDEMQRDGVAADT-RTYTIFIDGLCKNGYIVESVELFRTLRILK   96 (244)
Q Consensus        29 ~~~~~~~~li~~~~---~~~~~~~a~~~~~~m~~~~~~~~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~   96 (244)
                      |+..+--...-++.   ...+.++++.++++..+.+ +.+. ..+..|.-+|.+.|+++.|.+.++.+.+..
T Consensus        33 ~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~-p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ie  103 (124)
T d2pqrb1          33 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEA-ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHE  103 (124)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             CCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcC-chhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHccC
Confidence            44444333333343   3467889999999998753 2233 566788889999999999999999999874

>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=84.78  E-value=2.7  Score=25.21  Aligned_cols=60  Identities=5%  Similarity=0.011  Sum_probs=37.3

Q ss_pred             HHHcCCCCcHhHHHHHHHHHHhc-CChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcccc
Q 046446          162 MEENAVAPNVITFGTLIHGFIRI-NEPSKVIELLHKMKEKNVMPDASIVSIVVDLLAKNEIS  222 (244)
Q Consensus       162 ~~~~~~~p~~~~~~~l~~~~~~~-g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  222 (244)
                      +.+.|++++.. -..++..+... +..-.|.++++.+.+.+..++..|.-..++.+.+.|-.
T Consensus         7 Lr~~GlR~T~q-R~~Il~~L~~~~~~h~sa~ei~~~l~~~~~~i~~aTVYR~L~~l~e~gli   67 (134)
T d1mzba_           7 LRKAGLKVTLP-RVKILQMLDSAEQRHMSAEDVYKALMEAGEDVGLATVYRVLTQFEAAGLV   67 (134)
T ss_dssp             HHHTTCCCCHH-HHHHHHHHHCC-CCSBCHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTSE
T ss_pred             HHHcCCCCCHH-HHHHHHHHHhCCCCCCCHHHHHHHHHHhCCCccHHHHHHHHHHHHhccEE
Confidence            55666666553 34445555544 34566777777777777666666666666666666655

>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=82.38  E-value=3.4  Score=24.63  Aligned_cols=65  Identities=15%  Similarity=0.172  Sum_probs=39.2

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHhcccCCccccHHHHHHHHHHHHccCChH--HHHHHHHHHHHcCCCC
Q 046446          104 YSCLIDGLCKSGRLEIALELFHSLPRGVLVADVVTYSIMIHGLYNDGQMD--KAHDLFLDMEENAVAP  169 (244)
Q Consensus       104 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~--~a~~~~~~~~~~~~~p  169 (244)
                      ...++.-|...|+.++|...++++...... ....+..+..+.-+.+...  .+..++..+...|+.+
T Consensus        10 ~~~ll~EY~~~~D~~Ea~~~l~eL~~p~~~-~e~V~~~i~~ale~~~~~r~~~~~~Ll~~L~~~~~is   76 (129)
T d2nsza1          10 IDMLLKEYLLSGDISEAEHCLKELEVPHFH-HELVYEAIVMVLESTGESAFKMILDLLKSLWKSSTIT   76 (129)
T ss_dssp             HHHHHHHHHHHCCHHHHHHHHHHHTCGGGH-HHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHTTCSC
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHcCCchhh-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHCCCCC
Confidence            566778888888888888888887543211 2344444444444544432  3466777777765543