Citrus Sinensis ID: 023915

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-----
Protein Sequence
MISAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSESISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTGQGYVVDSSTRNLILKNSHLFGRQLIADILSKQHMKSKSSKTLKE
Secondary Structure (PSIPRED)
cHHHHHccccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccc
Secondary Structure Prediction (SSPRO)
cccHHHccccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHcccccccHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccc
Coil and Loop (DISEMBL)
misafcrggcFEEAKQLAgdfeakydkYDVVLLNSMLCaycrtgdmeSVMHVMRKLDelaispdyntFHILIKYFCKEKMYILAYRTMVDmhrkghqpeeELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVkdnsesishpAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTgqgyvvdsstrnlilknsHLFGRQLIADILSKQhmkskssktlke
Flexible Loop (DISEMBL)
MISAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDnsesishpaIKKFASAFVRLGNINLVNDVMKAIHAtgyridqgIFHIAIARYIAEREKKELLLKLLEWMTGQGYVVDSSTRNLILKNSHLFGRQLIADilskqhmkskssktlke
Low Complexity Region (SEG)
MISAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSESISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAERekkelllklleWMTGQGYVVDSSTRNLILKNSHLFGRQLIADILSKQHMKSKSSKTLKE
Disordered region (IsUnstruct)
***AFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGH**EEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSESISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTGQGYVVDSSTRNLILKNSHLFGRQLIADIL***************
Disordered Region (DISOPRED)
MISAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSESISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTGQGYVVDSSTRNLILKNSHLFGRQLIADILSKQHMKSKSSKT***
Disordered Region (DISEMBL)
MISAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSESISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTGQGYVVDSSTRNLILKNSHLFGRQLIADILSK*************
Disordered Region (DISPRO)
MISAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSESISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTGQGYVVDSSTRNLILKNSHLFGRQLIADILSKQH***********
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MISAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSESISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTGQGYVVDSSTRNLILKNSHLFGRQLIADILSKQHMKSKSSKTLKE
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	275	2.2.26 [Sep-21-2011]
Q0WVV0	664	Pentatricopeptide repeat-	yes	no	0.963	0.399	0.695	1e-108
Q9CA58	763	Putative pentatricopeptid	no	no	0.861	0.310	0.237	9e-10
Q0WVK7	741	Pentatricopeptide repeat-	no	no	0.254	0.094	0.280	1e-08
Q9ZQF1	627	Pentatricopeptide repeat-	no	no	0.349	0.153	0.282	3e-08
Q6NQ83	619	Pentatricopeptide repeat-	no	no	0.88	0.390	0.192	5e-08
Q9SH60	666	Pentatricopeptide repeat-	no	no	0.869	0.358	0.210	6e-08
Q9FMF6	730	Pentatricopeptide repeat-	no	no	0.236	0.089	0.337	1e-07
Q5G1S8	1440	Pentatricopeptide repeat-	no	no	0.454	0.086	0.261	1e-07
O04491	607	Putative pentatricopeptid	no	no	0.923	0.418	0.198	2e-07
Q9LPX2	644	Pentatricopeptide repeat-	no	no	0.414	0.177	0.261	2e-07

>sp|Q0WVV0|PPR31_ARATH Pentatricopeptide repeat-containing protein At1g10910, chloroplastic OS=Arabidopsis thaliana GN=At1g10910 PE=2 SV=1

 Score =  389 bits (1000), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 187/269 (69%), Positives = 230/269 (85%)

Query: 1   MISAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA 60
           MISA CR   F+EAK+L+ D E  Y+K D+V+LN+MLCAYCR G+MESVM +M+K+DE A
Sbjct: 383 MISALCRSKRFKEAKELSRDSETTYEKCDLVMLNTMLCAYCRAGEMESVMRMMKKMDEQA 442

Query: 61  ISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEAL 120
           +SPDYNTFHILIKYF KEK+++LAY+T +DMH KGH+ EEELCSSLI+HLGK+RA +EA 
Sbjct: 443 VSPDYNTFHILIKYFIKEKLHLLAYQTTLDMHSKGHRLEEELCSSLIYHLGKIRAQAEAF 502

Query: 121 SVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSESISHPAIKKFASAFVRL 180
           SVYNMLRYSKR++CK LHEKILHILI G LLKDAY+VVKDN++ IS P +KKF  AF+  
Sbjct: 503 SVYNMLRYSKRTICKELHEKILHILIQGNLLKDAYIVVKDNAKMISQPTLKKFGRAFMIS 562

Query: 181 GNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTGQGYVVDSST 240
           GNINLVNDV+K +H +G++IDQ  F IAI+RYI++ +KKELLL+LL+WM GQGYVVDSST
Sbjct: 563 GNINLVNDVLKVLHGSGHKIDQVQFEIAISRYISQPDKKELLLQLLQWMPGQGYVVDSST 622

Query: 241 RNLILKNSHLFGRQLIADILSKQHMKSKS 269
           RNLILKNSH+FGR LIA+ILSK H+ S+ 
Sbjct: 623 RNLILKNSHMFGRLLIAEILSKHHVASRP 651

Arabidopsis thaliana (taxid: 3702)

>sp|Q9CA58|PP120_ARATH Putative pentatricopeptide repeat-containing protein At1g74580 OS=Arabidopsis thaliana GN=At1g74580 PE=3 SV=1

 Score = 64.3 bits (155), Expect = 9e-10,   Method: Compositional matrix adjust.
 Identities = 60/253 (23%), Positives = 114/253 (45%), Gaps = 16/253 (6%)

Query: 2   ISAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAI 61
           I   C+ G  + A ++ G    +  K DV+  N+++   C+    +     + K+    +
Sbjct: 258 IQGLCQRGELDGAVRMVGCLIEQGPKPDVITYNNLIYGLCKNSKFQEAEVYLGKMVNEGL 317

Query: 62  SPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALS 121
            PD  T++ LI  +CK  M  LA R + D    G  P++    SLI  L      + AL+
Sbjct: 318 EPDSYTYNTLIAGYCKGGMVQLAERIVGDAVFNGFVPDQFTYRSLIDGLCHEGETNRALA 377

Query: 122 VYNMLRYSKRSMCKALHEKIL--HILISG----KLLKDAYVVVKDNSESISHPAIKKF-- 173
           ++N       ++ K +   ++  + LI G     ++ +A  +  + SE    P ++ F  
Sbjct: 378 LFN------EALGKGIKPNVILYNTLIKGLSNQGMILEAAQLANEMSEKGLIPEVQTFNI 431

Query: 174 -ASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTGQ 232
             +   ++G ++  + ++K + + GY  D   F+I I  Y + + K E  L++L+ M   
Sbjct: 432 LVNGLCKMGCVSDADGLVKVMISKGYFPDIFTFNILIHGY-STQLKMENALEILDVMLDN 490

Query: 233 GYVVDSSTRNLIL 245
           G   D  T N +L
Sbjct: 491 GVDPDVYTYNSLL 503

Arabidopsis thaliana (taxid: 3702)

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

 Score = 60.5 bits (145), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 30/107 (28%), Positives = 56/107 (52%)

Query: 1   MISAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA 60
           +++  C+ G  EEA +L G+FEA     D V   +++ AYC++G+M+    +++++    
Sbjct: 497 IVNGLCKSGNIEEAVKLVGEFEAAGLNADTVTYTTLMDAYCKSGEMDKAQEILKEMLGKG 556

Query: 61  ISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLI 107
           + P   TF++L+  FC   M     + +  M  KG  P     +SL+
Sbjct: 557 LQPTIVTFNVLMNGFCLHGMLEDGEKLLNWMLAKGIAPNATTFNSLV 603

Arabidopsis thaliana (taxid: 3702)

>sp|Q9ZQF1|PP152_ARATH Pentatricopeptide repeat-containing protein At2g15630, mitochondrial OS=Arabidopsis thaliana GN=At2g15630 PE=3 SV=1

 Score = 59.3 bits (142), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 28/99 (28%), Positives = 56/99 (56%)

Query: 1   MISAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA 60
           +I   CR     EA +L      K  K D+V++N+++  +C  G+M+    +++++D ++
Sbjct: 438 LIYVLCRKNKTREADELFEKVVGKGMKPDLVMMNTLMDGHCAIGNMDRAFSLLKEMDMMS 497

Query: 61  ISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPE 99
           I+PD  T++ L++  C E  +  A   M +M R+G +P+
Sbjct: 498 INPDDVTYNCLMRGLCGEGKFEEARELMGEMKRRGIKPD 536

Arabidopsis thaliana (taxid: 3702)

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

 Score = 58.5 bits (140), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 48/250 (19%), Positives = 113/250 (45%), Gaps = 8/250 (3%)

Query: 1   MISAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA 60
           +I  FC+  C  EA Q+     +K  + D+V  + ++ +YC+   ++  M + R++    
Sbjct: 356 LIDGFCKENCLHEANQMFDLMVSKGCEPDIVTYSILINSYCKAKRVDDGMRLFREISSKG 415

Query: 61  ISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEAL 120
           + P+  T++ L+  FC+      A     +M  +G  P       L+  L      ++AL
Sbjct: 416 LIPNTITYNTLVLGFCQSGKLNAAKELFQEMVSRGVPPSVVTYGILLDGLCDNGELNKAL 475

Query: 121 SVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSESISHPAIKKF---ASAF 177
            ++  ++ S+ ++   ++  I+H + +   + DA+ +    S+    P +  +       
Sbjct: 476 EIFEKMQKSRMTLGIGIYNIIIHGMCNASKVDDAWSLFCSLSDKGVKPDVVTYNVMIGGL 535

Query: 178 VRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELL--LKLLEWMTGQGYV 235
            + G+++  + + + +   G   D   ++I I  ++       L+  ++L+E M   G+ 
Sbjct: 536 CKKGSLSEADMLFRKMKEDGCTPDDFTYNILIRAHLG---GSGLISSVELIEEMKVCGFS 592

Query: 236 VDSSTRNLIL 245
            DSST  +++
Sbjct: 593 ADSSTIKMVI 602

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SH60|PP103_ARATH Pentatricopeptide repeat-containing protein At1g64100 OS=Arabidopsis thaliana GN=At1g64100 PE=2 SV=2

 Score = 58.2 bits (139), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 52/247 (21%), Positives = 108/247 (43%), Gaps = 8/247 (3%)

Query: 1   MISAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA 60
           MI  FC+   F++AK +  D  A  D   VV  N+++  YCR   ++  M ++R++    
Sbjct: 407 MIYGFCKHNRFDDAKHMF-DLMASPD---VVTFNTIIDVYCRAKRVDEGMQLLREISRRG 462

Query: 61  ISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEAL 120
           +  +  T++ LI  FC+      A     +M   G  P+   C+ L++   +     EAL
Sbjct: 463 LVANTTTYNTLIHGFCEVDNLNAAQDLFQEMISHGVCPDTITCNILLYGFCENEKLEEAL 522

Query: 121 SVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSESISHPAIKKFA---SAF 177
            ++ +++ SK  +    +  I+H +  G  + +A+ +          P ++ +    S F
Sbjct: 523 ELFEVIQMSKIDLDTVAYNIIIHGMCKGSKVDEAWDLFCSLPIHGVEPDVQTYNVMISGF 582

Query: 178 VRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTGQGYVVD 237
                I+  N +   +   G+  D   ++  I R   +  + +  ++L+  M   G+  D
Sbjct: 583 CGKSAISDANVLFHKMKDNGHEPDNSTYNTLI-RGCLKAGEIDKSIELISEMRSNGFSGD 641

Query: 238 SSTRNLI 244
           + T  ++
Sbjct: 642 AFTIKMV 648

Arabidopsis thaliana (taxid: 3702)

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

 Score = 57.8 bits (138), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 26/77 (33%), Positives = 40/77 (51%)

Query: 1   MISAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA 60
           +I+  CR G  EEA +   +   +    D+V  NS++   CR G +E  + + RKL    
Sbjct: 605 LINGLCRSGMVEEAVEFQKEMVLRGSTPDIVTFNSLINGLCRAGRIEDGLTMFRKLQAEG 664

Query: 61  ISPDYNTFHILIKYFCK 77
           I PD  TF+ L+ + CK
Sbjct: 665 IPPDTVTFNTLMSWLCK 681

Arabidopsis thaliana (taxid: 3702)

>sp|Q5G1S8|PP241_ARATH Pentatricopeptide repeat-containing protein At3g18110, chloroplastic OS=Arabidopsis thaliana GN=EMB1270 PE=2 SV=2

 Score = 57.4 bits (137), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 33/126 (26%), Positives = 59/126 (46%)

Query: 1    MISAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA 60
            MI   C+G    +A+ +  + E    K ++ + NSML  Y    D +  + V +++ E  
Sbjct: 898  MIELLCKGKRVRDAEIMVSEMEEANFKVELAIWNSMLKMYTAIEDYKKTVQVYQRIKETG 957

Query: 61   ISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEAL 120
            + PD  T++ LI  +C+++     Y  M  M   G  P+ +   SLI   GK +   +A 
Sbjct: 958  LEPDETTYNTLIIMYCRDRRPEEGYLLMQQMRNLGLDPKLDTYKSLISAFGKQKCLEQAE 1017

Query: 121  SVYNML 126
             ++  L
Sbjct: 1018 QLFEEL 1023

May play a role in embryogenesis.

Arabidopsis thaliana (taxid: 3702)

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

 Score = 56.2 bits (134), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 60/303 (19%), Positives = 122/303 (40%), Gaps = 49/303 (16%)

Query: 1   MISAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA 60
           +++ FC+ G   +A+++  +   +  +  VV  N+++  YC+ G+++    +  ++++  
Sbjct: 246 LMNKFCKEGNISDAQKVFDEITKRSLQPTVVSFNTLINGYCKVGNLDEGFRLKHQMEKSR 305

Query: 61  ISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEAL 120
             PD  T+  LI   CKE     A+    +M ++G  P + + ++LI        HS   
Sbjct: 306 TRPDVFTYSALINALCKENKMDGAHGLFDEMCKRGLIPNDVIFTTLI------HGHSRNG 359

Query: 121 SVYNMLRYSKRSMCKALHEKIL--HILISGKLLKDAYVVVKDNSESISHPAIKK------ 172
            +  M    ++ + K L   I+  + L++G       V  ++  + +    ++       
Sbjct: 360 EIDLMKESYQKMLSKGLQPDIVLYNTLVNGFCKNGDLVAARNIVDGMIRRGLRPDKITYT 419

Query: 173 -FASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAI------ARYI-AEREKKELL-- 222
                F R G++    ++ K +   G  +D+  F   +       R I AER  +E+L  
Sbjct: 420 TLIDGFCRGGDVETALEIRKEMDQNGIELDRVGFSALVCGMCKEGRVIDAERALREMLRA 479

Query: 223 -------------------------LKLLEWMTGQGYVVDSSTRNLILKNSHLFGRQLIA 257
                                     KLL+ M   G+V    T N++L      G+   A
Sbjct: 480 GIKPDDVTYTMMMDAFCKKGDAQTGFKLLKEMQSDGHVPSVVTYNVLLNGLCKLGQMKNA 539

Query: 258 DIL 260
           D+L
Sbjct: 540 DML 542

Arabidopsis thaliana (taxid: 3702)

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

 Score = 56.2 bits (134), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 33/126 (26%), Positives = 61/126 (48%)

Query: 1   MISAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA 60
           +I   C+ G  + A  L  + E K  K D++  N+++  +C  G  +    ++R + +  
Sbjct: 269 IIDGLCKDGSLDNAFNLFNEMEIKGFKADIITYNTLIGGFCNAGRWDDGAKLLRDMIKRK 328

Query: 61  ISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEAL 120
           ISP+  TF +LI  F KE     A + + +M ++G  P     +SLI    K     EA+
Sbjct: 329 ISPNVVTFSVLIDSFVKEGKLREADQLLKEMMQRGIAPNTITYNSLIDGFCKENRLEEAI 388

Query: 121 SVYNML 126
            + +++
Sbjct: 389 QMVDLM 394

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	275
359486048	659	PREDICTED: pentatricopeptide repeat-cont	0.978	0.408	0.784	1e-124
224058965	562	predicted protein [Populus trichocarpa]	0.989	0.483	0.775	1e-124
255576798	672	pentatricopeptide repeat-containing prot	0.992	0.406	0.752	1e-122
449446895	668	PREDICTED: pentatricopeptide repeat-cont	0.978	0.402	0.742	1e-120
357445509	627	Pentatricopeptide repeat-containing prot	0.963	0.422	0.702	1e-115
356525958	630	PREDICTED: pentatricopeptide repeat-cont	0.974	0.425	0.712	1e-114
145335386	664	pentatricopeptide repeat-containing prot	0.963	0.399	0.695	1e-106
297843920	665	hypothetical protein ARALYDRAFT_888388 [	0.96	0.396	0.696	1e-104
1931651	652	membrane-associated salt-inducible prote	0.934	0.394	0.654	2e-96
224073298	378	predicted protein [Populus trichocarpa]	0.741	0.539	0.779	9e-94

>gi|359486048|ref|XP_002270184.2| PREDICTED: pentatricopeptide repeat-containing protein At1g10910, chloroplastic [Vitis vinifera] gi|298204537|emb|CBI23812.3| unnamed protein product [Vitis vinifera]

 Score =  451 bits (1160), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 211/269 (78%), Positives = 245/269 (91%)

Query: 1   MISAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA 60
           MISAFCR G  +EAKQLA DFEA YDKYD+V+LN+MLCAYCR G+MESVM +MRK+DELA
Sbjct: 387 MISAFCRSGLLKEAKQLARDFEATYDKYDLVMLNTMLCAYCRAGEMESVMQMMRKMDELA 446

Query: 61  ISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEAL 120
           ISPD+NTFHILIKYFCKEK+Y+LAYRTM DMH KGHQPEEELCSSLI HLGK+RAHS+A 
Sbjct: 447 ISPDWNTFHILIKYFCKEKLYLLAYRTMEDMHNKGHQPEEELCSSLISHLGKIRAHSQAF 506

Query: 121 SVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSESISHPAIKKFASAFVRL 180
           SVYNMLRYSKR+MCKALHEKILHIL++G+LLKDAYVVVKDN   IS P+IKKFA+AF++ 
Sbjct: 507 SVYNMLRYSKRTMCKALHEKILHILVAGRLLKDAYVVVKDNEGLISKPSIKKFATAFMKF 566

Query: 181 GNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTGQGYVVDSST 240
           GN+NL+NDVMKAIH +GY+IDQ +F +A+ RYIAE EKKELLL LL+WM GQGYVVDSST
Sbjct: 567 GNVNLINDVMKAIHGSGYKIDQELFQMAVTRYIAEPEKKELLLHLLQWMPGQGYVVDSST 626

Query: 241 RNLILKNSHLFGRQLIADILSKQHMKSKS 269
           RN+ILKNSHLFGRQLIA++LSKQH ++K+
Sbjct: 627 RNMILKNSHLFGRQLIAEMLSKQHARAKA 655

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224058965|ref|XP_002299667.1| predicted protein [Populus trichocarpa] gi|222846925|gb|EEE84472.1| predicted protein [Populus trichocarpa]

 Score =  451 bits (1160), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 211/272 (77%), Positives = 247/272 (90%)

Query: 1   MISAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA 60
           MIS+FCRGG FEEAK+LA +FEAKYDKYDVV+LN++LCAYCRTG+ ESVM  MRK+DELA
Sbjct: 290 MISSFCRGGLFEEAKELAEEFEAKYDKYDVVILNTILCAYCRTGEKESVMRTMRKMDELA 349

Query: 61  ISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEAL 120
           ISPDYNTFHILIKYFCKEK+Y+LAY+TM DMHRKGHQP EELCSSLI HLGK++AH+EA 
Sbjct: 350 ISPDYNTFHILIKYFCKEKLYMLAYQTMEDMHRKGHQPMEELCSSLILHLGKIKAHAEAF 409

Query: 121 SVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSESISHPAIKKFASAFVRL 180
           SVY+ML+ SKR+M KA HE ILHILI+G+LLKDAYVVVKDN+E IS  AIKKFAS+FV+L
Sbjct: 410 SVYSMLKSSKRTMSKAFHEDILHILIAGRLLKDAYVVVKDNAELISPAAIKKFASSFVKL 469

Query: 181 GNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTGQGYVVDSST 240
           G+INL+NDVMK IH +GY+IDQ +F +A++RYIAE EKK+LL++LL+WM GQGYVVDSST
Sbjct: 470 GDINLINDVMKVIHGSGYKIDQELFLMAVSRYIAEPEKKDLLIQLLQWMPGQGYVVDSST 529

Query: 241 RNLILKNSHLFGRQLIADILSKQHMKSKSSKT 272
           RNLILKNSHLFGRQLIA+ILSKQHM SK+ K 
Sbjct: 530 RNLILKNSHLFGRQLIAEILSKQHMTSKALKA 561

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255576798|ref|XP_002529286.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223531275|gb|EEF33118.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  444 bits (1143), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 207/275 (75%), Positives = 246/275 (89%), Gaps = 2/275 (0%)

Query: 1   MISAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA 60
           MISA+CRG   EEAKQLA +FEAKYDKYDVV+LN+MLCAYCR GDMESVM  MRK+DELA
Sbjct: 398 MISAYCRGRLLEEAKQLAKEFEAKYDKYDVVILNTMLCAYCRAGDMESVMQTMRKMDELA 457

Query: 61  ISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEAL 120
           ISP Y TFHILIKYFCK+K+Y+LAY+TM DMHRKGHQPEEELCS LIFHLGK +A++EA 
Sbjct: 458 ISPSYCTFHILIKYFCKQKLYLLAYQTMEDMHRKGHQPEEELCSMLIFHLGKAKAYTEAF 517

Query: 121 SVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSESISHPAIKKFASAFVRL 180
           SVY ML+Y KR+MCKALHEKILH+L+ G+LLKDAYVVVKDN+E IS  AIKKFA+AF++L
Sbjct: 518 SVYTMLKYGKRTMCKALHEKILHVLLGGQLLKDAYVVVKDNAELISQAAIKKFANAFMKL 577

Query: 181 GNINLVNDVMKAIHATGYRIDQG--IFHIAIARYIAEREKKELLLKLLEWMTGQGYVVDS 238
           GNINL+NDVMK IH++GY+IDQ   +F +AI+RYIA+ EKK+LL++LL+WM G GYVVD+
Sbjct: 578 GNINLINDVMKVIHSSGYKIDQASELFQMAISRYIAQPEKKDLLVQLLQWMPGHGYVVDA 637

Query: 239 STRNLILKNSHLFGRQLIADILSKQHMKSKSSKTL 273
           STRNLILK+SHLFGRQLIA+ILSKQH+ SK+ K+L
Sbjct: 638 STRNLILKSSHLFGRQLIAEILSKQHIISKTLKSL 672

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449446895|ref|XP_004141206.1| PREDICTED: pentatricopeptide repeat-containing protein At1g10910, chloroplastic-like [Cucumis sativus]

 Score =  436 bits (1122), Expect = e-120,   Method: Compositional matrix adjust.
 Identities = 202/272 (74%), Positives = 240/272 (88%)

Query: 1   MISAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA 60
           MISAFCRGG  EEAK LA DFEA YD+YD+V+LN+MLCAYCR G+MESVM ++RK+D+LA
Sbjct: 389 MISAFCRGGLLEEAKLLAKDFEATYDRYDIVILNTMLCAYCRAGEMESVMQMLRKMDDLA 448

Query: 61  ISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEAL 120
           ISPDYNTFHILIKYF KEK+Y+L YRT+ DMHRKGHQPEEELCSSLI  LG +RA+SEA 
Sbjct: 449 ISPDYNTFHILIKYFFKEKLYLLCYRTLEDMHRKGHQPEEELCSSLILSLGNIRAYSEAF 508

Query: 121 SVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSESISHPAIKKFASAFVRL 180
           SVYN+L+YSKR+MCKALHEKILHILI+G+LLKDAYVVVKDN+  IS PAI+KFA  F++ 
Sbjct: 509 SVYNILKYSKRTMCKALHEKILHILIAGRLLKDAYVVVKDNAGVISKPAIRKFAFGFMKF 568

Query: 181 GNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTGQGYVVDSST 240
           GN+NL+NDVMKAIH +GY+IDQ +F IA +RYI   EKK+L ++LL+WM GQGYVVDSST
Sbjct: 569 GNVNLINDVMKAIHGSGYKIDQDLFMIATSRYIELPEKKDLFIQLLKWMPGQGYVVDSST 628

Query: 241 RNLILKNSHLFGRQLIADILSKQHMKSKSSKT 272
           RNLILKN+HLFGRQLIA+ILSK  + SKS+K+
Sbjct: 629 RNLILKNAHLFGRQLIAEILSKHSLLSKSTKS 660

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357445509|ref|XP_003593032.1| Pentatricopeptide repeat-containing protein [Medicago truncatula] gi|355482080|gb|AES63283.1| Pentatricopeptide repeat-containing protein [Medicago truncatula]

 Score =  421 bits (1083), Expect = e-115,   Method: Compositional matrix adjust.
 Identities = 191/272 (70%), Positives = 235/272 (86%)

Query: 1   MISAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA 60
           +ISAFCR   F+EAKQLA DF+  +DKYDVV++NSMLCA+CR G+MESVM  +RK+DELA
Sbjct: 355 IISAFCRAKLFQEAKQLAKDFQTTFDKYDVVIMNSMLCAFCRAGEMESVMETLRKMDELA 414

Query: 61  ISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEAL 120
           ISPDYNTF+ILIKYFC++ MY+LAYRT +DMH KG+QP EELCSSLI+HLG+  A SEA 
Sbjct: 415 ISPDYNTFNILIKYFCRKNMYLLAYRTTMDMHSKGYQPAEELCSSLIYHLGQENASSEAF 474

Query: 121 SVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSESISHPAIKKFASAFVRL 180
           S+YNMLRYSKR++ KALHEKILHIL++GKLLKDAYVV KDN+ SIS P  KKFASAF++ 
Sbjct: 475 SLYNMLRYSKRTIGKALHEKILHILLAGKLLKDAYVVFKDNATSISGPTTKKFASAFMKS 534

Query: 181 GNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTGQGYVVDSST 240
           GNINL+NDVMK +H  GY+IDQG+F +A++RY+ + EKK+LLL LL+WM GQGYV++ ST
Sbjct: 535 GNINLINDVMKTLHNCGYKIDQGLFEMAVSRYLGQPEKKDLLLHLLQWMPGQGYVINPST 594

Query: 241 RNLILKNSHLFGRQLIADILSKQHMKSKSSKT 272
           RNLILKNSHLFGRQLIA++LSKQ +K  + K+
Sbjct: 595 RNLILKNSHLFGRQLIAEVLSKQRVKLNAQKS 626

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356525958|ref|XP_003531588.1| PREDICTED: pentatricopeptide repeat-containing protein At1g10910, chloroplastic-like [Glycine max]

 Score =  417 bits (1072), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 191/268 (71%), Positives = 232/268 (86%)

Query: 1   MISAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA 60
           MISAFCR   F EAKQLA DFE   +KYD+V+LNSMLCA+CR G+ME VM  ++K+DELA
Sbjct: 357 MISAFCRAKLFREAKQLAKDFETTSNKYDLVILNSMLCAFCRVGEMERVMETLKKMDELA 416

Query: 61  ISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEAL 120
           I+P YNTFHILIKYFC+EKMY+LAYRTM DMH KGHQP EELCSSLI HLG++ A+SEA 
Sbjct: 417 INPGYNTFHILIKYFCREKMYLLAYRTMKDMHSKGHQPVEELCSSLISHLGQVNAYSEAF 476

Query: 121 SVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSESISHPAIKKFASAFVRL 180
           SVYNML+YSKR+MCK+LHEKILHIL++G+LLKDAYVVVKDN++ IS PA KKFASAF++ 
Sbjct: 477 SVYNMLKYSKRTMCKSLHEKILHILLAGQLLKDAYVVVKDNAKFISRPATKKFASAFMKS 536

Query: 181 GNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTGQGYVVDSST 240
           GN+N +NDV+K +H  GY++DQ +F +A++RY+ + EKK+LLL LL+WM GQGY VDSST
Sbjct: 537 GNLNYINDVLKTLHDCGYKLDQDLFAMAVSRYLDQPEKKDLLLHLLQWMAGQGYAVDSST 596

Query: 241 RNLILKNSHLFGRQLIADILSKQHMKSK 268
           RNLILKNSHLFGRQLIA++LSKQ +K K
Sbjct: 597 RNLILKNSHLFGRQLIAEVLSKQQVKLK 624

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|145335386|ref|NP_172560.2| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|122242678|sp|Q0WVV0.1|PPR31_ARATH RecName: Full=Pentatricopeptide repeat-containing protein At1g10910, chloroplastic; Flags: Precursor gi|110741600|dbj|BAE98748.1| membrane-associated salt-inducible protein isolog [Arabidopsis thaliana] gi|332190541|gb|AEE28662.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana]

 Score =  389 bits (1000), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 187/269 (69%), Positives = 230/269 (85%)

Query: 1   MISAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA 60
           MISA CR   F+EAK+L+ D E  Y+K D+V+LN+MLCAYCR G+MESVM +M+K+DE A
Sbjct: 383 MISALCRSKRFKEAKELSRDSETTYEKCDLVMLNTMLCAYCRAGEMESVMRMMKKMDEQA 442

Query: 61  ISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEAL 120
           +SPDYNTFHILIKYF KEK+++LAY+T +DMH KGH+ EEELCSSLI+HLGK+RA +EA 
Sbjct: 443 VSPDYNTFHILIKYFIKEKLHLLAYQTTLDMHSKGHRLEEELCSSLIYHLGKIRAQAEAF 502

Query: 121 SVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSESISHPAIKKFASAFVRL 180
           SVYNMLRYSKR++CK LHEKILHILI G LLKDAY+VVKDN++ IS P +KKF  AF+  
Sbjct: 503 SVYNMLRYSKRTICKELHEKILHILIQGNLLKDAYIVVKDNAKMISQPTLKKFGRAFMIS 562

Query: 181 GNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTGQGYVVDSST 240
           GNINLVNDV+K +H +G++IDQ  F IAI+RYI++ +KKELLL+LL+WM GQGYVVDSST
Sbjct: 563 GNINLVNDVLKVLHGSGHKIDQVQFEIAISRYISQPDKKELLLQLLQWMPGQGYVVDSST 622

Query: 241 RNLILKNSHLFGRQLIADILSKQHMKSKS 269
           RNLILKNSH+FGR LIA+ILSK H+ S+ 
Sbjct: 623 RNLILKNSHMFGRLLIAEILSKHHVASRP 651

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297843920|ref|XP_002889841.1| hypothetical protein ARALYDRAFT_888388 [Arabidopsis lyrata subsp. lyrata] gi|297335683|gb|EFH66100.1| hypothetical protein ARALYDRAFT_888388 [Arabidopsis lyrata subsp. lyrata]

 Score =  384 bits (985), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 188/270 (69%), Positives = 227/270 (84%)

Query: 1   MISAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA 60
           MISA CR   FEEAK+L+ D E  Y+K D+V+LN+MLCAYCR G+MESVM +M+K+DE A
Sbjct: 384 MISALCRSKRFEEAKELSRDSETTYEKCDLVMLNTMLCAYCRAGEMESVMRMMKKMDEQA 443

Query: 61  ISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEAL 120
           I PDYNTFHILIKYF KEK+++LAY+T +DMH KGH+ EEELCSSLI+HLGK+RA SEA 
Sbjct: 444 IIPDYNTFHILIKYFIKEKLHLLAYQTTLDMHSKGHRLEEELCSSLIYHLGKIRAPSEAF 503

Query: 121 SVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSESISHPAIKKFASAFVRL 180
           SVYNMLRYSKR++CK LHEKILHILI G LLKDAY+VVKDN++ IS P +KKF  AF+  
Sbjct: 504 SVYNMLRYSKRTICKELHEKILHILIHGDLLKDAYIVVKDNAKMISQPTLKKFGRAFMIS 563

Query: 181 GNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTGQGYVVDSST 240
           GNINLVNDV+K +H +G++IDQ  F IAI+RYI   +KKELLL+LL+WM GQGY+VDSST
Sbjct: 564 GNINLVNDVLKVLHGSGHKIDQVQFEIAISRYILLPDKKELLLQLLQWMPGQGYIVDSST 623

Query: 241 RNLILKNSHLFGRQLIADILSKQHMKSKSS 270
           RNLILKNSH+FGR LIA+ILSK H+ S+  
Sbjct: 624 RNLILKNSHMFGRLLIAEILSKHHVASRPP 653

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|1931651|gb|AAB65486.1| membrane-associated salt-inducible protein isolog; 88078-84012 [Arabidopsis thaliana]

 Score =  357 bits (917), Expect = 2e-96,   Method: Compositional matrix adjust.
 Identities = 176/269 (65%), Positives = 218/269 (81%), Gaps = 12/269 (4%)

Query: 1   MISAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA 60
           MISA CR   F+EAK+L+ D E  Y+K D+V+LN+MLCAYCR G+MESVM +M+K+DE A
Sbjct: 383 MISALCRSKRFKEAKELSRDSETTYEKCDLVMLNTMLCAYCRAGEMESVMRMMKKMDEQA 442

Query: 61  ISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEAL 120
           +SPDYNTFHILIKYF KEK+++LAY+T +DMH KGH+ EE            +RA +EA 
Sbjct: 443 VSPDYNTFHILIKYFIKEKLHLLAYQTTLDMHSKGHRLEE------------IRAQAEAF 490

Query: 121 SVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSESISHPAIKKFASAFVRL 180
           SVYNMLRYSKR++CK LHEKILHILI G LLKDAY+VVKDN++ IS P +KKF  AF+  
Sbjct: 491 SVYNMLRYSKRTICKELHEKILHILIQGNLLKDAYIVVKDNAKMISQPTLKKFGRAFMIS 550

Query: 181 GNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTGQGYVVDSST 240
           GNINLVNDV+K +H +G++IDQ  F IAI+RYI++ +KKELLL+LL+WM GQGYVVDSST
Sbjct: 551 GNINLVNDVLKVLHGSGHKIDQVQFEIAISRYISQPDKKELLLQLLQWMPGQGYVVDSST 610

Query: 241 RNLILKNSHLFGRQLIADILSKQHMKSKS 269
           RNLILKNSH+FGR LIA+ILSK H+ S+ 
Sbjct: 611 RNLILKNSHMFGRLLIAEILSKHHVASRP 639

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224073298|ref|XP_002304067.1| predicted protein [Populus trichocarpa] gi|222841499|gb|EEE79046.1| predicted protein [Populus trichocarpa]

 Score =  349 bits (895), Expect = 9e-94,   Method: Compositional matrix adjust.
 Identities = 159/204 (77%), Positives = 186/204 (91%)

Query: 1   MISAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA 60
           MIS+FCRGG FEEAK+LA +FEAKYDKYDV + N++LCAYCR G+MESVM  MRK+DELA
Sbjct: 172 MISSFCRGGLFEEAKELAEEFEAKYDKYDVAISNAILCAYCRAGEMESVMRTMRKMDELA 231

Query: 61  ISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEAL 120
           ISPDYNTFHILIKYFCKEK+Y+LAY+TM DMHRKGHQP EELCSSL+FHLGK++AHSEA 
Sbjct: 232 ISPDYNTFHILIKYFCKEKLYMLAYQTMEDMHRKGHQPAEELCSSLLFHLGKIKAHSEAF 291

Query: 121 SVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSESISHPAIKKFASAFVRL 180
           SVY+ML+YSKR+MCKA HEKILHILI+GKLLKDAYVVVKDN++ IS  AIKKFA +FV+L
Sbjct: 292 SVYSMLKYSKRTMCKAFHEKILHILIAGKLLKDAYVVVKDNAKFISSAAIKKFAKSFVKL 351

Query: 181 GNINLVNDVMKAIHATGYRIDQGI 204
           GNINL+NDV+K IH +GY+IDQ +
Sbjct: 352 GNINLINDVLKVIHGSGYKIDQAV 375

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	275
TAIR|locus:2197424	664	EMB3103 "EMBRYO DEFECTIVE 3103	0.974	0.403	0.667	9.7e-96
TAIR|locus:2024537	666	AT1G64100 [Arabidopsis thalian	0.549	0.226	0.245	3.9e-07
TAIR|locus:2077061	619	AT3G22470 "AT3G22470" [Arabido	0.887	0.394	0.181	4.6e-07
TAIR|locus:2156213	637	AT5G65820 [Arabidopsis thalian	0.752	0.324	0.225	4.8e-07
TAIR|locus:2177028	816	AT5G12100 [Arabidopsis thalian	0.621	0.209	0.222	5.1e-07
TAIR|locus:2053552	627	AT2G15630 "AT2G15630" [Arabido	0.389	0.170	0.280	1.4e-06
TAIR|locus:2038451	323	AT1G63230 [Arabidopsis thalian	0.607	0.517	0.233	2.1e-06
TAIR|locus:2019085	763	AT1G74580 "AT1G74580" [Arabido	0.767	0.276	0.224	2.3e-06
TAIR|locus:2139732	566	AT4G11690 [Arabidopsis thalian	0.614	0.298	0.224	2.6e-06
TAIR|locus:2039415	743	AT2G16880 "AT2G16880" [Arabido	0.690	0.255	0.226	3.8e-06

TAIR|locus:2197424 EMB3103 "EMBRYO DEFECTIVE 3103" [Arabidopsis thaliana (taxid:3702)]

 Score = 952 (340.2 bits), Expect = 9.7e-96, P = 9.7e-96
 Identities = 179/268 (66%), Positives = 219/268 (81%)

Query:     1 MISAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA 60
             MISA CR   F+EAK+L+ D E  Y+K D+V+LN+MLCAYCR G+MESVM +M+K+DE A
Sbjct:   383 MISALCRSKRFKEAKELSRDSETTYEKCDLVMLNTMLCAYCRAGEMESVMRMMKKMDEQA 442

Query:    61 ISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEAL 120
             +SPDYNTFHILIKYF KEK+++LAY+T +DMH KGH+ EEELCSSLI+HLGK+RA +EA 
Sbjct:   443 VSPDYNTFHILIKYFIKEKLHLLAYQTTLDMHSKGHRLEEELCSSLIYHLGKIRAQAEAF 502

Query:   121 SVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSESISHPAIKKFASAFVRL 180
             SVYNMLRYSKR++CK LHEKILHILI G LLKDAY+VVKDN++ IS P +KKF  AF+  
Sbjct:   503 SVYNMLRYSKRTICKELHEKILHILIQGNLLKDAYIVVKDNAKMISQPTLKKFGRAFMIS 562

Query:   181 GNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAERXXXXXXXXXXXWMTGQGYVVDSST 240
             GNINLVNDV+K +H +G++IDQ  F IAI+RYI++            WM GQGYVVDSST
Sbjct:   563 GNINLVNDVLKVLHGSGHKIDQVQFEIAISRYISQPDKKELLLQLLQWMPGQGYVVDSST 622

Query:   241 RNLILKNSHLFGRQLIADILSKQHMKSK 268
             RNLILKNSH+FGR LIA+ILSK H+ S+
Sbjct:   623 RNLILKNSHMFGRLLIAEILSKHHVASR 650

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0006355 "regulation of transcription, DNA-dependent" evidence=RCA

TAIR|locus:2024537 AT1G64100 [Arabidopsis thaliana (taxid:3702)]

 Score = 144 (55.7 bits), Expect = 3.9e-07, P = 3.9e-07
 Identities = 38/155 (24%), Positives = 74/155 (47%)

Query:     1 MISAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA 60
             MI  FC+   F++AK +  D  A  D   VV  N+++  YCR   ++  M ++R++    
Sbjct:   407 MIYGFCKHNRFDDAKHMF-DLMASPD---VVTFNTIIDVYCRAKRVDEGMQLLREISRRG 462

Query:    61 ISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEAL 120
             +  +  T++ LI  FC+      A     +M   G  P+   C+ L++   +     EAL
Sbjct:   463 LVANTTTYNTLIHGFCEVDNLNAAQDLFQEMISHGVCPDTITCNILLYGFCENEKLEEAL 522

Query:   121 SVYNMLRYSKRSMCKALHEKILHILISGKLLKDAY 155
              ++ +++ SK  +    +  I+H +  G  + +A+
Sbjct:   523 ELFEVIQMSKIDLDTVAYNIIIHGMCKGSKVDEAW 557

GO:0003677 "DNA binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=ISM

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

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

 Score = 143 (55.4 bits), Expect = 4.6e-07, P = 4.6e-07
 Identities = 45/248 (18%), Positives = 106/248 (42%)

Query:     1 MISAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA 60
             +I  FC+  C  EA Q+     +K  + D+V  + ++ +YC+   ++  M + R++    
Sbjct:   356 LIDGFCKENCLHEANQMFDLMVSKGCEPDIVTYSILINSYCKAKRVDDGMRLFREISSKG 415

Query:    61 ISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEAL 120
             + P+  T++ L+  FC+      A     +M  +G  P       L+  L      ++AL
Sbjct:   416 LIPNTITYNTLVLGFCQSGKLNAAKELFQEMVSRGVPPSVVTYGILLDGLCDNGELNKAL 475

Query:   121 SVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSESISHPAIKKF---ASAF 177
              ++  ++ S+ ++   ++  I+H + +   + DA+ +    S+    P +  +       
Sbjct:   476 EIFEKMQKSRMTLGIGIYNIIIHGMCNASKVDDAWSLFCSLSDKGVKPDVVTYNVMIGGL 535

Query:   178 VRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAERXXXXXXXXXXXWMTGQGYVVD 237
              + G+++  + + + +   G   D   ++I I  ++               M   G+  D
Sbjct:   536 CKKGSLSEADMLFRKMKEDGCTPDDFTYNILIRAHLGGSGLISSVELIEE-MKVCGFSAD 594

Query:   238 SSTRNLIL 245
             SST  +++
Sbjct:   595 SSTIKMVI 602

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2156213 AT5G65820 [Arabidopsis thaliana (taxid:3702)]

 Score = 143 (55.4 bits), Expect = 4.8e-07, P = 4.8e-07
 Identities = 48/213 (22%), Positives = 92/213 (43%)

Query:     1 MISAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA 60
             ++ A C+ G  ++A +L  D   ++   ++    S+L  +CR G M    +V+ +++E  
Sbjct:   224 LLDALCKHGSVKDAAKLFEDMRMRFP-VNLRYFTSLLYGWCRVGKMMEAKYVLVQMNEAG 282

Query:    61 ISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEAL 120
               PD   +  L+  +        AY  + DM R+G +P     + LI  L K+    EA+
Sbjct:   283 FEPDIVDYTNLLSGYANAGKMADAYDLLRDMRRRGFEPNANCYTVLIQALCKVDRMEEAM 342

Query:   121 SVY-NMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSESISHPAIKKFASAFV- 178
              V+  M RY   +        +      GK+ K  Y+V+ D  +    P+   +    V 
Sbjct:   343 KVFVEMERYECEADVVTYTALVSGFCKWGKIDK-CYIVLDDMIKKGLMPSELTYMHIMVA 401

Query:   179 --RLGNINLVNDVMKAIHATGYRIDQGIFHIAI 209
               +  +     ++M+ +    Y  D GI+++ I
Sbjct:   402 HEKKESFEECLELMEKMRQIEYHPDIGIYNVVI 434

GO:0005739 "mitochondrion" evidence=ISM

TAIR|locus:2177028 AT5G12100 [Arabidopsis thaliana (taxid:3702)]

 Score = 144 (55.7 bits), Expect = 5.1e-07, P = 5.1e-07
 Identities = 38/171 (22%), Positives = 79/171 (46%)

Query:     1 MISAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA 60
             +++A C+ G  E+A+++ G   AK    + V+ N+M+  YCR GD+      +  +++  
Sbjct:   360 LLNALCKEGKIEKAEEILGREMAKGLVPNEVIYNTMIDGYCRKGDLVGARMKIEAMEKQG 419

Query:    61 ISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEAL 120
             + PD+  ++ LI+ FC+      A + +  M  KG  P  E  + LI   G+     +  
Sbjct:   420 MKPDHLAYNCLIRRFCELGEMENAEKEVNKMKLKGVSPSVETYNILIGGYGRKYEFDKCF 479

Query:   121 SVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSESISHPAIK 171
              +   +  +        +  +++ L  G  L +A +V +D  +    P ++
Sbjct:   480 DILKEMEDNGTMPNVVSYGTLINCLCKGSKLLEAQIVKRDMEDRGVSPKVR 530

GO:0005739 "mitochondrion" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IDA

TAIR|locus:2053552 AT2G15630 "AT2G15630" [Arabidopsis thaliana (taxid:3702)]

 Score = 139 (54.0 bits), Expect = 1.4e-06, P = 1.4e-06
 Identities = 30/107 (28%), Positives = 60/107 (56%)

Query:     1 MISAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA 60
             +I   CR     EA +L      K  K D+V++N+++  +C  G+M+    +++++D ++
Sbjct:   438 LIYVLCRKNKTREADELFEKVVGKGMKPDLVMMNTLMDGHCAIGNMDRAFSLLKEMDMMS 497

Query:    61 ISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLI 107
             I+PD  T++ L++  C E  +  A   M +M R+G +P+    ++LI
Sbjct:   498 INPDDVTYNCLMRGLCGEGKFEEARELMGEMKRRGIKPDHISYNTLI 544

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0008150 "biological_process" evidence=ND

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

 Score = 133 (51.9 bits), Expect = 2.1e-06, P = 2.1e-06
 Identities = 39/167 (23%), Positives = 74/167 (44%)

Query:     1 MISAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA 60
             +I+A  + G   EA+++ GD   +      +  NSM+  +C+   +     ++  +   +
Sbjct:   152 LINALVKEGKVSEAEEIYGDMLRRGIFPTTITYNSMIDGFCKQDRLNDAKRMLDSMASKS 211

Query:    61 ISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEAL 120
              SPD  TF  LI  +CK K          +MHR+G        ++LI    ++     A 
Sbjct:   212 CSPDVVTFSTLINGYCKAKRVDNGMEIFCEMHRRGIVANTVTYTTLIHGFCQVGDLDAAQ 271

Query:   121 SVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSESISH 167
              + N++  S  +      + +L  L S K L+ A+ +++D  +S  H
Sbjct:   272 DLLNVMISSGVAPNYITFQSMLASLCSKKELRKAFAILEDLQKSEGH 318

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2019085 AT1G74580 "AT1G74580" [Arabidopsis thaliana (taxid:3702)]

 Score = 138 (53.6 bits), Expect = 2.3e-06, P = 2.3e-06
 Identities = 48/214 (22%), Positives = 94/214 (43%)

Query:     2 ISAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAI 61
             I   C+ G  + A ++ G    +  K DV+  N+++   C+    +     + K+    +
Sbjct:   258 IQGLCQRGELDGAVRMVGCLIEQGPKPDVITYNNLIYGLCKNSKFQEAEVYLGKMVNEGL 317

Query:    62 SPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALS 121
              PD  T++ LI  +CK  M  LA R + D    G  P++    SLI  L      + AL+
Sbjct:   318 EPDSYTYNTLIAGYCKGGMVQLAERIVGDAVFNGFVPDQFTYRSLIDGLCHEGETNRALA 377

Query:   122 VYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSESISHPAIKKF---ASAFV 178
             ++N            L+  ++  L +  ++ +A  +  + SE    P ++ F    +   
Sbjct:   378 LFNEALGKGIKPNVILYNTLIKGLSNQGMILEAAQLANEMSEKGLIPEVQTFNILVNGLC 437

Query:   179 RLGNINLVNDVMKAIHATGYRIDQGIFHIAIARY 212
             ++G ++  + ++K + + GY  D   F+I I  Y
Sbjct:   438 KMGCVSDADGLVKVMISKGYFPDIFTFNILIHGY 471

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

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

 Score = 136 (52.9 bits), Expect = 2.6e-06, P = 2.6e-06
 Identities = 38/169 (22%), Positives = 78/169 (46%)

Query:     1 MISAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA 60
             ++S FCR G    A ++  + E +  K   V    ++  + R+ +ME  + +   ++EL 
Sbjct:   379 LVSGFCRKGDTSGAAKMVKEMEERGIKPSKVTYTILIDTFARSDNMEKAIQLRLSMEELG 438

Query:    61 ISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEAL 120
             + PD +T+ +LI  FC +     A R    M  K  +P E + +++I    K  +   AL
Sbjct:   439 LVPDVHTYSVLIHGFCIKGQMNEASRLFKSMVEKNCEPNEVIYNTMILGYCKEGSSYRAL 498

Query:   121 SVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSESISHPA 169
              +   +   + +   A +  ++ +L   +  K+A  +V+   +S   P+
Sbjct:   499 KLLKEMEEKELAPNVASYRYMIEVLCKERKSKEAERLVEKMIDSGIDPS 547

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2039415 AT2G16880 "AT2G16880" [Arabidopsis thaliana (taxid:3702)]

 Score = 136 (52.9 bits), Expect = 3.8e-06, P = 3.8e-06
 Identities = 44/194 (22%), Positives = 84/194 (43%)

Query:     1 MISAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA 60
             +I  F R    E+A ++  + +       V   NS++   C  G  E  M    +L E  
Sbjct:   492 LIMGFFREEKVEKALEMWDEMKKVKITPTVSTFNSLIGGLCHHGKTELAMEKFDELAESG 551

Query:    61 ISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEAL 120
             + PD +TF+ +I  +CKE     A+    +  +   +P+   C+ L+  L K     +AL
Sbjct:   552 LLPDDSTFNSIILGYCKEGRVEKAFEFYNESIKHSFKPDNYTCNILLNGLCKEGMTEKAL 611

Query:   121 SVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSESISHP---AIKKFASAF 177
             + +N L   +R +    +  ++      K LK+AY ++ +  E    P       F S  
Sbjct:   612 NFFNTL-IEEREVDTVTYNTMISAFCKDKKLKEAYDLLSEMEEKGLEPDRFTYNSFISLL 670

Query:   178 VRLGNINLVNDVMK 191
             +  G ++  ++++K
Sbjct:   671 MEDGKLSETDELLK 684

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: GSVIVG00026521001 SubName- Full=Chromosome chr12 scaffold_38, whole genome shotgun sequence; (644 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	275
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-07

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

 Score = 45.9 bits (110), Expect = 3e-07
 Identities = 16/49 (32%), Positives = 28/49 (57%)

Query: 29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCK 77
          DVV  N+++  YC+ G +E  + +  ++ +  I P+  T+ ILI   CK
Sbjct: 2  DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	275
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
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.85
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.84
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.76
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.74
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.74
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.71
PF13041	50	PPR_2: PPR repeat family	99.66
PF13041	50	PPR_2: PPR repeat family	99.61
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.59
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.59
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.56
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.52
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.51
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.46
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.45
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.42
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.41
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.39
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.38
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.36
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.36
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.33
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.32
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.31
PRK12370	553	invasion protein regulator; Provisional	99.29
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.29
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.29
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.26
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.23
PRK12370	553	invasion protein regulator; Provisional	99.22
PRK14574	822	hmsH outer membrane protein; Provisional	99.21
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.2
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.2
PF12854	34	PPR_1: PPR repeat	99.19
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.18
KOG2003	840	consensus TPR repeat-containing protein [General f	99.17
KOG1126	638	consensus DNA-binding cell division cycle control	99.17
KOG1126	638	consensus DNA-binding cell division cycle control	99.15
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.13
PRK14574	822	hmsH outer membrane protein; Provisional	99.13
PF12854	34	PPR_1: PPR repeat	99.11
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.11
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.07
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.06
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.02
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.01
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.0
PRK11189	296	lipoprotein NlpI; Provisional	98.99
KOG1129	478	consensus TPR repeat-containing protein [General f	98.93
KOG2076	895	consensus RNA polymerase III transcription factor	98.93
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.91
PRK11189	296	lipoprotein NlpI; Provisional	98.9
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	98.87
KOG2003	840	consensus TPR repeat-containing protein [General f	98.83
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.82
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.79
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	98.74
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.73
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.73
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.69
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.66
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.64
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.62
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.61
KOG0547	606	consensus Translocase of outer mitochondrial membr	98.6
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.58
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	98.56
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.56
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	98.55
KOG2076	895	consensus RNA polymerase III transcription factor	98.53
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.49
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	98.49
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.49
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.48
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.48
KOG1129	478	consensus TPR repeat-containing protein [General f	98.47
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.47
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.42
KOG0495	913	consensus HAT repeat protein [RNA processing and m	98.4
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.39
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.36
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	98.32
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	98.32
KOG0547	606	consensus Translocase of outer mitochondrial membr	98.3
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.26
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.25
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	98.25
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.23
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.22
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.21
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.2
PRK15359	144	type III secretion system chaperone protein SscB;	98.19
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.17
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.17
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.16
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.15
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.14
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.12
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.1
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.05
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.04
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.02
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.02
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.0
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	97.99
KOG1128	777	consensus Uncharacterized conserved protein, conta	97.98
PRK04841	903	transcriptional regulator MalT; Provisional	97.98
PRK15359	144	type III secretion system chaperone protein SscB;	97.97
KOG3785	557	consensus Uncharacterized conserved protein [Funct	97.96
PRK04841	903	transcriptional regulator MalT; Provisional	97.88
COG4783	484	Putative Zn-dependent protease, contains TPR repea	97.88
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.86
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.84
PLN02789	320	farnesyltranstransferase	97.83
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	97.81
KOG4340	459	consensus Uncharacterized conserved protein [Funct	97.81
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.79
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	97.79
KOG0495	913	consensus HAT repeat protein [RNA processing and m	97.77
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	97.75
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.74
KOG1125	579	consensus TPR repeat-containing protein [General f	97.73
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	97.7
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.66
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.66
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	97.65
KOG3785	557	consensus Uncharacterized conserved protein [Funct	97.64
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.62
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.59
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.59
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.58
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	97.56
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.54
PRK14720	906	transcript cleavage factor/unknown domain fusion p	97.54
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.54
KOG3616	1636	consensus Selective LIM binding factor [Transcript	97.54
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	97.53
KOG1915	677	consensus Cell cycle control protein (crooked neck	97.52
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	97.51
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.49
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.47
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.47
KOG3060	289	consensus Uncharacterized conserved protein [Funct	97.45
KOG2047	835	consensus mRNA splicing factor [RNA processing and	97.44
KOG1915	677	consensus Cell cycle control protein (crooked neck	97.44
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	97.43
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.42
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.4
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.39
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.37
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.36
KOG3941	406	consensus Intermediate in Toll signal transduction	97.33
KOG2376	652	consensus Signal recognition particle, subunit Srp	97.31
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.31
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	97.3
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	97.3
KOG3941	406	consensus Intermediate in Toll signal transduction	97.29
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.24
KOG1125	579	consensus TPR repeat-containing protein [General f	97.21
PF12688	120	TPR_5: Tetratrico peptide repeat	97.19
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	97.18
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.15
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.11
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.09
PLN02789	320	farnesyltranstransferase	97.08
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	97.08
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.08
smart00299	140	CLH Clathrin heavy chain repeat homology.	97.06
PF12688	120	TPR_5: Tetratrico peptide repeat	97.03
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	97.02
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	96.98
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	96.96
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	96.93
KOG0553	304	consensus TPR repeat-containing protein [General f	96.92
smart00299	140	CLH Clathrin heavy chain repeat homology.	96.86
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	96.81
PF13371	73	TPR_9: Tetratricopeptide repeat	96.8
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.8
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	96.79
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	96.78
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	96.76
PRK10803	263	tol-pal system protein YbgF; Provisional	96.76
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.76
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	96.71
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	96.69
KOG3060	289	consensus Uncharacterized conserved protein [Funct	96.66
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	96.64
PRK10803	263	tol-pal system protein YbgF; Provisional	96.64
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	96.58
KOG2047	835	consensus mRNA splicing factor [RNA processing and	96.5
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.44
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	96.42
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	96.37
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.34
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.28
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	96.17
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	96.11
PF13371	73	TPR_9: Tetratricopeptide repeat	96.04
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	96.01
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	95.98
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	95.96
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	95.8
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	95.8
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	95.78
KOG0553	304	consensus TPR repeat-containing protein [General f	95.76
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	95.76
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	95.65
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	95.59
PRK15331	165	chaperone protein SicA; Provisional	95.45
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	95.39
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	95.21
COG4700	251	Uncharacterized protein conserved in bacteria cont	95.04
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	94.93
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	94.86
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	94.83
KOG4570	418	consensus Uncharacterized conserved protein [Funct	94.83
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	94.81
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	94.73
COG4700	251	Uncharacterized protein conserved in bacteria cont	94.68
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	94.62
COG3629	280	DnrI DNA-binding transcriptional activator of the	94.42
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	94.35
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	94.32
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	94.31
PF13762	145	MNE1: Mitochondrial splicing apparatus component	94.14
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	94.11
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	94.08
PF13929	292	mRNA_stabil: mRNA stabilisation	94.07
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	94.0
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	93.88
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	93.84
PF13762	145	MNE1: Mitochondrial splicing apparatus component	93.8
COG3629	280	DnrI DNA-binding transcriptional activator of the	93.74
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	93.59
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	93.38
PF13512	142	TPR_18: Tetratricopeptide repeat	93.34
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	93.27
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	93.22
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	93.17
KOG4570	418	consensus Uncharacterized conserved protein [Funct	93.15
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	93.07
PF13929	292	mRNA_stabil: mRNA stabilisation	93.06
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	93.06
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	93.01
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	92.97
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	92.94
KOG4555	175	consensus TPR repeat-containing protein [Function	92.94
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	92.82
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	92.79
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	92.68
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	92.63
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	92.6
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	92.57
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	92.34
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	91.9
KOG2041	1189	consensus WD40 repeat protein [General function pr	91.75
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	91.33
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	91.31
KOG2610	491	consensus Uncharacterized conserved protein [Funct	91.24
PRK15331	165	chaperone protein SicA; Provisional	91.06
KOG2041	1189	consensus WD40 repeat protein [General function pr	90.87
PF13428	44	TPR_14: Tetratricopeptide repeat	90.81
KOG4555	175	consensus TPR repeat-containing protein [Function	90.52
PF13428	44	TPR_14: Tetratricopeptide repeat	90.5
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	90.17
PF14669	233	Asp_Glu_race_2: Putative aspartate racemase	90.02
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	89.49
COG3118	304	Thioredoxin domain-containing protein [Posttransla	89.46
COG0457	291	NrfG FOG: TPR repeat [General function prediction	89.38
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	89.31
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	89.16
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	89.13
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	88.93
KOG1585	308	consensus Protein required for fusion of vesicles	88.79
PF11848	48	DUF3368: Domain of unknown function (DUF3368); Int	88.64
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	88.6
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	88.53
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	88.43
PF13934	226	ELYS: Nuclear pore complex assembly	88.12
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	87.85
PF13431	34	TPR_17: Tetratricopeptide repeat	87.71
COG0457	291	NrfG FOG: TPR repeat [General function prediction	87.5
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	87.28
COG4455	273	ImpE Protein of avirulence locus involved in tempe	86.96
COG4455	273	ImpE Protein of avirulence locus involved in tempe	86.06
PHA02875	413	ankyrin repeat protein; Provisional	86.05
KOG1585	308	consensus Protein required for fusion of vesicles	86.01
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	85.71
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	85.55
PF11838	324	ERAP1_C: ERAP1-like C-terminal domain; InterPro: I	85.4
cd00280	200	TRFH Telomeric Repeat binding Factor or TTAGGG Rep	85.33
PRK10564	303	maltose regulon periplasmic protein; Provisional	85.25
COG5159	421	RPN6 26S proteasome regulatory complex component [	84.0
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	83.96
PF14689	62	SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical do	83.87
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	83.81
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	83.78
PF13512	142	TPR_18: Tetratricopeptide repeat	83.56
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	83.51
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	83.32
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	83.24
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	83.18
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	82.49
cd00280	200	TRFH Telomeric Repeat binding Factor or TTAGGG Rep	82.09
COG5108	1117	RPO41 Mitochondrial DNA-directed RNA polymerase [T	81.92
COG3898	531	Uncharacterized membrane-bound protein [Function u	81.91
PHA02875	413	ankyrin repeat protein; Provisional	81.66
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	81.21
PF11848	48	DUF3368: Domain of unknown function (DUF3368); Int	80.62
KOG2610	491	consensus Uncharacterized conserved protein [Funct	80.62
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	80.51
KOG4077	149	consensus Cytochrome c oxidase, subunit Va/COX6 [E	80.37
COG0735	145	Fur Fe2+/Zn2+ uptake regulation proteins [Inorgani	80.08

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=2.1e-49  Score=355.24  Aligned_cols=160  Identities=13%  Similarity=0.133  Sum_probs=67.9

Q ss_pred             hhhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCH
Q 023915            2 ISAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMY   81 (275)
Q Consensus         2 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~   81 (275)
                      |.+|++.|++++|.++|++|.+.|+.||..+||++|.+|++.|++++|+++|++|.+.|+.||..||+.||.+|++.|++
T Consensus       479 I~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~  558 (1060)
T PLN03218        479 ISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAV  558 (1060)
T ss_pred             HHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCH
Confidence            34444444444444444444444444444444444444444444444444444444444444444444444444444444


Q ss_pred             HHHHHHHHHHHH--cCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHH
Q 023915           82 ILAYRTMVDMHR--KGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVK  159 (275)
Q Consensus        82 ~~a~~~~~~m~~--~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~  159 (275)
                      +.|.++|++|..  .|+.||..+|+++|.+|++.|++++|.++|+.|.+.++.|+..+|+.+|.+|++.|++++|.++|+
T Consensus       559 deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~  638 (1060)
T PLN03218        559 DRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYD  638 (1060)
T ss_pred             HHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHH
Confidence            444444444432  233444444444444444444444444444444443433333334444444444333333333333


Q ss_pred             Hh
Q 023915          160 DN  161 (275)
Q Consensus       160 ~~  161 (275)
                      +|
T Consensus       639 eM  640 (1060)
T PLN03218        639 DM  640 (1060)
T ss_pred             HH
Confidence            33

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=2.6e-49  Score=354.69  Aligned_cols=267  Identities=16%  Similarity=0.168  Sum_probs=253.7

Q ss_pred             ChhhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhh--cCCCCChhhHHHHHHHHHcc
Q 023915            1 MISAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDE--LAISPDYNTFHILIKYFCKE   78 (275)
Q Consensus         1 li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~g~~p~~~t~~~li~~~~~~   78 (275)
                      ||.+|++.|++++|.++|++|...|+.||..+||+||.+|++.|++++|.++|++|..  .|+.||..||+++|.+|++.
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            5889999999999999999999999999999999999999999999999999999986  68999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHH
Q 023915           79 KMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVV  158 (275)
Q Consensus        79 ~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~  158 (275)
                      |++++|.++|++|.+.|+.|+..+|+.+|.+|++.|++++|.++|++|...|+.|+..+|+.+|.+|++.|++++|.+++
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            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhhcCC---ChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhchhHHHHHHHHHHHhhCCCC
Q 023915          159 KDNSESI---SHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTGQGYV  235 (275)
Q Consensus       159 ~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~~~~  235 (275)
                      ++|.+.+   +..+|+++|.+|++.|++++|.++|++|.+.|+.||..+||+||.+|+ +.|++++|.++|++|...|+.
T Consensus       673 ~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~-k~G~~eeAlelf~eM~~~Gi~  751 (1060)
T PLN03218        673 QDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALC-EGNQLPKALEVLSEMKRLGLC  751 (1060)
T ss_pred             HHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH-HCCCHHHHHHHHHHHHHcCCC
Confidence            9998854   445899999999999999999999999999999999999999999998 789999999999999999999


Q ss_pred             CChhhHHHHHHHHHHhh-----HHHHHHHHhccCCCCC
Q 023915          236 VDSSTRNLILKNSHLFG-----RQLIADILSKQHMKSK  268 (275)
Q Consensus       236 p~~~t~~~li~~~~~~g-----~~~~~~~~~~~~~~~~  268 (275)
                      ||..||+++|.+|++.|     ...+.++...++.|+.
T Consensus       752 Pd~~Ty~sLL~a~~k~G~le~A~~l~~~M~k~Gi~pd~  789 (1060)
T PLN03218        752 PNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNL  789 (1060)
T ss_pred             CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCH
Confidence            99999999999999998     5556666666776654

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

Probab=100.00  E-value=2.6e-45  Score=324.52  Aligned_cols=258  Identities=11%  Similarity=0.075  Sum_probs=237.8

Q ss_pred             ChhhhhhcCcHHHHHHHHHHHHhcCCCCcH-----------------------------------HhHHHHHHHHHccCC
Q 023915            1 MISAFCRGGCFEEAKQLAGDFEAKYDKYDV-----------------------------------VLLNSMLCAYCRTGD   45 (275)
Q Consensus         1 li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-----------------------------------~~~~~li~~~~~~g~   45 (275)
                      ||.+|++.|++++|.++|++|.+.|+.||.                                   .+||+||++|++.|+
T Consensus       195 li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~  274 (697)
T PLN03081        195 IIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGD  274 (697)
T ss_pred             HHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCC
Confidence            578999999999999999999877666554                                   455778889999999


Q ss_pred             HHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHH
Q 023915           46 MESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNM  125 (275)
Q Consensus        46 ~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  125 (275)
                      +++|.++|++|.+    ||..+||++|.+|++.|++++|+++|++|.+.|+.||..||++++.+|++.|++++|.+++..
T Consensus       275 ~~~A~~vf~~m~~----~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~  350 (697)
T PLN03081        275 IEDARCVFDGMPE----KTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAG  350 (697)
T ss_pred             HHHHHHHHHhCCC----CChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHH
Confidence            9999999999965    799999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhcCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhH
Q 023915          126 LRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSESISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIF  205 (275)
Q Consensus       126 m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y  205 (275)
                      |.+.|..|+..+|+++|++|++.|++++|.++|++|.+ ++..+||+||.+|++.|+.++|.++|++|.+.|+.||..||
T Consensus       351 m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~-~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~  429 (697)
T PLN03081        351 LIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR-KNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTF  429 (697)
T ss_pred             HHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCC-CCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHH
Confidence            99999999999999999999999999999999999875 56679999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhchhHHHHHHHHHHHhh-CCCCCChhhHHHHHHHHHHhhHHHHHHHHhccC
Q 023915          206 HIAIARYIAEREKKELLLKLLEWMTG-QGYVVDSSTRNLILKNSHLFGRQLIADILSKQH  264 (275)
Q Consensus       206 ~~li~~~~~~~~~~~~a~~l~~~m~~-~~~~p~~~t~~~li~~~~~~g~~~~~~~~~~~~  264 (275)
                      +++|.+|+ +.|.+++|.++|+.|.+ .|+.|+..+|+.++++|++.|+...|..+.+++
T Consensus       430 ~~ll~a~~-~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~~  488 (697)
T PLN03081        430 LAVLSACR-YSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRA  488 (697)
T ss_pred             HHHHHHHh-cCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHHHC
Confidence            99999986 88999999999999976 699999999999999999999877777776665

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=7.4e-43  Score=315.47  Aligned_cols=260  Identities=12%  Similarity=0.100  Sum_probs=238.5

Q ss_pred             ChhhhhhcCcHHHHHHHHHHHHhcCCCCcHHhH-----------------------------------HHHHHHHHccCC
Q 023915            1 MISAFCRGGCFEEAKQLAGDFEAKYDKYDVVLL-----------------------------------NSMLCAYCRTGD   45 (275)
Q Consensus         1 li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~-----------------------------------~~li~~~~~~g~   45 (275)
                      ||.+|++.|++++|+++|++|...|+.||..||                                   |+||.+|++.|+
T Consensus       158 li~~~~~~g~~~~A~~~f~~M~~~g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n~Li~~y~k~g~  237 (857)
T PLN03077        158 LVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGD  237 (857)
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHhCCccchhhHHHHHHHHHHcCCCcccchHhHHHHHHhcCCC
Confidence            578999999999999999999988888877666                                   556666777788


Q ss_pred             HHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHH
Q 023915           46 MESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNM  125 (275)
Q Consensus        46 ~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  125 (275)
                      +++|.++|++|.+    ||..+||++|.+|++.|++++|+++|.+|.+.|+.||..||+.+|.+|++.|+.+.|.+++..
T Consensus       238 ~~~A~~lf~~m~~----~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~  313 (857)
T PLN03077        238 VVSARLVFDRMPR----RDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGY  313 (857)
T ss_pred             HHHHHHHHhcCCC----CCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHH
Confidence            8888888888864    788899999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhcCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhH
Q 023915          126 LRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSESISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIF  205 (275)
Q Consensus       126 m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y  205 (275)
                      |...|..|+..+|+++|.+|++.|++++|.++|++|.. ++..+|+++|.+|++.|++++|.++|++|.+.|+.||..||
T Consensus       314 ~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~-~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~  392 (857)
T PLN03077        314 VVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMET-KDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITI  392 (857)
T ss_pred             HHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCC-CCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeH
Confidence            99999999999999999999999999999999999875 56679999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhchhHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHHhhHHHHHHHHhccCCC
Q 023915          206 HIAIARYIAEREKKELLLKLLEWMTGQGYVVDSSTRNLILKNSHLFGRQLIADILSKQHMK  266 (275)
Q Consensus       206 ~~li~~~~~~~~~~~~a~~l~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~~~~~~~~~~~  266 (275)
                      +.++.+|+ +.|++++|.++++.|.+.|+.|+..+|++||++|++.|+...|..+.+.|..
T Consensus       393 ~~ll~a~~-~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~  452 (857)
T PLN03077        393 ASVLSACA-CLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPE  452 (857)
T ss_pred             HHHHHHHh-ccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCC
Confidence            99999987 8899999999999999999999999999999999999988888888877643

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

Probab=100.00  E-value=1e-42  Score=308.05  Aligned_cols=258  Identities=13%  Similarity=0.093  Sum_probs=189.8

Q ss_pred             hhhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCH
Q 023915            2 ISAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMY   81 (275)
Q Consensus         2 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~   81 (275)
                      +.+|++.++++.|.+++..|.+.|+.||..+||.||.+|++.|++++|.++|++|.+    ||..+||++|.+|++.|++
T Consensus       130 l~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~----~~~~t~n~li~~~~~~g~~  205 (697)
T PLN03081        130 VEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPE----RNLASWGTIIGGLVDAGNY  205 (697)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHHHHHHHhcCCCHHHHHHHHhcCCC----CCeeeHHHHHHHHHHCcCH
Confidence            445555555555555555555555555555555555555555555555555555543    5555666666666666666


Q ss_pred             HHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHh
Q 023915           82 ILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDN  161 (275)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  161 (275)
                      ++|+++|++|.+.|+.|+..||+.++.+|++.|..+.+.+++..+.+.|..++..+|+++|.+|++.|++++|.++|++|
T Consensus       206 ~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m  285 (697)
T PLN03081        206 REAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGM  285 (697)
T ss_pred             HHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            66666666666666666666665555555555555555555555555666667777788889999999999999999988


Q ss_pred             hcCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhchhHHHHHHHHHHHhhCCCCCChhhH
Q 023915          162 SESISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTGQGYVVDSSTR  241 (275)
Q Consensus       162 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~~~~p~~~t~  241 (275)
                      .. .+..+||++|.+|++.|++++|.++|++|.+.|+.||..||++++.+|+ +.|.+++|.+++.+|.+.|+.||..+|
T Consensus       286 ~~-~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~-~~g~~~~a~~i~~~m~~~g~~~d~~~~  363 (697)
T PLN03081        286 PE-KTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFS-RLALLEHAKQAHAGLIRTGFPLDIVAN  363 (697)
T ss_pred             CC-CChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH-hccchHHHHHHHHHHHHhCCCCCeeeh
Confidence            65 4667899999999999999999999999999999999999999999987 778899999999999999999999999


Q ss_pred             HHHHHHHHHhhHHHHHHHHhccCC
Q 023915          242 NLILKNSHLFGRQLIADILSKQHM  265 (275)
Q Consensus       242 ~~li~~~~~~g~~~~~~~~~~~~~  265 (275)
                      ++|+.+|++.|+...|..+.++|.
T Consensus       364 ~~Li~~y~k~G~~~~A~~vf~~m~  387 (697)
T PLN03081        364 TALVDLYSKWGRMEDARNVFDRMP  387 (697)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHhCC
Confidence            999999999998888887777664

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=1.1e-42  Score=314.23  Aligned_cols=256  Identities=14%  Similarity=0.129  Sum_probs=181.5

Q ss_pred             hhhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCH
Q 023915            2 ISAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMY   81 (275)
Q Consensus         2 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~   81 (275)
                      |.+|++.|++++|.++|++|.    .||..+||++|.+|++.|++++|+++|++|.+.|+.||..||+++|.+|++.|++
T Consensus       330 i~~y~k~g~~~~A~~vf~~m~----~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~  405 (857)
T PLN03077        330 IQMYLSLGSWGEAEKVFSRME----TKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDL  405 (857)
T ss_pred             HHHHHhcCCHHHHHHHHhhCC----CCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchH
Confidence            445555555555555555553    2455555555555555555555555555555555555555555555555555555


Q ss_pred             HHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHh------------------------------ccc
Q 023915           82 ILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRY------------------------------SKR  131 (275)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~------------------------------~~~  131 (275)
                      +.|.++++.|.+.|+.|+..+|++||++|++.|++++|.++|++|..                              .+.
T Consensus       406 ~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~~~  485 (857)
T PLN03077        406 DVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLLTL  485 (857)
T ss_pred             HHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHCCCHHHHHHHHHHHHhCC
Confidence            55555555555555555555555555555555544444444443322                              123


Q ss_pred             cccHH-----------------------------------hHHHHHHHHHhccchHHHHHHHHHhhcCCChhHHHHHHHH
Q 023915          132 SMCKA-----------------------------------LHEKILHILISGKLLKDAYVVVKDNSESISHPAIKKFASA  176 (275)
Q Consensus       132 ~~~~~-----------------------------------~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~li~~  176 (275)
                      .|+..                                   +++++|++|++.|++++|.++|+.+  .++..+||++|.+
T Consensus       486 ~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~--~~d~~s~n~lI~~  563 (857)
T PLN03077        486 KPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSH--EKDVVSWNILLTG  563 (857)
T ss_pred             CCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhc--CCChhhHHHHHHH
Confidence            45544                                   4455667777888888888888887  6677799999999


Q ss_pred             HHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhchhHHHHHHHHHHHh-hCCCCCChhhHHHHHHHHHHhhHHH
Q 023915          177 FVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMT-GQGYVVDSSTRNLILKNSHLFGRQL  255 (275)
Q Consensus       177 ~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~m~-~~~~~p~~~t~~~li~~~~~~g~~~  255 (275)
                      |++.|+.++|.++|++|.+.|+.||..||+.+|.+|+ +.|.+++|.++|++|. +.|+.|+..+|+.++.+|++.|+..
T Consensus       564 ~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~-~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~~~  642 (857)
T PLN03077        564 YVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACS-RSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLT  642 (857)
T ss_pred             HHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHh-hcChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCCHH
Confidence            9999999999999999999999999999999999976 8899999999999998 7899999999999999999999888


Q ss_pred             HHHHHhccC
Q 023915          256 IADILSKQH  264 (275)
Q Consensus       256 ~~~~~~~~~  264 (275)
                      .|+.+.++|
T Consensus       643 eA~~~~~~m  651 (857)
T PLN03077        643 EAYNFINKM  651 (857)
T ss_pred             HHHHHHHHC
Confidence            888888876

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.85  E-value=3.9e-18  Score=142.13  Aligned_cols=249  Identities=10%  Similarity=0.011  Sum_probs=137.8

Q ss_pred             hhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCC---hhhHHHHHHHHHccCCHH
Q 023915            6 CRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD---YNTFHILIKYFCKEKMYI   82 (275)
Q Consensus         6 ~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~---~~t~~~li~~~~~~~~~~   82 (275)
                      ...|++++|...|+++.+.++. +..++..+...+.+.|++++|.++++.+...+..++   ..++..+...|.+.|+++
T Consensus        46 ~~~~~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~~  124 (389)
T PRK11788         46 LLNEQPDKAIDLFIEMLKVDPE-TVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLLD  124 (389)
T ss_pred             HhcCChHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCHH
Confidence            3456666677777666665322 445666666666666666666666666665432221   234556666666666666


Q ss_pred             HHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhcccccc----HHhHHHHHHHHHhccchHHHHHHH
Q 023915           83 LAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMC----KALHEKILHILISGKLLKDAYVVV  158 (275)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~----~~~~~~li~~~~~~~~~~~a~~~~  158 (275)
                      .|..+|+++.+.. +++..++..++..+.+.|++++|.+.++.+...+..+.    ...+..+...+...|++++|...+
T Consensus       125 ~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~  203 (389)
T PRK11788        125 RAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARALL  203 (389)
T ss_pred             HHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHH
Confidence            6666666666432 33455666666666666666666666666654432221    112334445555666666666666


Q ss_pred             HHhhcCC--ChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhchhHHHHHHHHHHHhhCCCCC
Q 023915          159 KDNSESI--SHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTGQGYVV  236 (275)
Q Consensus       159 ~~~~~~~--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~~~~p  236 (275)
                      +++....  ....+..+...+...|++++|.+.++++.+.+-.....+++.+..+|+ ..|++++|...++++.+.  .|
T Consensus       204 ~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~-~~g~~~~A~~~l~~~~~~--~p  280 (389)
T PRK11788        204 KKALAADPQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQ-ALGDEAEGLEFLRRALEE--YP  280 (389)
T ss_pred             HHHHhHCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHH-HcCCHHHHHHHHHHHHHh--CC
Confidence            6654421  122444555666666666666666666555321111234555555554 446666666666665543  34


Q ss_pred             ChhhHHHHHHHHHHhhHHHHHHH
Q 023915          237 DSSTRNLILKNSHLFGRQLIADI  259 (275)
Q Consensus       237 ~~~t~~~li~~~~~~g~~~~~~~  259 (275)
                      +...+..+...+.+.|+...+..
T Consensus       281 ~~~~~~~la~~~~~~g~~~~A~~  303 (389)
T PRK11788        281 GADLLLALAQLLEEQEGPEAAQA  303 (389)
T ss_pred             CchHHHHHHHHHHHhCCHHHHHH
Confidence            54555555556666554443333

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.84  E-value=1.8e-18  Score=144.17  Aligned_cols=260  Identities=12%  Similarity=0.090  Sum_probs=208.5

Q ss_pred             hhhhhhcCcHHHHHHHHHHHHhcCCCCc---HHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHcc
Q 023915            2 ISAFCRGGCFEEAKQLAGDFEAKYDKYD---VVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKE   78 (275)
Q Consensus         2 i~~~~~~g~~~~a~~~~~~m~~~g~~p~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~   78 (275)
                      ...+.+.|++++|..+++.+...+..++   ...+..+...|.+.|++++|..+|+++.+. -+++..+++.++..+.+.
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            3567899999999999999988654332   357899999999999999999999999875 235677899999999999


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCH----HhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHH
Q 023915           79 KMYILAYRTMVDMHRKGHQPEE----ELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDA  154 (275)
Q Consensus        79 ~~~~~a~~~~~~m~~~g~~~~~----~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a  154 (275)
                      |++++|...++.+.+.+..+..    ..+..+...+.+.|++++|...|+++...... +...+..+...+...|++++|
T Consensus       155 g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A  233 (389)
T PRK11788        155 KDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARALLKKALAADPQ-CVRASILLGDLALAQGDYAAA  233 (389)
T ss_pred             chHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHCcC-CHHHHHHHHHHHHHCCCHHHH
Confidence            9999999999999876543322    24566778889999999999999998865432 345677788999999999999


Q ss_pred             HHHHHHhhcCC-C--hhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhchhHHHHHHHHHHHhh
Q 023915          155 YVVVKDNSESI-S--HPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTG  231 (275)
Q Consensus       155 ~~~~~~~~~~~-~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~  231 (275)
                      .+.++++.... .  ...++.+..+|...|++++|...++.+.+.  .|+...+..+...+. ..|++++|..+++++.+
T Consensus       234 ~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~la~~~~-~~g~~~~A~~~l~~~l~  310 (389)
T PRK11788        234 IEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEE--YPGADLLLALAQLLE-EQEGPEAAQALLREQLR  310 (389)
T ss_pred             HHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCchHHHHHHHHHH-HhCCHHHHHHHHHHHHH
Confidence            99999987632 2  225788899999999999999999998885  477777788888876 77999999999999877


Q ss_pred             CCCCCChhhHHHHHHHHHH---hh-----HHHHHHHHhccCCCCC
Q 023915          232 QGYVVDSSTRNLILKNSHL---FG-----RQLIADILSKQHMKSK  268 (275)
Q Consensus       232 ~~~~p~~~t~~~li~~~~~---~g-----~~~~~~~~~~~~~~~~  268 (275)
                      .  .|+..+++.++..+..   .|     ...+..++.+.+.|..
T Consensus       311 ~--~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p  353 (389)
T PRK11788        311 R--HPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRKP  353 (389)
T ss_pred             h--CcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCCC
Confidence            5  6999999999887764   23     2334555655555443

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

Probab=99.76  E-value=2.5e-15  Score=137.64  Aligned_cols=254  Identities=11%  Similarity=0.012  Sum_probs=136.9

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHH
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYI   82 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~   82 (275)
                      ..+.+.|++++|.+.|+.+.+.... +...+..+..++.+.|++++|...|+++.+.. +.+..++..+...+...|+++
T Consensus       609 ~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~  686 (899)
T TIGR02917       609 RAQLAAGDLNKAVSSFKKLLALQPD-SALALLLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTE  686 (899)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHH
Confidence            3455556666666666665544321 44455555556666666666666665555421 122344445555555555555


Q ss_pred             HHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhcccc------------------------------
Q 023915           83 LAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRS------------------------------  132 (275)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~------------------------------  132 (275)
                      .|..+++.+.+.+ +.+...+..+...+.+.|++++|.+.|+.+......                              
T Consensus       687 ~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~  765 (899)
T TIGR02917       687 SAKKIAKSLQKQH-PKAALGFELEGDLYLRQKDYPAAIQAYRKALKRAPSSQNAIKLHRALLASGNTAEAVKTLEAWLKT  765 (899)
T ss_pred             HHHHHHHHHHhhC-cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            5555555554432 223334444444444445555544444444433222                              


Q ss_pred             --ccHHhHHHHHHHHHhccchHHHHHHHHHhhcC--CChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCC-hhhHHH
Q 023915          133 --MCKALHEKILHILISGKLLKDAYVVVKDNSES--ISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRID-QGIFHI  207 (275)
Q Consensus       133 --~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~y~~  207 (275)
                        .+...+..+...|...|++++|...|+++...  .++..++.+...+...|+ ++|...++...+.  .|+ ..++..
T Consensus       766 ~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~--~~~~~~~~~~  842 (899)
T TIGR02917       766 HPNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKAPDNAVVLNNLAWLYLELKD-PRALEYAEKALKL--APNIPAILDT  842 (899)
T ss_pred             CCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhh--CCCCcHHHHH
Confidence              22334444555555555555555555554431  122244555555555555 4555555554443  222 234444


Q ss_pred             HHHHHHHhchhHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHHhhHHHHHHHHhccC
Q 023915          208 AIARYIAEREKKELLLKLLEWMTGQGYVVDSSTRNLILKNSHLFGRQLIADILSKQH  264 (275)
Q Consensus       208 li~~~~~~~~~~~~a~~l~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~~~~~~~~~  264 (275)
                      +...+. ..|++++|.++++++.+.+- .+..++..+..++.+.|+...+..+.+.+
T Consensus       843 ~~~~~~-~~g~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  897 (899)
T TIGR02917       843 LGWLLV-EKGEADRALPLLRKAVNIAP-EAAAIRYHLALALLATGRKAEARKELDKL  897 (899)
T ss_pred             HHHHHH-HcCCHHHHHHHHHHHHhhCC-CChHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            555554 66888888888888887653 37888888888888888777777666554

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=99.74  E-value=7.5e-15  Score=134.46  Aligned_cols=243  Identities=13%  Similarity=0.032  Sum_probs=129.8

Q ss_pred             hhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHH
Q 023915            4 AFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYIL   83 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~   83 (275)
                      .+.+.|++++|.++++.+.... +.+...|..+..++.+.|++++|.+.|+.+.+.. +.+...+..+...+.+.|+++.
T Consensus       576 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~  653 (899)
T TIGR02917       576 YYLGKGQLKKALAILNEAADAA-PDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAK  653 (899)
T ss_pred             HHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHH
Confidence            3444555555555555554432 2244455555555555555555555555554421 1233344555555555555555


Q ss_pred             HHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhc
Q 023915           84 AYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSE  163 (275)
Q Consensus        84 a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  163 (275)
                      |...++++.+.. +.+..++..+...+...|++++|..+++.+..... .+...+..+...+...|++++|.+.++.+..
T Consensus       654 A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~  731 (899)
T TIGR02917       654 AITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQHP-KAALGFELEGDLYLRQKDYPAAIQAYRKALK  731 (899)
T ss_pred             HHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCc-CChHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            555555555432 22344555555555555666666666555554432 2333455555566666666666666666544


Q ss_pred             -CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhchhHHHHHHHHHHHhhCCCCCChhhHH
Q 023915          164 -SISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTGQGYVVDSSTRN  242 (275)
Q Consensus       164 -~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~~~~p~~~t~~  242 (275)
                       .+....+..+...+...|++++|.+.++.+.+.. +.+...+..+...|. ..|++++|.+.|+++.+.. +++...++
T Consensus       732 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~-~~g~~~~A~~~~~~~~~~~-p~~~~~~~  808 (899)
T TIGR02917       732 RAPSSQNAIKLHRALLASGNTAEAVKTLEAWLKTH-PNDAVLRTALAELYL-AQKDYDKAIKHYRTVVKKA-PDNAVVLN  808 (899)
T ss_pred             hCCCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH-HCcCHHHHHHHHHHHHHhC-CCCHHHHH
Confidence             2333345555666666666666666666655532 234445555555554 5566666666666665542 34455566


Q ss_pred             HHHHHHHHhhH
Q 023915          243 LILKNSHLFGR  253 (275)
Q Consensus       243 ~li~~~~~~g~  253 (275)
                      .+...+...|+
T Consensus       809 ~l~~~~~~~~~  819 (899)
T TIGR02917       809 NLAWLYLELKD  819 (899)
T ss_pred             HHHHHHHhcCc
Confidence            66555555554

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.

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.74  E-value=2.2e-15  Score=119.53  Aligned_cols=227  Identities=15%  Similarity=0.162  Sum_probs=109.6

Q ss_pred             hhhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCH
Q 023915            2 ISAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMY   81 (275)
Q Consensus         2 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~   81 (275)
                      |.+.|+-.+.++|.+++++-.....+.+..+||.+|.+-+-..+    .+++.+|.+..+.||..|||+++++.++.|++
T Consensus       214 I~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~----K~Lv~EMisqkm~Pnl~TfNalL~c~akfg~F  289 (625)
T KOG4422|consen  214 IAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVG----KKLVAEMISQKMTPNLFTFNALLSCAAKFGKF  289 (625)
T ss_pred             HHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhcc----HHHHHHHHHhhcCCchHhHHHHHHHHHHhcch
Confidence            44555555555555555555554445555555555554332211    34555555555555555555555555555544


Q ss_pred             HH----HHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHH-HHHHHHHHHh----c---cccc-cHHhHHHHHHHHHhc
Q 023915           82 IL----AYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSE-ALSVYNMLRY----S---KRSM-CKALHEKILHILISG  148 (275)
Q Consensus        82 ~~----a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~-a~~~~~~m~~----~---~~~~-~~~~~~~li~~~~~~  148 (275)
                      +.    |++++.+|++-|+.|...+|..+|.-+++.++..+ +..++.++..    +   ...| +...|...+..|.+.
T Consensus       290 ~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~FF~~AM~Ic~~l  369 (625)
T KOG4422|consen  290 EDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDNKFFQSAMSICSSL  369 (625)
T ss_pred             HHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchhHHHHHHHHHHHHh
Confidence            33    34455555555555555555555555555555433 2223333221    1   1111 223444455555555


Q ss_pred             cchHHHHHHHHHhhcCCC----hh------HHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhchh
Q 023915          149 KLLKDAYVVVKDNSESIS----HP------AIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREK  218 (275)
Q Consensus       149 ~~~~~a~~~~~~~~~~~~----~~------~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~  218 (275)
                      .+.+.|.++..-.....+    ++      -|..+....|.....+.....|+.|...-+-|+..+...++++. ...++
T Consensus       370 ~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~~~m~~~lrA~-~v~~~  448 (625)
T KOG4422|consen  370 RDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHSQTMIHLLRAL-DVANR  448 (625)
T ss_pred             hhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCchhHHHHHHHH-hhcCc
Confidence            555555554443322111    11      12334444555555555555555555554455555555555543 24455


Q ss_pred             HHHHHHHHHHHhhCC
Q 023915          219 KELLLKLLEWMTGQG  233 (275)
Q Consensus       219 ~~~a~~l~~~m~~~~  233 (275)
                      ++-.-++|.+++..|
T Consensus       449 ~e~ipRiw~D~~~~g  463 (625)
T KOG4422|consen  449 LEVIPRIWKDSKEYG  463 (625)
T ss_pred             chhHHHHHHHHHHhh
Confidence            555555555555444

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.71  E-value=8.6e-15  Score=116.22  Aligned_cols=220  Identities=14%  Similarity=0.083  Sum_probs=181.9

Q ss_pred             CcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHH
Q 023915           28 YDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLI  107 (275)
Q Consensus        28 p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li  107 (275)
                      .+..+|.++|.++|+-...+.|.+++.+-.....+.+..+||.+|.+-+-..+    .++..+|....++||..|||+++
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 KTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVG----KKLVAEMISQKMTPNLFTFNALL  280 (625)
T ss_pred             CCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhcc----HHHHHHHHHhhcCCchHhHHHHH
Confidence            37789999999999999999999999999999999999999999988665544    67899999999999999999999


Q ss_pred             HHHhccCCHHH----HHHHHHHHHhccccccHHhHHHHHHHHHhccchHH-HHHHHHHhhc-------CCChh----HHH
Q 023915          108 FHLGKMRAHSE----ALSVYNMLRYSKRSMCKALHEKILHILISGKLLKD-AYVVVKDNSE-------SISHP----AIK  171 (275)
Q Consensus       108 ~~~~~~g~~~~----a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~-a~~~~~~~~~-------~~~~~----~~~  171 (275)
                      .+..+.|+++.    |++++.+|.+-|+.|+..+|..+|.-+++.++..+ |..++.++.+       .+..|    .|.
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    56788899999999999999999999998877644 5555555433       22222    456


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHc----CCCCCh---hhHHHHHHHHHHhchhHHHHHHHHHHHhhCCCCCChhhHHHH
Q 023915          172 KFASAFVRLGNINLVNDVMKAIHAT----GYRIDQ---GIFHIAIARYIAEREKKELLLKLLEWMTGQGYVVDSSTRNLI  244 (275)
Q Consensus       172 ~li~~~~~~~~~~~a~~~~~~m~~~----g~~p~~---~~y~~li~~~~~~~~~~~~a~~l~~~m~~~~~~p~~~t~~~l  244 (275)
                      ..+..|.+..+.+-|.++...+...    -+.|+.   .-|..+....| +....+..+++|+.|.-+-+-|+..+...+
T Consensus       361 ~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~lic-q~es~~~~~~~Y~~lVP~~y~p~~~~m~~~  439 (625)
T KOG4422|consen  361 SAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLIC-QMESIDVTLKWYEDLVPSAYFPHSQTMIHL  439 (625)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHhccceecCCchhHHHH
Confidence            7788888999999999988776653    133443   24666776666 778899999999999999999999999999


Q ss_pred             HHHHHHhh
Q 023915          245 LKNSHLFG  252 (275)
Q Consensus       245 i~~~~~~g  252 (275)
                      +++....|
T Consensus       440 lrA~~v~~  447 (625)
T KOG4422|consen  440 LRALDVAN  447 (625)
T ss_pred             HHHHhhcC
Confidence            99886655

>PF13041 PPR_2: PPR repeat family

Probab=99.66  E-value=2.9e-16  Score=90.31  Aligned_cols=50  Identities=34%  Similarity=0.765  Sum_probs=37.1

Q ss_pred             CcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHc
Q 023915           28 YDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCK   77 (275)
Q Consensus        28 p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~   77 (275)
                      ||+.+||++|++|++.|++++|+++|++|.+.|++||..||+++|++|++
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~k   50 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLCK   50 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcC
Confidence            67777777777777777777777777777777777777777777777764

>PF13041 PPR_2: PPR repeat family

Probab=99.61  E-value=2.2e-15  Score=86.58  Aligned_cols=50  Identities=30%  Similarity=0.498  Sum_probs=47.7

Q ss_pred             CChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhc
Q 023915           63 PDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGK  112 (275)
Q Consensus        63 p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~  112 (275)
                      ||..+||++|++|++.|++++|.++|++|.+.|+.||..||+.+|++|++
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~k   50 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLCK   50 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcC
Confidence            89999999999999999999999999999999999999999999999985

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.59  E-value=6.9e-12  Score=110.70  Aligned_cols=151  Identities=6%  Similarity=-0.080  Sum_probs=65.9

Q ss_pred             hhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCC-hhhHHHHHHHHHccCCHHHH
Q 023915            6 CRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYILA   84 (275)
Q Consensus         6 ~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~~a   84 (275)
                      ...|++++|.+.|+.+....+. +...+..+...+.+.|++++|.+.|++..+  +.|+ ...+..+...+...|+++.|
T Consensus        87 l~~g~~~~A~~~l~~~l~~~P~-~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~--l~P~~~~a~~~la~~l~~~g~~~eA  163 (656)
T PRK15174         87 LASSQPDAVLQVVNKLLAVNVC-QPEDVLLVASVLLKSKQYATVADLAEQAWL--AFSGNSQIFALHLRTLVLMDKELQA  163 (656)
T ss_pred             hhcCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCcHHHHHHHHHHHHHCCChHHH
Confidence            3455555555555555544222 334445555555555555555555555544  2233 23344455555555555555


Q ss_pred             HHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHh
Q 023915           85 YRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDN  161 (275)
Q Consensus        85 ~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  161 (275)
                      ...++.+....-. +...+..+ ..+.+.|++++|...++.+......+....+..+...+...|++++|...+++.
T Consensus       164 ~~~~~~~~~~~P~-~~~a~~~~-~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~a  238 (656)
T PRK15174        164 ISLARTQAQEVPP-RGDMIATC-LSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESA  238 (656)
T ss_pred             HHHHHHHHHhCCC-CHHHHHHH-HHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            5555544433211 11122111 224444555555555444433322122222222333444444444444444443

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

Probab=99.59  E-value=6.2e-14  Score=120.05  Aligned_cols=221  Identities=13%  Similarity=0.112  Sum_probs=154.2

Q ss_pred             HHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcC
Q 023915           16 QLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKG   95 (275)
Q Consensus        16 ~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g   95 (275)
                      .++..+...|+.||.+||..+|.-||..|+.+.|- +|.-|+-+....+...|+.++.+....++.+.+.          
T Consensus        11 nfla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk----------   79 (1088)
T KOG4318|consen   11 NFLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK----------   79 (1088)
T ss_pred             hHHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC----------
Confidence            56788899999999999999999999999999998 8888887766666666666666666666665544          


Q ss_pred             CCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHh-------ccccccHHh--------------HHHHHHHHHhccchHH-
Q 023915           96 HQPEEELCSSLIFHLGKMRAHSEALSVYNMLRY-------SKRSMCKAL--------------HEKILHILISGKLLKD-  153 (275)
Q Consensus        96 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-------~~~~~~~~~--------------~~~li~~~~~~~~~~~-  153 (275)
                       .|...||+.|..+|...||+..-..+=+.|..       .|+.....-              -.+.+.-.+..|.++. 
T Consensus        80 -ep~aDtyt~Ll~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaql  158 (1088)
T KOG4318|consen   80 -EPLADTYTNLLKAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQL  158 (1088)
T ss_pred             -CCchhHHHHHHHHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHH
Confidence             56666666677777666665442222111211       111110000              0111111222222332 


Q ss_pred             --------------------------------HHHHHHHhhcCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCC
Q 023915          154 --------------------------------AYVVVKDNSESISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRID  201 (275)
Q Consensus       154 --------------------------------a~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~  201 (275)
                                                      -..+.+...+.+++.+|.+.+..-...|+.+.|..++.+|++.|++.+
T Consensus       159 lkll~~~Pvsa~~~p~~vfLrqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir  238 (1088)
T KOG4318|consen  159 LKLLAKVPVSAWNAPFQVFLRQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIR  238 (1088)
T ss_pred             HHHHhhCCcccccchHHHHHHHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcc
Confidence                                            233333333445666888899999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHhchhHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHHhh
Q 023915          202 QGIFHIAIARYIAEREKKELLLKLLEWMTGQGYVVDSSTRNLILKNSHLFG  252 (275)
Q Consensus       202 ~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~~~~p~~~t~~~li~~~~~~g  252 (275)
                      ..-|+.|+-+    .+...-+..++.-|.+.|+.|+..|+...+..+.+.|
T Consensus       239 ~HyFwpLl~g----~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~  285 (1088)
T KOG4318|consen  239 AHYFWPLLLG----INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNG  285 (1088)
T ss_pred             cccchhhhhc----CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcch
Confidence            9999999855    4667778899999999999999999999988887744

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.56  E-value=2.2e-11  Score=107.54  Aligned_cols=252  Identities=10%  Similarity=-0.015  Sum_probs=187.2

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHH
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYI   82 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~   82 (275)
                      ..+.+.|++++|...++........ +...+..+...+...|++++|...++.+....  |+.......+..+.+.|+++
T Consensus       118 ~~l~~~g~~~~Ai~~l~~Al~l~P~-~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~--P~~~~a~~~~~~l~~~g~~~  194 (656)
T PRK15174        118 SVLLKSKQYATVADLAEQAWLAFSG-NSQIFALHLRTLVLMDKELQAISLARTQAQEV--PPRGDMIATCLSFLNKSRLP  194 (656)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHCCChHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHcCCHH
Confidence            4577889999999999999876332 56788899999999999999999999886543  33322222233478889999


Q ss_pred             HHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHH----HHHHH
Q 023915           83 LAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKD----AYVVV  158 (275)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~----a~~~~  158 (275)
                      +|..+++.+.+..-.++...+..+..++.+.|++++|...++........ +...+..+-..+...|++++    |...+
T Consensus       195 eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~p~-~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~  273 (656)
T PRK15174        195 EDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARGLD-GAALRRSLGLAYYQSGRSREAKLQAAEHW  273 (656)
T ss_pred             HHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHcCCchhhHHHHHHHH
Confidence            99999999877643344455566677888999999999999998866433 45567778888999999886    78888


Q ss_pred             HHhhc--CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCh-hhHHHHHHHHHHhchhHHHHHHHHHHHhhCCCC
Q 023915          159 KDNSE--SISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQ-GIFHIAIARYIAEREKKELLLKLLEWMTGQGYV  235 (275)
Q Consensus       159 ~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~-~~y~~li~~~~~~~~~~~~a~~l~~~m~~~~~~  235 (275)
                      ++...  ..+...+..+...+...|++++|...++...+.  .|+. ..+..+...+. ..|++++|...++++...  .
T Consensus       274 ~~Al~l~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l--~P~~~~a~~~La~~l~-~~G~~~eA~~~l~~al~~--~  348 (656)
T PRK15174        274 RHALQFNSDNVRIVTLYADALIRTGQNEKAIPLLQQSLAT--HPDLPYVRAMYARALR-QVGQYTAASDEFVQLARE--K  348 (656)
T ss_pred             HHHHhhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHH-HCCCHHHHHHHHHHHHHh--C
Confidence            88765  223347788899999999999999999998875  3554 45555666665 779999999999988764  4


Q ss_pred             CChhh-HHHHHHHHHHhhHHHHHHHHhcc
Q 023915          236 VDSST-RNLILKNSHLFGRQLIADILSKQ  263 (275)
Q Consensus       236 p~~~t-~~~li~~~~~~g~~~~~~~~~~~  263 (275)
                      |+... +..+..++...|+...+....+.
T Consensus       349 P~~~~~~~~~a~al~~~G~~deA~~~l~~  377 (656)
T PRK15174        349 GVTSKWNRYAAAALLQAGKTSEAESVFEH  377 (656)
T ss_pred             ccchHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            55433 33345567778865555554443

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

Probab=99.52  E-value=2.3e-13  Score=108.27  Aligned_cols=256  Identities=14%  Similarity=0.063  Sum_probs=108.7

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhcCCCC-cHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCH
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAKYDKY-DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMY   81 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~   81 (275)
                      ..+.+.|++++|+++++........| |..-|..+-..+...++++.|.+.++++...+-. +...+..++.. ...+++
T Consensus        16 ~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l-~~~~~~   93 (280)
T PF13429_consen   16 RLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKA-NPQDYERLIQL-LQDGDP   93 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccc-cccccc
Confidence            35678899999999996654443234 4444555555666789999999999999876533 45567777777 799999


Q ss_pred             HHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhcc-ccccHHhHHHHHHHHHhccchHHHHHHHHH
Q 023915           82 ILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSK-RSMCKALHEKILHILISGKLLKDAYVVVKD  160 (275)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  160 (275)
                      ++|.+++....+.  .++...+..++..+.+.++++++..+++.+.... .+.+...|..+-..+.+.|+.++|.+.+++
T Consensus        94 ~~A~~~~~~~~~~--~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~  171 (280)
T PF13429_consen   94 EEALKLAEKAYER--DGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRK  171 (280)
T ss_dssp             --------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHH
T ss_pred             ccccccccccccc--ccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            9999999887654  3566677889999999999999999999987543 345677788888999999999999999999


Q ss_pred             hhc-CCC-hhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhchhHHHHHHHHHHHhhCCCCCCh
Q 023915          161 NSE-SIS-HPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTGQGYVVDS  238 (275)
Q Consensus       161 ~~~-~~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~~~~p~~  238 (275)
                      ... .|. +...+.++..+...|+.+++.+++....... +.|...+..+-.+|. ..|+.++|..++++.... -+.|.
T Consensus       172 al~~~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~-~lg~~~~Al~~~~~~~~~-~p~d~  248 (280)
T PF13429_consen  172 ALELDPDDPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYL-QLGRYEEALEYLEKALKL-NPDDP  248 (280)
T ss_dssp             HHHH-TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHH-HHT-HHHHHHHHHHHHHH-STT-H
T ss_pred             HHHcCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhc-cccccccccccccccccc-ccccc
Confidence            776 443 4577889999999999999999998887754 455667777887876 779999999999998763 24478


Q ss_pred             hhHHHHHHHHHHhhHHHHHHHHhccCC
Q 023915          239 STRNLILKNSHLFGRQLIADILSKQHM  265 (275)
Q Consensus       239 ~t~~~li~~~~~~g~~~~~~~~~~~~~  265 (275)
                      .....+..++...|+...|.-+.+...
T Consensus       249 ~~~~~~a~~l~~~g~~~~A~~~~~~~~  275 (280)
T PF13429_consen  249 LWLLAYADALEQAGRKDEALRLRRQAL  275 (280)
T ss_dssp             HHHHHHHHHHT----------------
T ss_pred             ccccccccccccccccccccccccccc
Confidence            888899999999998888887776543

>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=99.51  E-value=1.1e-10  Score=102.98  Aligned_cols=245  Identities=9%  Similarity=-0.090  Sum_probs=185.7

Q ss_pred             cCcHHHHHHHHHHHHhcC-CCC-cHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCC-hhhHHHHHHHHHccCCHHHH
Q 023915            8 GGCFEEAKQLAGDFEAKY-DKY-DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYILA   84 (275)
Q Consensus         8 ~g~~~~a~~~~~~m~~~g-~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~~a   84 (275)
                      .+++++|.+.|+.....+ ..| +...|+.+...+...|++++|+..|++..+  ..|+ ...|..+...+...|+++.|
T Consensus       307 ~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~--l~P~~~~~~~~la~~~~~~g~~~eA  384 (615)
T TIGR00990       307 DESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIE--LDPRVTQSYIKRASMNLELGDPDKA  384 (615)
T ss_pred             hhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--cCCCcHHHHHHHHHHHHHCCCHHHH
Confidence            367899999999998764 233 446788888888999999999999999887  3466 44788888889999999999


Q ss_pred             HHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhc-
Q 023915           85 YRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSE-  163 (275)
Q Consensus        85 ~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~-  163 (275)
                      ...|++..+.. +-+..+|..+...+...|++++|...|+......+. +...+..+-..+.+.|++++|+..+++... 
T Consensus       385 ~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~P~-~~~~~~~la~~~~~~g~~~eA~~~~~~al~~  462 (615)
T TIGR00990       385 EEDFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDPD-FIFSHIQLGVTQYKEGSIASSMATFRRCKKN  462 (615)
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCcc-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            99999988753 345678888999999999999999999988765433 344566777888899999999999998765 


Q ss_pred             C-CChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCh--h------hHHHHHHHHHHhchhHHHHHHHHHHHhhCCC
Q 023915          164 S-ISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQ--G------IFHIAIARYIAEREKKELLLKLLEWMTGQGY  234 (275)
Q Consensus       164 ~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~--~------~y~~li~~~~~~~~~~~~a~~l~~~m~~~~~  234 (275)
                      . ..+..++.+...+...|++++|...|+...+..  |+.  .      .++..... ....|++++|.+++++..... 
T Consensus       463 ~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~--p~~~~~~~~~~~l~~~a~~~-~~~~~~~~eA~~~~~kAl~l~-  538 (615)
T TIGR00990       463 FPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELE--KETKPMYMNVLPLINKALAL-FQWKQDFIEAENLCEKALIID-  538 (615)
T ss_pred             CCCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcC--CccccccccHHHHHHHHHHH-HHHhhhHHHHHHHHHHHHhcC-
Confidence            2 334578888899999999999999999877642  321  1      11222222 224589999999999876643 


Q ss_pred             CCChhhHHHHHHHHHHhhHHHHHHHH
Q 023915          235 VVDSSTRNLILKNSHLFGRQLIADIL  260 (275)
Q Consensus       235 ~p~~~t~~~li~~~~~~g~~~~~~~~  260 (275)
                      +.+...+..+...+...|+...|...
T Consensus       539 p~~~~a~~~la~~~~~~g~~~eAi~~  564 (615)
T TIGR00990       539 PECDIAVATMAQLLLQQGDVDEALKL  564 (615)
T ss_pred             CCcHHHHHHHHHHHHHccCHHHHHHH
Confidence            23345688888888888855554433

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.46  E-value=3.3e-10  Score=94.51  Aligned_cols=244  Identities=10%  Similarity=-0.009  Sum_probs=158.8

Q ss_pred             cCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHH--HHHHHHHccCCHHHHH
Q 023915            8 GGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFH--ILIKYFCKEKMYILAY   85 (275)
Q Consensus         8 ~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~--~li~~~~~~~~~~~a~   85 (275)
                      .|+++.|.+.+....+..-.| ...|-....+..+.|+++.|.+.|.++.+  ..|+.....  .....+...|+++.|.
T Consensus        97 eGd~~~A~k~l~~~~~~~~~p-~l~~llaA~aA~~~g~~~~A~~~l~~A~~--~~~~~~~~~~l~~a~l~l~~g~~~~Al  173 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHAEQP-VVNYLLAAEAAQQRGDEARANQHLERAAE--LADNDQLPVEITRVRIQLARNENHAAR  173 (398)
T ss_pred             CCCHHHHHHHHHHHHhcccch-HHHHHHHHHHHHHCCCHHHHHHHHHHHHh--cCCcchHHHHHHHHHHHHHCCCHHHHH
Confidence            477777777766655432221 12233333344667777777777777765  345554333  2245666777777777


Q ss_pred             HHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccc--------------------------------
Q 023915           86 RTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSM--------------------------------  133 (275)
Q Consensus        86 ~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~--------------------------------  133 (275)
                      ..+++..+.. +-+......+...|.+.|++++|.+++..+.+.+..+                                
T Consensus       174 ~~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w  252 (398)
T PRK10747        174 HGVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWW  252 (398)
T ss_pred             HHHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHH
Confidence            7777776654 3345566777777777777777777777666443221                                


Q ss_pred             ---------cHHhHHHHHHHHHhccchHHHHHHHHHhhcCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhh
Q 023915          134 ---------CKALHEKILHILISGKLLKDAYVVVKDNSESISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGI  204 (275)
Q Consensus       134 ---------~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~  204 (275)
                               ++.....+...+...|+.++|.+++++..+.... .--.++.+....++.+++.+..+...+.  .|+...
T Consensus       253 ~~lp~~~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~~~~-~~l~~l~~~l~~~~~~~al~~~e~~lk~--~P~~~~  329 (398)
T PRK10747        253 KNQSRKTRHQVALQVAMAEHLIECDDHDTAQQIILDGLKRQYD-ERLVLLIPRLKTNNPEQLEKVLRQQIKQ--HGDTPL  329 (398)
T ss_pred             HhCCHHHhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-HHHHHHHhhccCCChHHHHHHHHHHHhh--CCCCHH
Confidence                     2223445566677788888888888877663322 2223445555668888888888887765  366554


Q ss_pred             -HHHHHHHHHHhchhHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHHhhHHHHHHHHh
Q 023915          205 -FHIAIARYIAEREKKELLLKLLEWMTGQGYVVDSSTRNLILKNSHLFGRQLIADILS  261 (275)
Q Consensus       205 -y~~li~~~~~~~~~~~~a~~l~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~~~~~~  261 (275)
                       +..+-..+ -..+++++|.+.|+...+.  .|+..++..+-..+.+.|+...+....
T Consensus       330 l~l~lgrl~-~~~~~~~~A~~~le~al~~--~P~~~~~~~La~~~~~~g~~~~A~~~~  384 (398)
T PRK10747        330 LWSTLGQLL-MKHGEWQEASLAFRAALKQ--RPDAYDYAWLADALDRLHKPEEAAAMR  384 (398)
T ss_pred             HHHHHHHHH-HHCCCHHHHHHHHHHHHhc--CCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence             44455554 4789999999999999874  699999999999999999555554443

>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=99.45  E-value=2.9e-10  Score=100.35  Aligned_cols=222  Identities=11%  Similarity=-0.023  Sum_probs=174.5

Q ss_pred             hhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHH
Q 023915            4 AFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYIL   83 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~   83 (275)
                      .+...|++++|+..|+...+..+. +...|..+...+...|++++|...|++..+.. +-+..+|..+...+...|+++.
T Consensus       340 ~~~~~g~~~eA~~~~~kal~l~P~-~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~  417 (615)
T TIGR00990       340 FKCLKGKHLEALADLSKSIELDPR-VTQSYIKRASMNLELGDPDKAEEDFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQ  417 (615)
T ss_pred             HHHHcCCHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHH
Confidence            455689999999999999876332 46688899999999999999999999987742 2346788889999999999999


Q ss_pred             HHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhc
Q 023915           84 AYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSE  163 (275)
Q Consensus        84 a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  163 (275)
                      |...|++..+.. +.+...+..+...+.+.|++++|+..|+...... +.+...++.+-..+...|++++|.+.|++...
T Consensus       418 A~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~  495 (615)
T TIGR00990       418 AGKDYQKSIDLD-PDFIFSHIQLGVTQYKEGSIASSMATFRRCKKNF-PEAPDVYNYYGELLLDQNKFDEAIEKFDTAIE  495 (615)
T ss_pred             HHHHHHHHHHcC-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHHHh
Confidence            999999998763 3356677888889999999999999999887543 23456788889999999999999999998655


Q ss_pred             C-CC-hh-------HHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCh-hhHHHHHHHHHHhchhHHHHHHHHHHHhhC
Q 023915          164 S-IS-HP-------AIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQ-GIFHIAIARYIAEREKKELLLKLLEWMTGQ  232 (275)
Q Consensus       164 ~-~~-~~-------~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~-~~y~~li~~~~~~~~~~~~a~~l~~~m~~~  232 (275)
                      . +. .+       .++.....+...|++++|..+++...+..  |+. ..+..+...+. ..|++++|.+.|++..+.
T Consensus       496 l~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~--p~~~~a~~~la~~~~-~~g~~~eAi~~~e~A~~l  571 (615)
T TIGR00990       496 LEKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALIID--PECDIAVATMAQLLL-QQGDVDEALKLFERAAEL  571 (615)
T ss_pred             cCCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcC--CCcHHHHHHHHHHHH-HccCHHHHHHHHHHHHHH
Confidence            2 11 11       12222333445699999999999877653  544 46777888876 779999999999998654

>TIGR00540 hemY_coli hemY protein

Probab=99.42  E-value=5.9e-10  Score=93.44  Aligned_cols=252  Identities=10%  Similarity=0.008  Sum_probs=136.7

Q ss_pred             hhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCC-ChhhHHHHHHHHHccCCHHHH
Q 023915            6 CRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP-DYNTFHILIKYFCKEKMYILA   84 (275)
Q Consensus         6 ~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~t~~~li~~~~~~~~~~~a   84 (275)
                      .+.|+.+.|.+.+....+....+.....-.....+...|+++.|.+.++.+.+..  | +......+...+.+.|+++.|
T Consensus       129 ~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~Al~~l~~l~~~~--P~~~~~l~ll~~~~~~~~d~~~a  206 (409)
T TIGR00540       129 QQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAARHGVDKLLEMA--PRHKEVLKLAEEAYIRSGAWQAL  206 (409)
T ss_pred             HHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHhhHHHH
Confidence            3445555555555555443222111222223444455555666665555555532  3 223445555555566666666


Q ss_pred             HHHHHHHHHcCCCCCHHhHHHHHHHH---hccCCHHHHHHHHHHHHhcccc---ccHHhHHHHHHHHHhccchHHHHHHH
Q 023915           85 YRTMVDMHRKGHQPEEELCSSLIFHL---GKMRAHSEALSVYNMLRYSKRS---MCKALHEKILHILISGKLLKDAYVVV  158 (275)
Q Consensus        85 ~~~~~~m~~~g~~~~~~~~~~li~~~---~~~g~~~~a~~~~~~m~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~  158 (275)
                      .+++..+.+.++.+.......-..++   ...+..+.+...+..+....+.   .+...+..+...+...|+.++|.+++
T Consensus       207 ~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l  286 (409)
T TIGR00540       207 DDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEII  286 (409)
T ss_pred             HHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHH
Confidence            66666655554322211111111111   1112222222233322222111   24456666777788888888888888


Q ss_pred             HHhhc-CCChhH---HHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChh---hHHHHHHHHHHhchhHHHHHHHHHHHhh
Q 023915          159 KDNSE-SISHPA---IKKFASAFVRLGNINLVNDVMKAIHATGYRIDQG---IFHIAIARYIAEREKKELLLKLLEWMTG  231 (275)
Q Consensus       159 ~~~~~-~~~~~~---~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~---~y~~li~~~~~~~~~~~~a~~l~~~m~~  231 (275)
                      ++..+ .++.+.   ...........++.+.+.+.++...+.  .|+..   ...++-..+. +.|++++|.+.|+....
T Consensus       287 ~~~l~~~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~--~p~~~~~~ll~sLg~l~~-~~~~~~~A~~~le~a~a  363 (409)
T TIGR00540       287 FDGLKKLGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKN--VDDKPKCCINRALGQLLM-KHGEFIEAADAFKNVAA  363 (409)
T ss_pred             HHHHhhCCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHh--CCCChhHHHHHHHHHHHH-HcccHHHHHHHHHHhHH
Confidence            88766 333331   111222223346777777777766553  45544   3345555555 77999999999996555


Q ss_pred             CCCCCChhhHHHHHHHHHHhhHHHHHHHHhc
Q 023915          232 QGYVVDSSTRNLILKNSHLFGRQLIADILSK  262 (275)
Q Consensus       232 ~~~~p~~~t~~~li~~~~~~g~~~~~~~~~~  262 (275)
                      ....||...+..+-..+.+.|+...+..+.+
T Consensus       364 ~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~  394 (409)
T TIGR00540       364 CKEQLDANDLAMAADAFDQAGDKAEAAAMRQ  394 (409)
T ss_pred             hhcCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            5568999999999999999996555555443

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.

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.41  E-value=9.1e-10  Score=84.74  Aligned_cols=199  Identities=10%  Similarity=0.025  Sum_probs=146.1

Q ss_pred             cHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHH
Q 023915           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIF  108 (275)
Q Consensus        29 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~  108 (275)
                      ....+..+...+...|++++|.+.+++..+.. +.+...+..+...+...|+++.|...+++..+.. +.+...+..+..
T Consensus        30 ~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~  107 (234)
T TIGR02521        30 AAKIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGT  107 (234)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHH
Confidence            45677888888889999999999998887642 2235667778888888999999999999888754 334567777888


Q ss_pred             HHhccCCHHHHHHHHHHHHhcccc-ccHHhHHHHHHHHHhccchHHHHHHHHHhhcC--CChhHHHHHHHHHHhcCChhH
Q 023915          109 HLGKMRAHSEALSVYNMLRYSKRS-MCKALHEKILHILISGKLLKDAYVVVKDNSES--ISHPAIKKFASAFVRLGNINL  185 (275)
Q Consensus       109 ~~~~~g~~~~a~~~~~~m~~~~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~  185 (275)
                      .+...|++++|.+.++........ .....+..+...+...|++++|...+.+....  ..+..+..+...+...|++++
T Consensus       108 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~  187 (234)
T TIGR02521       108 FLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQRPESLLELAELYYLRGQYKD  187 (234)
T ss_pred             HHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCChHHHHHHHHHHHHcCCHHH
Confidence            888899999999999888764322 22345566777788888888888888886652  223466777788888888888


Q ss_pred             HHHHHHHHHHcCCCCChhhHHHHHHHHHHhchhHHHHHHHHHHHhh
Q 023915          186 VNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTG  231 (275)
Q Consensus       186 a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~  231 (275)
                      |...++...+. .+.+...+..+...+. ..|+.++|..+.+.+..
T Consensus       188 A~~~~~~~~~~-~~~~~~~~~~~~~~~~-~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       188 ARAYLERYQQT-YNQTAESLWLGIRIAR-ALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHHHHHHHHHh-CCCCHHHHHHHHHHHH-HHhhHHHHHHHHHHHHh
Confidence            88888887775 2334455555555553 66888888888777654

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

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

Probab=99.39  E-value=8.4e-12  Score=99.35  Aligned_cols=219  Identities=13%  Similarity=0.056  Sum_probs=106.7

Q ss_pred             hhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHH
Q 023915            5 FCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILA   84 (275)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a   84 (275)
                      +-..++.+.|.+.++.+...+.. +...+..++.. ...+++++|.+++....+..  ++...+...+..+.+.++++.+
T Consensus        54 a~~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l-~~~~~~~~A~~~~~~~~~~~--~~~~~l~~~l~~~~~~~~~~~~  129 (280)
T PF13429_consen   54 AWSLGDYDEAIEAYEKLLASDKA-NPQDYERLIQL-LQDGDPEEALKLAEKAYERD--GDPRYLLSALQLYYRLGDYDEA  129 (280)
T ss_dssp             --------------------------------------------------------------------H-HHHTT-HHHH
T ss_pred             ccccccccccccccccccccccc-ccccccccccc-cccccccccccccccccccc--cccchhhHHHHHHHHHhHHHHH
Confidence            34568899999999999987655 67778888888 79999999999998876643  6667788899999999999999


Q ss_pred             HHHHHHHHHcC-CCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhc
Q 023915           85 YRTMVDMHRKG-HQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSE  163 (275)
Q Consensus        85 ~~~~~~m~~~g-~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  163 (275)
                      ..+++...... .+.+...|..+...+.+.|+.++|.+.++......+. +....+.++..+...|+.+++.++++....
T Consensus       130 ~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~P~-~~~~~~~l~~~li~~~~~~~~~~~l~~~~~  208 (280)
T PF13429_consen  130 EELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKALELDPD-DPDARNALAWLLIDMGDYDEAREALKRLLK  208 (280)
T ss_dssp             HHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH-TT--HHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHCCChHHHHHHHHHHHH
Confidence            99999987543 3567778888999999999999999999998765443 455788899999999999998888888766


Q ss_pred             C--CChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhchhHHHHHHHHHHHh
Q 023915          164 S--ISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMT  230 (275)
Q Consensus       164 ~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~m~  230 (275)
                      .  .++..+..+..+|...|+.++|...|+...... +.|......+..++. ..|+.++|.++..+.-
T Consensus       209 ~~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~-p~d~~~~~~~a~~l~-~~g~~~~A~~~~~~~~  275 (280)
T PF13429_consen  209 AAPDDPDLWDALAAAYLQLGRYEEALEYLEKALKLN-PDDPLWLLAYADALE-QAGRKDEALRLRRQAL  275 (280)
T ss_dssp             H-HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHT-----------------
T ss_pred             HCcCHHHHHHHHHHHhcccccccccccccccccccc-ccccccccccccccc-cccccccccccccccc
Confidence            3  334466889999999999999999999988753 235666667777764 8899999999887653

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.38  E-value=2.8e-09  Score=100.38  Aligned_cols=252  Identities=11%  Similarity=-0.011  Sum_probs=164.1

Q ss_pred             hhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCh-hhHHH------------
Q 023915            4 AFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDY-NTFHI------------   70 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-~t~~~------------   70 (275)
                      .+.+.|++++|.+.|++....... +...+..+-..+...|++++|++.|++..+.  .|+. ..+..            
T Consensus       360 ~~~~~g~~~eA~~~~~~Al~~~P~-~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~--~p~~~~a~~~L~~l~~~~~~~~  436 (1157)
T PRK11447        360 AALKANNLAQAERLYQQARQVDNT-DSYAVLGLGDVAMARKDYAAAERYYQQALRM--DPGNTNAVRGLANLYRQQSPEK  436 (1157)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhcCHHH
Confidence            356788999999999999886443 5667778888899999999999999888763  2432 12221            


Q ss_pred             ------------------------------HHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHH
Q 023915           71 ------------------------------LIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEAL  120 (275)
Q Consensus        71 ------------------------------li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~  120 (275)
                                                    +...+...|++++|...|++..+.. +-+...+..+...|.+.|++++|.
T Consensus       437 A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~-P~~~~~~~~LA~~~~~~G~~~~A~  515 (1157)
T PRK11447        437 ALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALD-PGSVWLTYRLAQDLRQAGQRSQAD  515 (1157)
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHH
Confidence                                          2233456788888888888887653 224557777888899999999999


Q ss_pred             HHHHHHHhccccccHHhHH-------------------------------------------HHHHHHHhccchHHHHHH
Q 023915          121 SVYNMLRYSKRSMCKALHE-------------------------------------------KILHILISGKLLKDAYVV  157 (275)
Q Consensus       121 ~~~~~m~~~~~~~~~~~~~-------------------------------------------~li~~~~~~~~~~~a~~~  157 (275)
                      ..++.............|.                                           .....+...|+.++|..+
T Consensus       516 ~~l~~al~~~P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~  595 (1157)
T PRK11447        516 ALMRRLAQQKPNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEAL  595 (1157)
T ss_pred             HHHHHHHHcCCCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHH
Confidence            9998876543221111111                                           112233445555555555


Q ss_pred             HHHhhcCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhchhHHHHHHHHHHHhhCCCCCC
Q 023915          158 VKDNSESISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTGQGYVVD  237 (275)
Q Consensus       158 ~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~~~~p~  237 (275)
                      ++.  ...++..+..+...+...|+.++|...|+...+.. +.+...+..+...|. ..|+.++|.+.++.....  .|+
T Consensus       596 l~~--~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~-P~~~~a~~~la~~~~-~~g~~~eA~~~l~~ll~~--~p~  669 (1157)
T PRK11447        596 LRQ--QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTRE-PGNADARLGLIEVDI-AQGDLAAARAQLAKLPAT--AND  669 (1157)
T ss_pred             HHh--CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH-HCCCHHHHHHHHHHHhcc--CCC
Confidence            552  12233345566777788888888888888877753 224566777777765 568888888888876543  333


Q ss_pred             -hhhHHHHHHHHHHhhHHHHHHHHhccCC
Q 023915          238 -SSTRNLILKNSHLFGRQLIADILSKQHM  265 (275)
Q Consensus       238 -~~t~~~li~~~~~~g~~~~~~~~~~~~~  265 (275)
                       ..+...+-.++...|+...+....+.+.
T Consensus       670 ~~~~~~~la~~~~~~g~~~eA~~~~~~al  698 (1157)
T PRK11447        670 SLNTQRRVALAWAALGDTAAAQRTFNRLI  698 (1157)
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHh
Confidence             3445556666667776666655555543

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.36  E-value=1.2e-09  Score=83.97  Aligned_cols=190  Identities=11%  Similarity=0.063  Sum_probs=153.6

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHH
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYI   82 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~   82 (275)
                      ..+...|++++|.+.+++....... +...+..+...+...|++++|.+.+++..+.. +.+...+..+...+...|+++
T Consensus        39 ~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~~~~g~~~  116 (234)
T TIGR02521        39 LGYLEQGDLEVAKENLDKALEHDPD-DYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGTFLCQQGKYE  116 (234)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcccHH
Confidence            4577889999999999999876432 56788899999999999999999999988753 234566778888999999999


Q ss_pred             HHHHHHHHHHHcCCCC-CHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHh
Q 023915           83 LAYRTMVDMHRKGHQP-EEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDN  161 (275)
Q Consensus        83 ~a~~~~~~m~~~g~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  161 (275)
                      .|...+++..+....+ ....+..+...+...|++++|...++........ +...+..+...+...|++++|...+++.
T Consensus       117 ~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~  195 (234)
T TIGR02521       117 QAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQ-RPESLLELAELYYLRGQYKDARAYLERY  195 (234)
T ss_pred             HHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-ChHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            9999999998753323 3456777888899999999999999988765433 3456778888999999999999999987


Q ss_pred             hcC--CChhHHHHHHHHHHhcCChhHHHHHHHHHHH
Q 023915          162 SES--ISHPAIKKFASAFVRLGNINLVNDVMKAIHA  195 (275)
Q Consensus       162 ~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  195 (275)
                      ...  ..+..+..+...+...|+.+.|..+.+.+..
T Consensus       196 ~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       196 QQTYNQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            653  2334566778888899999999999887765

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

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.36  E-value=1.1e-09  Score=91.50  Aligned_cols=214  Identities=12%  Similarity=0.005  Sum_probs=149.4

Q ss_pred             hhcCcHHHHHHHHHHHHhcCCCCcHHhHH--HHHHHHHccCCHHHHHHHHHHHhhcCCCCC-hhhHHHHHHHHHccCCHH
Q 023915            6 CRGGCFEEAKQLAGDFEAKYDKYDVVLLN--SMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYI   82 (275)
Q Consensus         6 ~~~g~~~~a~~~~~~m~~~g~~p~~~~~~--~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~   82 (275)
                      .+.|+++.|.+.|.++.+.  .|+...+-  .....+...|+++.|.+.++++.+..  |+ ......+...|.+.|+++
T Consensus       129 ~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~Al~~l~~~~~~~--P~~~~al~ll~~~~~~~gdw~  204 (398)
T PRK10747        129 QQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAARHGVDKLLEVA--PRHPEVLRLAEQAYIRTGAWS  204 (398)
T ss_pred             HHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHHHHhHH
Confidence            5667777777777776654  33332222  23455666677777777777766533  43 344556666677777777


Q ss_pred             HHHHHHHHHHHcCCC-----------------------------------------CCHHhHHHHHHHHhccCCHHHHHH
Q 023915           83 LAYRTMVDMHRKGHQ-----------------------------------------PEEELCSSLIFHLGKMRAHSEALS  121 (275)
Q Consensus        83 ~a~~~~~~m~~~g~~-----------------------------------------~~~~~~~~li~~~~~~g~~~~a~~  121 (275)
                      .|..++..+.+.+..                                         .++.....+..++...|+.++|.+
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            777666666654332                                         233455566778888999999999


Q ss_pred             HHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhc-CCChh-HHHHHHHHHHhcCChhHHHHHHHHHHHcCCC
Q 023915          122 VYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSE-SISHP-AIKKFASAFVRLGNINLVNDVMKAIHATGYR  199 (275)
Q Consensus       122 ~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~-~~~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~  199 (275)
                      +++.......  +.  -..++.+....++.+++.+..+...+ .++.+ ...++-..+.+.+++++|.+.|+...+.  .
T Consensus       285 ~L~~~l~~~~--~~--~l~~l~~~l~~~~~~~al~~~e~~lk~~P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~--~  358 (398)
T PRK10747        285 IILDGLKRQY--DE--RLVLLIPRLKTNNPEQLEKVLRQQIKQHGDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQ--R  358 (398)
T ss_pred             HHHHHHhcCC--CH--HHHHHHhhccCCChHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--C
Confidence            9998876433  33  12234455566999999999998766 44444 5678889999999999999999998875  5


Q ss_pred             CChhhHHHHHHHHHHhchhHHHHHHHHHHHh
Q 023915          200 IDQGIFHIAIARYIAEREKKELLLKLLEWMT  230 (275)
Q Consensus       200 p~~~~y~~li~~~~~~~~~~~~a~~l~~~m~  230 (275)
                      |+..+|..+-..+. +.|+.++|.+++++-.
T Consensus       359 P~~~~~~~La~~~~-~~g~~~~A~~~~~~~l  388 (398)
T PRK10747        359 PDAYDYAWLADALD-RLHKPEEAAAMRRDGL  388 (398)
T ss_pred             CCHHHHHHHHHHHH-HcCCHHHHHHHHHHHH
Confidence            99999888888875 7899999999998653

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.33  E-value=3.3e-09  Score=99.87  Aligned_cols=246  Identities=11%  Similarity=0.011  Sum_probs=179.5

Q ss_pred             hhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCC-hhhHHHHHHHHHccCCHH
Q 023915            4 AFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYI   82 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~   82 (275)
                      .+...|++++|.+.|++..+..+. +...+..+...|.+.|++++|...|++..+.  .|+ ...+..+...+...++.+
T Consensus       470 ~~~~~g~~~eA~~~~~~Al~~~P~-~~~~~~~LA~~~~~~G~~~~A~~~l~~al~~--~P~~~~~~~a~al~l~~~~~~~  546 (1157)
T PRK11447        470 ALENQGKWAQAAELQRQRLALDPG-SVWLTYRLAQDLRQAGQRSQADALMRRLAQQ--KPNDPEQVYAYGLYLSGSDRDR  546 (1157)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHhCCCHH
Confidence            355789999999999999987544 6677888999999999999999999998763  343 333444445567889999


Q ss_pred             HHHHHHHHHHHcCCCCCHH---------hHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHH
Q 023915           83 LAYRTMVDMHRKGHQPEEE---------LCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKD  153 (275)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~---------~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~  153 (275)
                      +|...++.+......++..         .+..+...+...|+.++|..+++.     .+.+...+..+-..+.+.|+.++
T Consensus       547 ~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~~-----~p~~~~~~~~La~~~~~~g~~~~  621 (1157)
T PRK11447        547 AALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQ-----QPPSTRIDLTLADWAQQRGDYAA  621 (1157)
T ss_pred             HHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHHh-----CCCCchHHHHHHHHHHHcCCHHH
Confidence            9999998865433333322         223456678889999999999872     23344456778888999999999


Q ss_pred             HHHHHHHhhc--CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCh-hhHHHHHHHHHHhchhHHHHHHHHHHHh
Q 023915          154 AYVVVKDNSE--SISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQ-GIFHIAIARYIAEREKKELLLKLLEWMT  230 (275)
Q Consensus       154 a~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~-~~y~~li~~~~~~~~~~~~a~~l~~~m~  230 (275)
                      |+..|++...  ..++.....+...|...|+.++|.+.++...+.  .|+. ..+..+-..+. ..|++++|.++++.+.
T Consensus       622 A~~~y~~al~~~P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~--~p~~~~~~~~la~~~~-~~g~~~eA~~~~~~al  698 (1157)
T PRK11447        622 ARAAYQRVLTREPGNADARLGLIEVDIAQGDLAAARAQLAKLPAT--ANDSLNTQRRVALAWA-ALGDTAAAQRTFNRLI  698 (1157)
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCChHHHHHHHHHHH-hCCCHHHHHHHHHHHh
Confidence            9999999776  233447788899999999999999999987664  3443 44555566664 6799999999999987


Q ss_pred             hCCC--CC---ChhhHHHHHHHHHHhhHHHHHHHH
Q 023915          231 GQGY--VV---DSSTRNLILKNSHLFGRQLIADIL  260 (275)
Q Consensus       231 ~~~~--~p---~~~t~~~li~~~~~~g~~~~~~~~  260 (275)
                      ...-  .|   +...+..+-..+...|+...|...
T Consensus       699 ~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~  733 (1157)
T PRK11447        699 PQAKSQPPSMESALVLRDAARFEAQTGQPQQALET  733 (1157)
T ss_pred             hhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHH
Confidence            6432  22   224555566677777744444433

>TIGR00540 hemY_coli hemY protein

Probab=99.32  E-value=1.9e-09  Score=90.42  Aligned_cols=223  Identities=11%  Similarity=0.050  Sum_probs=161.2

Q ss_pred             hhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHH---HccCC
Q 023915            4 AFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYF---CKEKM   80 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~---~~~~~   80 (275)
                      .+...|+++.|.+.++.+.+..+. +...+..+...+.+.|+++.|.+++..+.+.++.++......-..++   ...+.
T Consensus       162 l~l~~~~~~~Al~~l~~l~~~~P~-~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~  240 (409)
T TIGR00540       162 ILLAQNELHAARHGVDKLLEMAPR-HKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAM  240 (409)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            345689999999999999998654 66789999999999999999999999999987543332212111222   22333


Q ss_pred             HHHHHHHHHHHHHcCC---CCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHH--HhccchHHHH
Q 023915           81 YILAYRTMVDMHRKGH---QPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHIL--ISGKLLKDAY  155 (275)
Q Consensus        81 ~~~a~~~~~~m~~~g~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~--~~~~~~~~a~  155 (275)
                      .+.....+..+.+...   +.+...+..+...+...|+.++|.+++++............+. ++..+  ...++.+.+.
T Consensus       241 ~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~pd~~~~~~~-~l~~~~~l~~~~~~~~~  319 (409)
T TIGR00540       241 ADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKLGDDRAISLP-LCLPIPRLKPEDNEKLE  319 (409)
T ss_pred             HhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhCCCcccchhH-HHHHhhhcCCCChHHHH
Confidence            3333445555544321   1377888999999999999999999999988764444322211 33333  3356778888


Q ss_pred             HHHHHhhc-CCChh---HHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhchhHHHHHHHHHHH
Q 023915          156 VVVKDNSE-SISHP---AIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWM  229 (275)
Q Consensus       156 ~~~~~~~~-~~~~~---~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~m  229 (275)
                      +.++...+ .+..+   ...++-..+.+.|++++|.+.|+........|+...+..+...+. +.|+.++|.++|++-
T Consensus       320 ~~~e~~lk~~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~-~~g~~~~A~~~~~~~  396 (409)
T TIGR00540       320 KLIEKQAKNVDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFD-QAGDKAEAAAMRQDS  396 (409)
T ss_pred             HHHHHHHHhCCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHH-HcCCHHHHHHHHHHH
Confidence            88877654 44444   345888999999999999999996445445799999998888876 779999999999874

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.

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

Probab=99.31  E-value=3e-08  Score=78.81  Aligned_cols=251  Identities=12%  Similarity=0.061  Sum_probs=182.2

Q ss_pred             hcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHH
Q 023915            7 RGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYR   86 (275)
Q Consensus         7 ~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~   86 (275)
                      -.|++.+|.++...-.+.+.. ....|-.-..+.-+.|+.+.+-+.+.+..+..-.++...+-+........|+.+.|..
T Consensus        96 ~eG~~~qAEkl~~rnae~~e~-p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~  174 (400)
T COG3071          96 FEGDFQQAEKLLRRNAEHGEQ-PVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAARE  174 (400)
T ss_pred             hcCcHHHHHHHHHHhhhcCcc-hHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHH
Confidence            368999999999887777655 4566777788888899999999999998875444566666677777888899999999


Q ss_pred             HHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccH-------HhHHHHHHHHHhccchHHHHHHHH
Q 023915           87 TMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCK-------ALHEKILHILISGKLLKDAYVVVK  159 (275)
Q Consensus        87 ~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~-------~~~~~li~~~~~~~~~~~a~~~~~  159 (275)
                      -..++.+.+ +.++........+|.+.|++..+..++..+.+.+.-.++       .+|..+++-....+..+.-...|+
T Consensus       175 ~v~~ll~~~-pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~  253 (400)
T COG3071         175 NVDQLLEMT-PRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWK  253 (400)
T ss_pred             HHHHHHHhC-cCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHH
Confidence            888888765 445667888899999999999999999998877654433       255666666665555555555666


Q ss_pred             Hhhc--CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCC------------------------------ChhhHHH
Q 023915          160 DNSE--SISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRI------------------------------DQGIFHI  207 (275)
Q Consensus       160 ~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p------------------------------~~~~y~~  207 (275)
                      +...  ..++..-.+++.-+.++|+.++|.++..+-.+.+..|                              +...+.+
T Consensus       254 ~~pr~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L~~~~~~l~~~d~~~l~k~~e~~l~~h~~~p~L~~t  333 (400)
T COG3071         254 NQPRKLRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRLCRLIPRLRPGDPEPLIKAAEKWLKQHPEDPLLLST  333 (400)
T ss_pred             hccHHhhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhHHHHHhhcCCCCchHHHHHHHHHHHhCCCChhHHHH
Confidence            6544  3334455667777777777777777766544433222                              2234455


Q ss_pred             HHHHHHHhchhHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHHhhHHHHHHHHhc
Q 023915          208 AIARYIAEREKKELLLKLLEWMTGQGYVVDSSTRNLILKNSHLFGRQLIADILSK  262 (275)
Q Consensus       208 li~~~~~~~~~~~~a~~l~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~~~~~~~  262 (275)
                      |-..|. +.+.|.+|.+.|+...  ...|+..+|+.+-+++.+.|....++...+
T Consensus       334 LG~L~~-k~~~w~kA~~~leaAl--~~~~s~~~~~~la~~~~~~g~~~~A~~~r~  385 (400)
T COG3071         334 LGRLAL-KNKLWGKASEALEAAL--KLRPSASDYAELADALDQLGEPEEAEQVRR  385 (400)
T ss_pred             HHHHHH-HhhHHHHHHHHHHHHH--hcCCChhhHHHHHHHHHHcCChHHHHHHHH
Confidence            555544 7799999999999544  468999999999999999996666555544

>PRK12370 invasion protein regulator; Provisional

Probab=99.29  E-value=5e-09  Score=91.19  Aligned_cols=215  Identities=9%  Similarity=-0.060  Sum_probs=132.9

Q ss_pred             cCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCC-hhhHHHHHHHHHccCCHHHHHH
Q 023915            8 GGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYILAYR   86 (275)
Q Consensus         8 ~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~~a~~   86 (275)
                      .+++++|...++...+.++. +...+..+-..+...|++++|...|++..+.  .|+ ...+..+...+...|++++|..
T Consensus       317 ~~~~~~A~~~~~~Al~ldP~-~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l--~P~~~~a~~~lg~~l~~~G~~~eAi~  393 (553)
T PRK12370        317 QNAMIKAKEHAIKATELDHN-NPQALGLLGLINTIHSEYIVGSLLFKQANLL--SPISADIKYYYGWNLFMAGQLEEALQ  393 (553)
T ss_pred             chHHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            35577888888877776544 5667777777777788888888888887763  354 3456667777788888888888


Q ss_pred             HHHHHHHcCCCCCH-HhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhcCC
Q 023915           87 TMVDMHRKGHQPEE-ELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSESI  165 (275)
Q Consensus        87 ~~~~m~~~g~~~~~-~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~  165 (275)
                      .+++..+..  |+. ..+..+...+...|++++|...+++......+-.+..+..+-..+...|+.++|...+.+.....
T Consensus       394 ~~~~Al~l~--P~~~~~~~~~~~~~~~~g~~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~  471 (553)
T PRK12370        394 TINECLKLD--PTRAAAGITKLWITYYHTGIDDAIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQE  471 (553)
T ss_pred             HHHHHHhcC--CCChhhHHHHHHHHHhccCHHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhcc
Confidence            888877653  332 22333444455677788888888776654332234445566666777888888888887754432


Q ss_pred             Ch-h-HHHHHHHHHHhcCChhHHHHHHHHHHHc-CCCCChhhHHHHHHHHHHhchhHHHHHHHHHHHhhCC
Q 023915          166 SH-P-AIKKFASAFVRLGNINLVNDVMKAIHAT-GYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTGQG  233 (275)
Q Consensus       166 ~~-~-~~~~li~~~~~~~~~~~a~~~~~~m~~~-g~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~~  233 (275)
                      .. . ..+.+...|...|  +.|...++.+.+. +-.|....+..++.++  + |+-+.+. +++++.+.+
T Consensus       472 ~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~~~~~~~~~~~~~~~~~~--~-g~~~~~~-~~~~~~~~~  536 (553)
T PRK12370        472 ITGLIAVNLLYAEYCQNS--ERALPTIREFLESEQRIDNNPGLLPLVLVA--H-GEAIAEK-MWNKFKNED  536 (553)
T ss_pred             chhHHHHHHHHHHHhccH--HHHHHHHHHHHHHhhHhhcCchHHHHHHHH--H-hhhHHHH-HHHHhhccc
Confidence            21 1 3344555566666  4666666665553 3334444445555443  2 4444333 337776654

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.29  E-value=9e-09  Score=94.01  Aligned_cols=215  Identities=9%  Similarity=-0.067  Sum_probs=144.0

Q ss_pred             cCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHH
Q 023915            8 GGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRT   87 (275)
Q Consensus         8 ~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~   87 (275)
                      .++.++|...|......  .|+......+...+...|++++|...|+++...  .|+...+..+...+.+.|+++.|...
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            36777788877766654  355444333444445788888888888876543  35545556666777788888888888


Q ss_pred             HHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhc-CCC
Q 023915           88 MVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSE-SIS  166 (275)
Q Consensus        88 ~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~-~~~  166 (275)
                      +++..+.. +.+...+..+.....+.|++++|...+++.....+  +...+..+-..+.+.|+.++|...+++... .+.
T Consensus       565 l~qAL~l~-P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l~P--~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~Pd  641 (987)
T PRK09782        565 LQQAEQRG-LGDNALYWWLHAQRYIPGQPELALNDLTRSLNIAP--SANAYVARATIYRQRHNVPAAVSDLRAALELEPN  641 (987)
T ss_pred             HHHHHhcC-CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCC--CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC
Confidence            88887654 22223333334444456888888888887765544  355677777888888888888888887665 333


Q ss_pred             -hhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCC-hhhHHHHHHHHHHhchhHHHHHHHHHHHhhC
Q 023915          167 -HPAIKKFASAFVRLGNINLVNDVMKAIHATGYRID-QGIFHIAIARYIAEREKKELLLKLLEWMTGQ  232 (275)
Q Consensus       167 -~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~  232 (275)
                       +..++.+..++...|++++|...++...+.  .|+ ...+..+-..+. ..|++++|...+++..+.
T Consensus       642 ~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l--~P~~~~a~~nLA~al~-~lGd~~eA~~~l~~Al~l  706 (987)
T PRK09782        642 NSNYQAALGYALWDSGDIAQSREMLERAHKG--LPDDPALIRQLAYVNQ-RLDDMAATQHYARLVIDD  706 (987)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHH-HCCCHHHHHHHHHHHHhc
Confidence             335667777788888888888888877664  343 345555666654 668888888888877653

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

Probab=99.29  E-value=1.6e-10  Score=99.75  Aligned_cols=204  Identities=13%  Similarity=0.057  Sum_probs=149.5

Q ss_pred             HHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhcc
Q 023915           51 HVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSK  130 (275)
Q Consensus        51 ~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  130 (275)
                      .++-.+...|+.|+.+||..+|.-||..|+++.|- +|.-|.....+.+...|+.++.+...+++.+.+.          
T Consensus        11 nfla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk----------   79 (1088)
T KOG4318|consen   11 NFLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK----------   79 (1088)
T ss_pred             hHHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC----------
Confidence            46778889999999999999999999999999998 9999998888889999999999999999988775          


Q ss_pred             ccccHHhHHHHHHHHHhccchHH---HHHHHHHhhcC------CC---------------hhHHHHHHHHHHhcCChhHH
Q 023915          131 RSMCKALHEKILHILISGKLLKD---AYVVVKDNSES------IS---------------HPAIKKFASAFVRLGNINLV  186 (275)
Q Consensus       131 ~~~~~~~~~~li~~~~~~~~~~~---a~~~~~~~~~~------~~---------------~~~~~~li~~~~~~~~~~~a  186 (275)
                       .|.+.+|..++.+|...|++..   +.+.+..+...      ++               .|.-...+....-.|.|+.+
T Consensus        80 -ep~aDtyt~Ll~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaql  158 (1088)
T KOG4318|consen   80 -EPLADTYTNLLKAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQL  158 (1088)
T ss_pred             -CCchhHHHHHHHHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHH
Confidence             7788899999999999998665   22211111110      00               11111222222222333333


Q ss_pred             HH------------------------------HHHHHHHcCCCCChhhHHHHHHHHHHhchhHHHHHHHHHHHhhCCCCC
Q 023915          187 ND------------------------------VMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTGQGYVV  236 (275)
Q Consensus       187 ~~------------------------------~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~~~~p  236 (275)
                      .+                              +.+..+...-.|+..+|.++++.-. ..|+.+.|..++.+|++.|++.
T Consensus       159 lkll~~~Pvsa~~~p~~vfLrqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~al-aag~~d~Ak~ll~emke~gfpi  237 (1088)
T KOG4318|consen  159 LKLLAKVPVSAWNAPFQVFLRQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRAL-AAGDVDGAKNLLYEMKEKGFPI  237 (1088)
T ss_pred             HHHHhhCCcccccchHHHHHHHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHH-hcCchhhHHHHHHHHHHcCCCc
Confidence            22                              2222222211599999999999865 7899999999999999999999


Q ss_pred             ChhhHHHHHHHHHHhh-----HHHHHHHHhccCCCCCcc
Q 023915          237 DSSTRNLILKNSHLFG-----RQLIADILSKQHMKSKSS  270 (275)
Q Consensus       237 ~~~t~~~li~~~~~~g-----~~~~~~~~~~~~~~~~~~  270 (275)
                      +.+-|..|+-+   .+     .....-|...++.|....
T Consensus       238 r~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT  273 (1088)
T KOG4318|consen  238 RAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSET  273 (1088)
T ss_pred             ccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcch
Confidence            99988888876   33     555666666777776543

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

Probab=99.26  E-value=8.4e-09  Score=79.83  Aligned_cols=220  Identities=11%  Similarity=0.072  Sum_probs=151.2

Q ss_pred             hhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChh------hHHHHHHHHHccC
Q 023915            6 CRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYN------TFHILIKYFCKEK   79 (275)
Q Consensus         6 ~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~------t~~~li~~~~~~~   79 (275)
                      .-+++.++|.++|-+|.+.... +..+--+|-+.|-+.|..|.|+++.+.+.++   ||..      ..-.|-.-|...|
T Consensus        46 LLs~Q~dKAvdlF~e~l~~d~~-t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~s---pdlT~~qr~lAl~qL~~Dym~aG  121 (389)
T COG2956          46 LLSNQPDKAVDLFLEMLQEDPE-TFEAHLTLGNLFRSRGEVDRAIRIHQTLLES---PDLTFEQRLLALQQLGRDYMAAG  121 (389)
T ss_pred             HhhcCcchHHHHHHHHHhcCch-hhHHHHHHHHHHHhcchHHHHHHHHHHHhcC---CCCchHHHHHHHHHHHHHHHHhh
Confidence            3467889999999999875322 4455567888888999999999999888775   5532      3345666788899


Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccH----HhHHHHHHHHHhccchHHHH
Q 023915           80 MYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCK----ALHEKILHILISGKLLKDAY  155 (275)
Q Consensus        80 ~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~----~~~~~li~~~~~~~~~~~a~  155 (275)
                      -+|.|+.+|..+.+.|. --..+...|+.-|-...++++|.++-.++...+..+..    ..|.-+-..+....+++.|.
T Consensus       122 l~DRAE~~f~~L~de~e-fa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~  200 (389)
T COG2956         122 LLDRAEDIFNQLVDEGE-FAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRAR  200 (389)
T ss_pred             hhhHHHHHHHHHhcchh-hhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHH
Confidence            99999999999987552 23346778899999999999999998888776544432    24455555555667777777


Q ss_pred             HHHHHhhcCCCh-h-HHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhchhHHHHHHHHHHHhh
Q 023915          156 VVVKDNSESISH-P-AIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTG  231 (275)
Q Consensus       156 ~~~~~~~~~~~~-~-~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~  231 (275)
                      .++++....... . .--.+-+.....|+++.|.+.++...+.+..--..+...|..+|. +.|+.++....+.++.+
T Consensus       201 ~~l~kAlqa~~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~-~lg~~~~~~~fL~~~~~  277 (389)
T COG2956         201 ELLKKALQADKKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYA-QLGKPAEGLNFLRRAME  277 (389)
T ss_pred             HHHHHHHhhCccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHH-HhCCHHHHHHHHHHHHH
Confidence            777775542211 1 222344566677777777777777776653333445666666664 66666666666665544

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.23  E-value=2.1e-08  Score=91.69  Aligned_cols=216  Identities=9%  Similarity=-0.039  Sum_probs=164.4

Q ss_pred             hhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChh-hHHHHHHHHHccCCHHH
Q 023915            5 FCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYN-TFHILIKYFCKEKMYIL   83 (275)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~-t~~~li~~~~~~~~~~~   83 (275)
                      +...|++++|...|+.+...  .|+...+..+..++.+.|++++|.+.|+...+.+  |+.. .+..+.....+.|+++.
T Consensus       519 l~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~--P~~~~l~~~La~~l~~~Gr~~e  594 (987)
T PRK09782        519 AYQVEDYATALAAWQKISLH--DMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRG--LGDNALYWWLHAQRYIPGQPEL  594 (987)
T ss_pred             HHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CccHHHHHHHHHHHHhCCCHHH
Confidence            45789999999999998654  4445556777788899999999999999998754  4443 33333444556699999


Q ss_pred             HHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhc
Q 023915           84 AYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSE  163 (275)
Q Consensus        84 a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  163 (275)
                      |...+++..+.  .|+...+..+...+.+.|+.++|...++......+. +...++.+-..+...|+.++|+..+++...
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 ALNDLTRSLNI--APSANAYVARATIYRQRHNVPAAVSDLRAALELEPN-NSNYQAALGYALWDSGDIAQSREMLERAHK  671 (987)
T ss_pred             HHHHHHHHHHh--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            99999999875  567889999999999999999999999998866433 345777888899999999999999998766


Q ss_pred             -CC-ChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChh-hHHHHHHHHHHhchhHHHHHHHHHHHh
Q 023915          164 -SI-SHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQG-IFHIAIARYIAEREKKELLLKLLEWMT  230 (275)
Q Consensus       164 -~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~-~y~~li~~~~~~~~~~~~a~~l~~~m~  230 (275)
                       .+ ++..+..+..++...|++++|...++...+.  .|+.. +.-..-... ....+++.+.+-+++--
T Consensus       672 l~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l--~P~~a~i~~~~g~~~-~~~~~~~~a~~~~~r~~  738 (987)
T PRK09782        672 GLPDDPALIRQLAYVNQRLDDMAATQHYARLVIDD--IDNQALITPLTPEQN-QQRFNFRRLHEEVGRRW  738 (987)
T ss_pred             hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCCchhhhhhhHHH-HHHHHHHHHHHHHHHHh
Confidence             33 3447788999999999999999999998874  46543 222222222 23455666666665543

>PRK12370 invasion protein regulator; Provisional

Probab=99.22  E-value=3.7e-08  Score=85.80  Aligned_cols=230  Identities=13%  Similarity=0.033  Sum_probs=158.5

Q ss_pred             CcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHH---------ccCCHHHHHHHHHHHhhcCCCCC-hhhHHHHHHHHHcc
Q 023915            9 GCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYC---------RTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKE   78 (275)
Q Consensus         9 g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~---------~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~   78 (275)
                      +++++|.++|++..+..+. +...|..+-.++.         ..+++++|...+++..+.  .|+ ...+..+...+...
T Consensus       275 ~~~~~A~~~~~~Al~ldP~-~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~l--dP~~~~a~~~lg~~~~~~  351 (553)
T PRK12370        275 YSLQQALKLLTQCVNMSPN-SIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATEL--DHNNPQALGLLGLINTIH  351 (553)
T ss_pred             HHHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHc
Confidence            4567999999998876433 4455655554443         234588999999998874  464 55677777888899


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHH
Q 023915           79 KMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVV  158 (275)
Q Consensus        79 ~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~  158 (275)
                      |++++|...|++..+.. +.+...+..+...+...|++++|...++......+.... .+..+...+...|++++|...+
T Consensus       352 g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~~~~-~~~~~~~~~~~~g~~eeA~~~~  429 (553)
T PRK12370        352 SEYIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTINECLKLDPTRAA-AGITKLWITYYHTGIDDAIRLG  429 (553)
T ss_pred             cCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCChh-hHHHHHHHHHhccCHHHHHHHH
Confidence            99999999999998864 334567888888999999999999999998876554332 2333444566688999999999


Q ss_pred             HHhhcC--CChh-HHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHH-HHHHHHHhchhHHHHHHHHHHHhhC-C
Q 023915          159 KDNSES--ISHP-AIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHI-AIARYIAEREKKELLLKLLEWMTGQ-G  233 (275)
Q Consensus       159 ~~~~~~--~~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~-li~~~~~~~~~~~~a~~l~~~m~~~-~  233 (275)
                      ++....  +..+ .+..+...+...|+.++|...+..+...  .|+...... +...|+ ..|  +.+...++.+.+. .
T Consensus       430 ~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~--~~~~~~~~~~l~~~~~-~~g--~~a~~~l~~ll~~~~  504 (553)
T PRK12370        430 DELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQ--EITGLIAVNLLYAEYC-QNS--ERALPTIREFLESEQ  504 (553)
T ss_pred             HHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhc--cchhHHHHHHHHHHHh-ccH--HHHHHHHHHHHHHhh
Confidence            987653  3333 4667778888999999999999887653  455444443 444444 334  4677766666442 2


Q ss_pred             CCCChhhHHHHHHHH
Q 023915          234 YVVDSSTRNLILKNS  248 (275)
Q Consensus       234 ~~p~~~t~~~li~~~  248 (275)
                      -.|...-+..++.++
T Consensus       505 ~~~~~~~~~~~~~~~  519 (553)
T PRK12370        505 RIDNNPGLLPLVLVA  519 (553)
T ss_pred             HhhcCchHHHHHHHH
Confidence            233333334444444

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.21  E-value=7.7e-08  Score=86.35  Aligned_cols=119  Identities=13%  Similarity=0.025  Sum_probs=74.2

Q ss_pred             hhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChh---hHHHHHHHHHccCCH
Q 023915            5 FCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYN---TFHILIKYFCKEKMY   81 (275)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~---t~~~li~~~~~~~~~   81 (275)
                      ..+.|+++.|++.|++..+..+.-....+ .++..+...|+.++|+..+++..    .|+..   ....+...+...|++
T Consensus        44 ~~r~Gd~~~Al~~L~qaL~~~P~~~~av~-dll~l~~~~G~~~~A~~~~eka~----~p~n~~~~~llalA~ly~~~gdy  118 (822)
T PRK14574         44 RARAGDTAPVLDYLQEESKAGPLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQ----SSMNISSRGLASAARAYRNEKRW  118 (822)
T ss_pred             HHhCCCHHHHHHHHHHHHhhCccchhhHH-HHHHHHHHcCCcHHHHHHHHHhc----cCCCCCHHHHHHHHHHHHHcCCH
Confidence            45677888888888777765333112233 66666777777777777777766    23322   222334466666777


Q ss_pred             HHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhc
Q 023915           82 ILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYS  129 (275)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  129 (275)
                      ++|..+|+++.+.. +-+...+..++..+...++.++|++.++.+...
T Consensus       119 d~Aiely~kaL~~d-P~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~  165 (822)
T PRK14574        119 DQALALWQSSLKKD-PTNPDLISGMIMTQADAGRGGVVLKQATELAER  165 (822)
T ss_pred             HHHHHHHHHHHhhC-CCCHHHHHHHHHHHhhcCCHHHHHHHHHHhccc
Confidence            77777777777653 223445556666777777777777777666544

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

Probab=99.20  E-value=4.7e-09  Score=87.87  Aligned_cols=207  Identities=12%  Similarity=0.084  Sum_probs=112.0

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHhhcCCCCC-hhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHh
Q 023915           33 LNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLG  111 (275)
Q Consensus        33 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  111 (275)
                      |..+-..|-.+|..|.|++.|++..+  +.|+ ...|+.|..++-..|++.+|.+.++..+... +--..+.+.|-..|.
T Consensus       289 ~gNla~iYyeqG~ldlAI~~Ykral~--~~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~-p~hadam~NLgni~~  365 (966)
T KOG4626|consen  289 HGNLACIYYEQGLLDLAIDTYKRALE--LQPNFPDAYNNLANALKDKGSVTEAVDCYNKALRLC-PNHADAMNNLGNIYR  365 (966)
T ss_pred             ccceEEEEeccccHHHHHHHHHHHHh--cCCCchHHHhHHHHHHHhccchHHHHHHHHHHHHhC-CccHHHHHHHHHHHH
Confidence            33333334444444444444444443  3333 2345555555555555555555555555432 112234555555555


Q ss_pred             ccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhcCC--ChhHHHHHHHHHHhcCChhHHHHH
Q 023915          112 KMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSESI--SHPAIKKFASAFVRLGNINLVNDV  189 (275)
Q Consensus       112 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~li~~~~~~~~~~~a~~~  189 (275)
                      ..|.++.|..+|.....-.... ...++.+-..|-..|++++|+..+++.....  ....|+.+-..|-..|+.+.|.+.
T Consensus       366 E~~~~e~A~~ly~~al~v~p~~-aaa~nNLa~i~kqqgnl~~Ai~~YkealrI~P~fAda~~NmGnt~ke~g~v~~A~q~  444 (966)
T KOG4626|consen  366 EQGKIEEATRLYLKALEVFPEF-AAAHNNLASIYKQQGNLDDAIMCYKEALRIKPTFADALSNMGNTYKEMGDVSAAIQC  444 (966)
T ss_pred             HhccchHHHHHHHHHHhhChhh-hhhhhhHHHHHHhcccHHHHHHHHHHHHhcCchHHHHHHhcchHHHHhhhHHHHHHH
Confidence            5555555555555443322221 2245666666666667777766666654421  122566666667777777777777


Q ss_pred             HHHHHHcCCCCCh-hhHHHHHHHHHHhchhHHHHHHHHHHHhhCCCCCCh-hhHHHHHHHH
Q 023915          190 MKAIHATGYRIDQ-GIFHIAIARYIAEREKKELLLKLLEWMTGQGYVVDS-STRNLILKNS  248 (275)
Q Consensus       190 ~~~m~~~g~~p~~-~~y~~li~~~~~~~~~~~~a~~l~~~m~~~~~~p~~-~t~~~li~~~  248 (275)
                      +.....  +.|.- ...+.|-..| +..|++.+|.+-|++..+  ++||. ..|..++.++
T Consensus       445 y~rAI~--~nPt~AeAhsNLasi~-kDsGni~~AI~sY~~aLk--lkPDfpdA~cNllh~l  500 (966)
T KOG4626|consen  445 YTRAIQ--INPTFAEAHSNLASIY-KDSGNIPEAIQSYRTALK--LKPDFPDAYCNLLHCL  500 (966)
T ss_pred             HHHHHh--cCcHHHHHHhhHHHHh-hccCCcHHHHHHHHHHHc--cCCCCchhhhHHHHHH
Confidence            665554  23443 3556666665 577888888888877654  46662 4455555443

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.20  E-value=6.7e-08  Score=87.38  Aligned_cols=181  Identities=9%  Similarity=-0.020  Sum_probs=87.1

Q ss_pred             HccCCHHHHHHHHHHHHHcCCC-CCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccc---cHHhHHHHHHHHHhccch
Q 023915           76 CKEKMYILAYRTMVDMHRKGHQ-PEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSM---CKALHEKILHILISGKLL  151 (275)
Q Consensus        76 ~~~~~~~~a~~~~~~m~~~g~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~---~~~~~~~li~~~~~~~~~  151 (275)
                      ...|++++|...|+.+.+.+.+ |+. .-..+..+|...|++++|...|+.+.......   .......+..++...|++
T Consensus       248 l~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~  326 (765)
T PRK10049        248 LARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENY  326 (765)
T ss_pred             HHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccH
Confidence            3445556666666665554421 221 11113445556666666666666554332111   122334444455566666


Q ss_pred             HHHHHHHHHhhcCCC--------------h---hHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHH
Q 023915          152 KDAYVVVKDNSESIS--------------H---PAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIA  214 (275)
Q Consensus       152 ~~a~~~~~~~~~~~~--------------~---~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~  214 (275)
                      ++|..+++.+....+              .   ..+..+...+...|+.++|+++++++.... +-+...+..+...+. 
T Consensus       327 ~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~-P~n~~l~~~lA~l~~-  404 (765)
T PRK10049        327 PGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNA-PGNQGLRIDYASVLQ-  404 (765)
T ss_pred             HHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH-
Confidence            666666665544211              0   012234455556666666666666655431 222334444444443 


Q ss_pred             hchhHHHHHHHHHHHhhCCCCCC-hhhHHHHHHHHHHhhHHHHHHHHh
Q 023915          215 EREKKELLLKLLEWMTGQGYVVD-SSTRNLILKNSHLFGRQLIADILS  261 (275)
Q Consensus       215 ~~~~~~~a~~l~~~m~~~~~~p~-~~t~~~li~~~~~~g~~~~~~~~~  261 (275)
                      ..|+.++|.+.+++....  .|| ...+......+.+.|+...++...
T Consensus       405 ~~g~~~~A~~~l~~al~l--~Pd~~~l~~~~a~~al~~~~~~~A~~~~  450 (765)
T PRK10049        405 ARGWPRAAENELKKAEVL--EPRNINLEVEQAWTALDLQEWRQMDVLT  450 (765)
T ss_pred             hcCCHHHHHHHHHHHHhh--CCCChHHHHHHHHHHHHhCCHHHHHHHH
Confidence            456666666666655543  244 344444444455555444444443

>PF12854 PPR_1: PPR repeat

Probab=99.19  E-value=3.4e-11  Score=62.43  Aligned_cols=32  Identities=22%  Similarity=0.541  Sum_probs=22.7

Q ss_pred             CCCCcHHhHHHHHHHHHccCCHHHHHHHHHHH
Q 023915           25 YDKYDVVLLNSMLCAYCRTGDMESVMHVMRKL   56 (275)
Q Consensus        25 g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m   56 (275)
                      |+.||..|||+||++||+.|++++|.++|++|
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            56677777777777777777777777777766

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.18  E-value=1e-07  Score=86.23  Aligned_cols=222  Identities=12%  Similarity=0.077  Sum_probs=129.1

Q ss_pred             hhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHH
Q 023915            4 AFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYIL   83 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~   83 (275)
                      .+.+.|++++|.++|+...+..+. +...+..+...+...|++++|+..+++..+.  .|+...+..+...+...|+.+.
T Consensus        58 ~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~la~~l~~~g~~~eA~~~l~~~l~~--~P~~~~~~~la~~l~~~g~~~~  134 (765)
T PRK10049         58 AYRNLKQWQNSLTLWQKALSLEPQ-NDDYQRGLILTLADAGQYDEALVKAKQLVSG--APDKANLLALAYVYKRAGRHWD  134 (765)
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHCCCHHH
Confidence            466677788888888777665222 4555667777777788888888888777664  2433226667777777788888


Q ss_pred             HHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHH---------------------------------------
Q 023915           84 AYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYN---------------------------------------  124 (275)
Q Consensus        84 a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~---------------------------------------  124 (275)
                      |+..+++..+.. +-+...+..+..++.+.|..+.|++.++                                       
T Consensus       135 Al~~l~~al~~~-P~~~~~~~~la~~l~~~~~~e~Al~~l~~~~~~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad  213 (765)
T PRK10049        135 ELRAMTQALPRA-PQTQQYPTEYVQALRNNRLSAPALGAIDDANLTPAEKRDLEADAAAELVRLSFMPTRSEKERYAIAD  213 (765)
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCChHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHH
Confidence            888888877652 2233344445555555555554444333                                       


Q ss_pred             -------HHHhc-cccccHH-hHH----HHHHHHHhccchHHHHHHHHHhhcCCCh-hHH--HHHHHHHHhcCChhHHHH
Q 023915          125 -------MLRYS-KRSMCKA-LHE----KILHILISGKLLKDAYVVVKDNSESISH-PAI--KKFASAFVRLGNINLVND  188 (275)
Q Consensus       125 -------~m~~~-~~~~~~~-~~~----~li~~~~~~~~~~~a~~~~~~~~~~~~~-~~~--~~li~~~~~~~~~~~a~~  188 (275)
                             .+... ...|... .+.    ..+..+...|++++|+..|+.+.....+ |.+  ..+..+|...|++++|..
T Consensus       214 ~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~a~~~la~~yl~~g~~e~A~~  293 (765)
T PRK10049        214 RALAQYDALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPWAQRWVASAYLKLHQPEKAQS  293 (765)
T ss_pred             HHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHhcCCcHHHHH
Confidence                   22211 1111110 010    0122345567777777777777664321 322  224567777778888888


Q ss_pred             HHHHHHHcCCCCC-----hhhHHHHHHHHHHhchhHHHHHHHHHHHhhC
Q 023915          189 VMKAIHATGYRID-----QGIFHIAIARYIAEREKKELLLKLLEWMTGQ  232 (275)
Q Consensus       189 ~~~~m~~~g~~p~-----~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~  232 (275)
                      .|+.+.+..  |.     ......+..++. ..|++++|..+++.+...
T Consensus       294 ~l~~~l~~~--p~~~~~~~~~~~~L~~a~~-~~g~~~eA~~~l~~~~~~  339 (765)
T PRK10049        294 ILTELFYHP--ETIADLSDEELADLFYSLL-ESENYPGALTVTAHTINN  339 (765)
T ss_pred             HHHHHhhcC--CCCCCCChHHHHHHHHHHH-hcccHHHHHHHHHHHhhc
Confidence            777766532  22     123444444554 567777777777777654

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

Probab=99.17  E-value=4.7e-08  Score=79.21  Aligned_cols=243  Identities=12%  Similarity=0.096  Sum_probs=156.0

Q ss_pred             hhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHH-HHHH-----------------------------------HccCCHH
Q 023915            4 AFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSM-LCAY-----------------------------------CRTGDME   47 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~l-i~~~-----------------------------------~~~g~~~   47 (275)
                      .+.+.|+++.|.++++.+.+.+-+.-...-|.| .--|                                   .-+|+++
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            477899999999999988875432211111111 1111                                   1234566


Q ss_pred             HHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHH
Q 023915           48 SVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLR  127 (275)
Q Consensus        48 ~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  127 (275)
                      +|.+.|.+.....-.-....||+=+ .+-..|++++|+.+|-.+..- +.-+..+..-+...|-...+...|.+++.+..
T Consensus       508 ka~~~ykeal~ndasc~ealfnigl-t~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~~~q~~  585 (840)
T KOG2003|consen  508 KAAEFYKEALNNDASCTEALFNIGL-TAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIELLMQAN  585 (840)
T ss_pred             HHHHHHHHHHcCchHHHHHHHHhcc-cHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhc
Confidence            6666666655432222222222222 244556677777666665421 12233445555555666666666666665543


Q ss_pred             hccccccHHhHHHHHHHHHhccchHHHHHHHHHhhc--CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhH
Q 023915          128 YSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSE--SISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIF  205 (275)
Q Consensus       128 ~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y  205 (275)
                       .-++.++...+.+-..|-+.|+-.+|...+-+.-.  ..+..+..-|...|....-+++++..|+...-  ++|+..-|
T Consensus       586 -slip~dp~ilskl~dlydqegdksqafq~~ydsyryfp~nie~iewl~ayyidtqf~ekai~y~ekaal--iqp~~~kw  662 (840)
T KOG2003|consen  586 -SLIPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRYFPCNIETIEWLAAYYIDTQFSEKAINYFEKAAL--IQPNQSKW  662 (840)
T ss_pred             -ccCCCCHHHHHHHHHHhhcccchhhhhhhhhhcccccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHh--cCccHHHH
Confidence             23444566677777777777777777776554333  22223555666777777778888888876443  68999999


Q ss_pred             HHHHHHHHHhchhHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHHhh
Q 023915          206 HIAIARYIAEREKKELLLKLLEWMTGQGYVVDSSTRNLILKNSHLFG  252 (275)
Q Consensus       206 ~~li~~~~~~~~~~~~a~~l~~~m~~~~~~p~~~t~~~li~~~~~~g  252 (275)
                      ..+|..|+++.|++..|+++|++.. +.++-|..+..-|++.+...|
T Consensus       663 qlmiasc~rrsgnyqka~d~yk~~h-rkfpedldclkflvri~~dlg  708 (840)
T KOG2003|consen  663 QLMIASCFRRSGNYQKAFDLYKDIH-RKFPEDLDCLKFLVRIAGDLG  708 (840)
T ss_pred             HHHHHHHHHhcccHHHHHHHHHHHH-HhCccchHHHHHHHHHhcccc
Confidence            9999999999999999999999985 468889999999999998888

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

Probab=99.17  E-value=8.3e-09  Score=86.76  Aligned_cols=241  Identities=11%  Similarity=-0.014  Sum_probs=159.9

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhcCC--CCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCC
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAKYD--KYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKM   80 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~g~--~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~   80 (275)
                      .+|-..+++++|.++|+.+.+...  .-+..+|++.+.-+-+    +-++..+.+-.-.--+-...||.++-+.|+-.++
T Consensus       361 rayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~----~v~Ls~Laq~Li~~~~~sPesWca~GNcfSLQkd  436 (638)
T KOG1126|consen  361 RAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQD----EVALSYLAQDLIDTDPNSPESWCALGNCFSLQKD  436 (638)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHh----hHHHHHHHHHHHhhCCCCcHHHHHhcchhhhhhH
Confidence            356778899999999999987532  2366778888776533    2222332221111122345688888888888888


Q ss_pred             HHHHHHHHHHHHHcCCCC-CHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHH---HHHHHHhccchHHHHH
Q 023915           81 YILAYRTMVDMHRKGHQP-EEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEK---ILHILISGKLLKDAYV  156 (275)
Q Consensus        81 ~~~a~~~~~~m~~~g~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~---li~~~~~~~~~~~a~~  156 (275)
                      .+.|++.|++..+.  .| ..++|+.+-.-+.....+|.|...|+...    ..++..|++   +--.|.+.++++.|+-
T Consensus       437 h~~Aik~f~RAiQl--dp~faYayTLlGhE~~~~ee~d~a~~~fr~Al----~~~~rhYnAwYGlG~vy~Kqek~e~Ae~  510 (638)
T KOG1126|consen  437 HDTAIKCFKRAIQL--DPRFAYAYTLLGHESIATEEFDKAMKSFRKAL----GVDPRHYNAWYGLGTVYLKQEKLEFAEF  510 (638)
T ss_pred             HHHHHHHHHHhhcc--CCccchhhhhcCChhhhhHHHHhHHHHHHhhh----cCCchhhHHHHhhhhheeccchhhHHHH
Confidence            88888888887753  55 56788888888888888888888887654    334455665   4556778888888888


Q ss_pred             HHHHhhcCCCh--hHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhchhHHHHHHHHHHHhhCCC
Q 023915          157 VVKDNSESISH--PAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTGQGY  234 (275)
Q Consensus       157 ~~~~~~~~~~~--~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~~~  234 (275)
                      .|++..+....  .....+...+-+.|+.++|++++++.....-+-...-|...- .+. ..++.++|+..++++++  +
T Consensus       511 ~fqkA~~INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~~~~~-il~-~~~~~~eal~~LEeLk~--~  586 (638)
T KOG1126|consen  511 HFQKAVEINPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKYHRAS-ILF-SLGRYVEALQELEELKE--L  586 (638)
T ss_pred             HHHhhhcCCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHHHHHH-HHH-hhcchHHHHHHHHHHHH--h
Confidence            88887663222  234556677778888888888888876644222222333322 222 35777888888888876  3


Q ss_pred             CCC-hhhHHHHHHHHHHhhHHHHH
Q 023915          235 VVD-SSTRNLILKNSHLFGRQLIA  257 (275)
Q Consensus       235 ~p~-~~t~~~li~~~~~~g~~~~~  257 (275)
                      .|+ ...|-.+-+.|.+.|+...|
T Consensus       587 vP~es~v~~llgki~k~~~~~~~A  610 (638)
T KOG1126|consen  587 VPQESSVFALLGKIYKRLGNTDLA  610 (638)
T ss_pred             CcchHHHHHHHHHHHHHHccchHH
Confidence            454 56666667778777744433

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

Probab=99.15  E-value=1.5e-08  Score=85.35  Aligned_cols=212  Identities=9%  Similarity=0.042  Sum_probs=116.1

Q ss_pred             HHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcC--CCCChhhHHHHHHHHHccCCHHHHHHHH
Q 023915           11 FEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA--ISPDYNTFHILIKYFCKEKMYILAYRTM   88 (275)
Q Consensus        11 ~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g--~~p~~~t~~~li~~~~~~~~~~~a~~~~   88 (275)
                      .++|...|..++..-.. +..+...+-.+|...+++++|.++|+..++..  ..-+..+|.+++-..-+.    -++..+
T Consensus       335 ~~~A~~~~~klp~h~~n-t~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~----v~Ls~L  409 (638)
T KOG1126|consen  335 CREALNLFEKLPSHHYN-TGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDE----VALSYL  409 (638)
T ss_pred             HHHHHHHHHhhHHhcCC-chHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhh----HHHHHH
Confidence            45666666665544222 22455566667777777777777777766521  112344566555433221    122222


Q ss_pred             HHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhcCCChh
Q 023915           89 VDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSESISHP  168 (275)
Q Consensus        89 ~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~  168 (275)
                      .+-+-.--+-.+.+|.++-.+|.-.++++.|++.|++..+-... ...+|+.+-.-++....+|.|...|+.... .++.
T Consensus       410 aq~Li~~~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp~-faYayTLlGhE~~~~ee~d~a~~~fr~Al~-~~~r  487 (638)
T KOG1126|consen  410 AQDLIDTDPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLDPR-FAYAYTLLGHESIATEEFDKAMKSFRKALG-VDPR  487 (638)
T ss_pred             HHHHHhhCCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccCCc-cchhhhhcCChhhhhHHHHhHHHHHHhhhc-CCch
Confidence            22211111334557777777777777777777777765543222 234566666666666777777777776443 3344


Q ss_pred             HHHH---HHHHHHhcCChhHHHHHHHHHHHcCCCCCh-hhHHHHHHHHHHhchhHHHHHHHHHHHhhC
Q 023915          169 AIKK---FASAFVRLGNINLVNDVMKAIHATGYRIDQ-GIFHIAIARYIAEREKKELLLKLLEWMTGQ  232 (275)
Q Consensus       169 ~~~~---li~~~~~~~~~~~a~~~~~~m~~~g~~p~~-~~y~~li~~~~~~~~~~~~a~~l~~~m~~~  232 (275)
                      .|++   +--.|.+.++++.|+-.|+...+-  .|.. +....+...+- +.|+.|+|++++++....
T Consensus       488 hYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~I--NP~nsvi~~~~g~~~~-~~k~~d~AL~~~~~A~~l  552 (638)
T KOG1126|consen  488 HYNAWYGLGTVYLKQEKLEFAEFHFQKAVEI--NPSNSVILCHIGRIQH-QLKRKDKALQLYEKAIHL  552 (638)
T ss_pred             hhHHHHhhhhheeccchhhHHHHHHHhhhcC--CccchhHHhhhhHHHH-HhhhhhHHHHHHHHHHhc
Confidence            5544   345667777777777777665553  3432 23333333332 456677777777766543

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

Probab=99.13  E-value=1.5e-08  Score=84.89  Aligned_cols=238  Identities=13%  Similarity=0.012  Sum_probs=128.0

Q ss_pred             cCcHHHHHHHHHHHHhcCCCCcH-HhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCh-hhHHHHHHHHHccCCHHHHH
Q 023915            8 GGCFEEAKQLAGDFEAKYDKYDV-VLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDY-NTFHILIKYFCKEKMYILAY   85 (275)
Q Consensus         8 ~g~~~~a~~~~~~m~~~g~~p~~-~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-~t~~~li~~~~~~~~~~~a~   85 (275)
                      .|++..|+.-|++....  .|+- ..|-.|-..|...+.+++|+..|.+...  ..|+. ..|..+...|-..|.+|.|.
T Consensus       231 ~Gei~~aiq~y~eAvkl--dP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~--lrpn~A~a~gNla~iYyeqG~ldlAI  306 (966)
T KOG4626|consen  231 QGEIWLAIQHYEEAVKL--DPNFLDAYINLGNVYKEARIFDRAVSCYLRALN--LRPNHAVAHGNLACIYYEQGLLDLAI  306 (966)
T ss_pred             cchHHHHHHHHHHhhcC--CCcchHHHhhHHHHHHHHhcchHHHHHHHHHHh--cCCcchhhccceEEEEeccccHHHHH
Confidence            34444444444444332  2221 2344444444444444444444443332  33332 23344444445556666666


Q ss_pred             HHHHHHHHcCCCCC-HHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhcC
Q 023915           86 RTMVDMHRKGHQPE-EELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSES  164 (275)
Q Consensus        86 ~~~~~m~~~g~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  164 (275)
                      ..+++.++.  .|+ ...|+.|..++-..|++.+|...|+....-... .....+.+-..+...|.+++|..+|....+-
T Consensus       307 ~~Ykral~~--~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~p~-hadam~NLgni~~E~~~~e~A~~ly~~al~v  383 (966)
T KOG4626|consen  307 DTYKRALEL--QPNFPDAYNNLANALKDKGSVTEAVDCYNKALRLCPN-HADAMNNLGNIYREQGKIEEATRLYLKALEV  383 (966)
T ss_pred             HHHHHHHhc--CCCchHHHhHHHHHHHhccchHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHhccchHHHHHHHHHHhh
Confidence            666665543  444 236666666666666666666666655433221 1224555666666666666666666665442


Q ss_pred             --CChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCh-hhHHHHHHHHHHhchhHHHHHHHHHHHhhCCCCCC-hhh
Q 023915          165 --ISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQ-GIFHIAIARYIAEREKKELLLKLLEWMTGQGYVVD-SST  240 (275)
Q Consensus       165 --~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~-~~y~~li~~~~~~~~~~~~a~~l~~~m~~~~~~p~-~~t  240 (275)
                        ......+.|...|...|++++|...+++...  +.|+. ..|+.+-..|- ..|+.+.|.+.+.+...  +.|. ...
T Consensus       384 ~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykealr--I~P~fAda~~NmGnt~k-e~g~v~~A~q~y~rAI~--~nPt~AeA  458 (966)
T KOG4626|consen  384 FPEFAAAHNNLASIYKQQGNLDDAIMCYKEALR--IKPTFADALSNMGNTYK-EMGDVSAAIQCYTRAIQ--INPTFAEA  458 (966)
T ss_pred             ChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHh--cCchHHHHHHhcchHHH-HhhhHHHHHHHHHHHHh--cCcHHHHH
Confidence              1222556666677777777777777766555  45553 46666666653 56777777777766554  3454 456


Q ss_pred             HHHHHHHHHHhhHHHHH
Q 023915          241 RNLILKNSHLFGRQLIA  257 (275)
Q Consensus       241 ~~~li~~~~~~g~~~~~  257 (275)
                      .+.|-..|-.+|+...+
T Consensus       459 hsNLasi~kDsGni~~A  475 (966)
T KOG4626|consen  459 HSNLASIYKDSGNIPEA  475 (966)
T ss_pred             HhhHHHHhhccCCcHHH
Confidence            66777777777744333

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.13  E-value=3.1e-07  Score=82.55  Aligned_cols=255  Identities=14%  Similarity=0.040  Sum_probs=159.2

Q ss_pred             hhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHH
Q 023915            4 AFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYIL   83 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~   83 (275)
                      .+...|++++|.++|+.+.+..+. +...+..++..+...++.++|++.++.+..  ..|+...+..++..+...++..+
T Consensus       111 ly~~~gdyd~Aiely~kaL~~dP~-n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~--~dp~~~~~l~layL~~~~~~~~~  187 (822)
T PRK14574        111 AYRNEKRWDQALALWQSSLKKDPT-NPDLISGMIMTQADAGRGGVVLKQATELAE--RDPTVQNYMTLSYLNRATDRNYD  187 (822)
T ss_pred             HHHHcCCHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHhcc--cCcchHHHHHHHHHHHhcchHHH
Confidence            566779999999999999987655 566777888889999999999999999877  45777677555555555666666


Q ss_pred             HHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHH-----------------------------------------
Q 023915           84 AYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSV-----------------------------------------  122 (275)
Q Consensus        84 a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~-----------------------------------------  122 (275)
                      |+..++++.+.. +-+...+..++.+..+.|-...|.++                                         
T Consensus       188 AL~~~ekll~~~-P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~  266 (822)
T PRK14574        188 ALQASSEAVRLA-PTSEEVLKNHLEILQRNRIVEPALRLAKENPNLVSAEHYRQLERDAAAEQVRMAVLPTRSETERFDI  266 (822)
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccccCHHHHHHHHHHHHHHHHhhcccccccchhhHHH
Confidence            888888888763 22344555555555555543333322                                         


Q ss_pred             -------HHHHHh-ccccccH-HhH-HH---HHHHHHhccchHHHHHHHHHhhcCC-ChhHH--HHHHHHHHhcCChhHH
Q 023915          123 -------YNMLRY-SKRSMCK-ALH-EK---ILHILISGKLLKDAYVVVKDNSESI-SHPAI--KKFASAFVRLGNINLV  186 (275)
Q Consensus       123 -------~~~m~~-~~~~~~~-~~~-~~---li~~~~~~~~~~~a~~~~~~~~~~~-~~~~~--~~li~~~~~~~~~~~a  186 (275)
                             ++.+.. .+..|.. ..| .+   .+-++...+++.++++.++.+...+ ..|.|  ..+..+|...+.+++|
T Consensus       267 ~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA  346 (822)
T PRK14574        267 ADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKA  346 (822)
T ss_pred             HHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHH
Confidence                   222221 1111211 111 12   3446667777888888888877644 23444  4677788888888888


Q ss_pred             HHHHHHHHHcC-----CCCChhhHHHHHHHHHHhchhHHHHHHHHHHHhhCC-----------CCCC---hhhHHHHHHH
Q 023915          187 NDVMKAIHATG-----YRIDQGIFHIAIARYIAEREKKELLLKLLEWMTGQG-----------YVVD---SSTRNLILKN  247 (275)
Q Consensus       187 ~~~~~~m~~~g-----~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~~-----------~~p~---~~t~~~li~~  247 (275)
                      +.++..+....     ..++......|..+|. ..+++++|..+++.+.+.-           -.||   ...+..++..
T Consensus       347 ~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~l-d~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~  425 (822)
T PRK14574        347 APILSSLYYSDGKTFRNSDDLLDADDLYYSLN-ESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQS  425 (822)
T ss_pred             HHHHHHHhhccccccCCCcchHHHHHHHHHHH-hcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHH
Confidence            88887775532     1122333566777776 6678888888888776621           1233   2333344555


Q ss_pred             HHHhhHHHHHHHHhcc
Q 023915          248 SHLFGRQLIADILSKQ  263 (275)
Q Consensus       248 ~~~~g~~~~~~~~~~~  263 (275)
                      +...|+...|+...++
T Consensus       426 ~~~~gdl~~Ae~~le~  441 (822)
T PRK14574        426 LVALNDLPTAQKKLED  441 (822)
T ss_pred             HHHcCCHHHHHHHHHH
Confidence            6666655555554443

>PF12854 PPR_1: PPR repeat

Probab=99.11  E-value=9.7e-11  Score=60.72  Aligned_cols=32  Identities=28%  Similarity=0.448  Sum_probs=18.1

Q ss_pred             CCCCChhhHHHHHHHHHccCCHHHHHHHHHHH
Q 023915           60 AISPDYNTFHILIKYFCKEKMYILAYRTMVDM   91 (275)
Q Consensus        60 g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m   91 (275)
                      |+.||..||++||++|++.|++++|.++|++|
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            45555555555555555555555555555554

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

Probab=99.11  E-value=1.1e-07  Score=73.73  Aligned_cols=240  Identities=9%  Similarity=0.043  Sum_probs=160.8

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhcC-CCCcH--HhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccC
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAKY-DKYDV--VLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEK   79 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~g-~~p~~--~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~   79 (275)
                      +.|-+.|.++.|+++.+.+.+.. ..-+.  ...-.|-.-|...|-+|.|.++|..+.+.|. --......|+..|-...
T Consensus        77 nLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DRAE~~f~~L~de~e-fa~~AlqqLl~IYQ~tr  155 (389)
T COG2956          77 NLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRAEDIFNQLVDEGE-FAEGALQQLLNIYQATR  155 (389)
T ss_pred             HHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHhcchh-hhHHHHHHHHHHHHHhh
Confidence            45778899999999998888753 22222  2345666778888999999999988877542 22335678888888999


Q ss_pred             CHHHHHHHHHHHHHcCCCCCH----HhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHH
Q 023915           80 MYILAYRTMVDMHRKGHQPEE----ELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAY  155 (275)
Q Consensus        80 ~~~~a~~~~~~m~~~g~~~~~----~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~  155 (275)
                      +|++|..+-+++.+.|-.+..    .-|..+...+....+++.|...+....+...+.... --.+-+.....|+++.|.
T Consensus       156 eW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kAlqa~~~cvRA-si~lG~v~~~~g~y~~AV  234 (389)
T COG2956         156 EWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKKALQADKKCVRA-SIILGRVELAKGDYQKAV  234 (389)
T ss_pred             HHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHhhCccceeh-hhhhhHHHHhccchHHHH
Confidence            999999998888877655543    356677778888888888888888777654443321 123445666788888888


Q ss_pred             HHHHHhhcCCC---hhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhchhHHHHHHHHHHHhhC
Q 023915          156 VVVKDNSESIS---HPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTGQ  232 (275)
Q Consensus       156 ~~~~~~~~~~~---~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~  232 (275)
                      +.++...+...   +.....|..+|...|+.++....+..+.+....++.  -..+-..-....|.-+....+.+++.. 
T Consensus       235 ~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~~g~~~--~l~l~~lie~~~G~~~Aq~~l~~Ql~r-  311 (389)
T COG2956         235 EALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETNTGADA--ELMLADLIELQEGIDAAQAYLTRQLRR-  311 (389)
T ss_pred             HHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHccCCccH--HHHHHHHHHHhhChHHHHHHHHHHHhh-
Confidence            88888766322   235677888888889888888888887775322332  222222211133444433334444443 


Q ss_pred             CCCCChhhHHHHHHHHH
Q 023915          233 GYVVDSSTRNLILKNSH  249 (275)
Q Consensus       233 ~~~p~~~t~~~li~~~~  249 (275)
                        +|+..-+..+|+.-.
T Consensus       312 --~Pt~~gf~rl~~~~l  326 (389)
T COG2956         312 --KPTMRGFHRLMDYHL  326 (389)
T ss_pred             --CCcHHHHHHHHHhhh
Confidence              588888888887653

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

Probab=99.07  E-value=3.1e-07  Score=73.18  Aligned_cols=223  Identities=10%  Similarity=-0.005  Sum_probs=143.2

Q ss_pred             hhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCh-------hhHHHHHHHHHcc
Q 023915            6 CRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDY-------NTFHILIKYFCKE   78 (275)
Q Consensus         6 ~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-------~t~~~li~~~~~~   78 (275)
                      ...|+.+.|..-++++.+.+.. +.........+|.+.|++.....++..|.+.|+--|.       .+|+.+++-....
T Consensus       164 l~~~d~~aA~~~v~~ll~~~pr-~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~  242 (400)
T COG3071         164 LNRRDYPAARENVDQLLEMTPR-HPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDD  242 (400)
T ss_pred             HhCCCchhHHHHHHHHHHhCcC-ChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhcc
Confidence            3455666666666666655443 5556666666777777777777777777666654433       3566666666666


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHH
Q 023915           79 KMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVV  158 (275)
Q Consensus        79 ~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~  158 (275)
                      +..+.-...|++..+. .+-++..-.+++.-+.++|+.++|.++..+-...+..+..    ...-.+.+.++.+.-.+..
T Consensus       243 ~~~~gL~~~W~~~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L----~~~~~~l~~~d~~~l~k~~  317 (400)
T COG3071         243 NGSEGLKTWWKNQPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRL----CRLIPRLRPGDPEPLIKAA  317 (400)
T ss_pred             ccchHHHHHHHhccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhH----HHHHhhcCCCCchHHHHHH
Confidence            6655555555554432 2334445556666777777777777777777666665541    1222333444444444444


Q ss_pred             HHhhc-CCCh-hHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhchhHHHHHHHHHHHhhCCCCC
Q 023915          159 KDNSE-SISH-PAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTGQGYVV  236 (275)
Q Consensus       159 ~~~~~-~~~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~~~~p  236 (275)
                      ++-.. .+.. ..+.++-..|.+.+.|.+|...|+.-.+  ..|+..+|+.+-++|- +.|+..+|.+..++-...-.+|
T Consensus       318 e~~l~~h~~~p~L~~tLG~L~~k~~~w~kA~~~leaAl~--~~~s~~~~~~la~~~~-~~g~~~~A~~~r~e~L~~~~~~  394 (400)
T COG3071         318 EKWLKQHPEDPLLLSTLGRLALKNKLWGKASEALEAALK--LRPSASDYAELADALD-QLGEPEEAEQVRREALLLTRQP  394 (400)
T ss_pred             HHHHHhCCCChhHHHHHHHHHHHhhHHHHHHHHHHHHHh--cCCChhhHHHHHHHHH-HcCChHHHHHHHHHHHHHhcCC
Confidence            43222 3333 4677888999999999999999996555  5799999999999986 7799999999998866444444


Q ss_pred             C
Q 023915          237 D  237 (275)
Q Consensus       237 ~  237 (275)
                      +
T Consensus       395 ~  395 (400)
T COG3071         395 N  395 (400)
T ss_pred             C
Confidence            4

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.06  E-value=1.7e-07  Score=79.11  Aligned_cols=228  Identities=16%  Similarity=0.126  Sum_probs=164.9

Q ss_pred             hhhhhhcCcHHHHHHHHHHHHhc-----CC-CCcHH-hHHHHHHHHHccCCHHHHHHHHHHHhhc-----C-CCCC-hhh
Q 023915            2 ISAFCRGGCFEEAKQLAGDFEAK-----YD-KYDVV-LLNSMLCAYCRTGDMESVMHVMRKLDEL-----A-ISPD-YNT   67 (275)
Q Consensus         2 i~~~~~~g~~~~a~~~~~~m~~~-----g~-~p~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~-----g-~~p~-~~t   67 (275)
                      -..|...|+++.|..+++...+.     |. .|.+. ..+.+-..|...+++++|..+|+++..-     | ..|. ..+
T Consensus       206 a~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h~~va~~  285 (508)
T KOG1840|consen  206 AEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDHPAVAAT  285 (508)
T ss_pred             HHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCCHHHHHH
Confidence            35688999999999999887654     32 33443 3445667888899999999999998752     2 2232 346


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHH-----cCC-CCCHH-hHHHHHHHHhccCCHHHHHHHHHHHHhc---ccc----c
Q 023915           68 FHILIKYFCKEKMYILAYRTMVDMHR-----KGH-QPEEE-LCSSLIFHLGKMRAHSEALSVYNMLRYS---KRS----M  133 (275)
Q Consensus        68 ~~~li~~~~~~~~~~~a~~~~~~m~~-----~g~-~~~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~---~~~----~  133 (275)
                      ++.|-..|.+.|++++|...++...+     .|. .|.+. .++.+...|+..++++.|..+++.....   .+.    .
T Consensus       286 l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~  365 (508)
T KOG1840|consen  286 LNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVN  365 (508)
T ss_pred             HHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccchH
Confidence            78888899999999998888877652     122 23333 5667888889999999999998865432   111    2


Q ss_pred             cHHhHHHHHHHHHhccchHHHHHHHHHhhcC-----C--C---hhHHHHHHHHHHhcCChhHHHHHHHH----HHHcCC-
Q 023915          134 CKALHEKILHILISGKLLKDAYVVVKDNSES-----I--S---HPAIKKFASAFVRLGNINLVNDVMKA----IHATGY-  198 (275)
Q Consensus       134 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-----~--~---~~~~~~li~~~~~~~~~~~a~~~~~~----m~~~g~-  198 (275)
                      ...+++.+-..|-..|++++|++++++....     +  +   ...++.+-..|.+.++.+.|.++|.+    |+..|. 
T Consensus       366 ~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~  445 (508)
T KOG1840|consen  366 LAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPD  445 (508)
T ss_pred             HHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCC
Confidence            3457888999999999999999999986441     1  1   22567888899999999999999876    433332 


Q ss_pred             CCC-hhhHHHHHHHHHHhchhHHHHHHHHHHHh
Q 023915          199 RID-QGIFHIAIARYIAEREKKELLLKLLEWMT  230 (275)
Q Consensus       199 ~p~-~~~y~~li~~~~~~~~~~~~a~~l~~~m~  230 (275)
                      .|+ ..+|..|...| +..|+++.|.++.+...
T Consensus       446 ~~~~~~~~~nL~~~Y-~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  446 HPDVTYTYLNLAALY-RAQGNYEAAEELEEKVL  477 (508)
T ss_pred             CCchHHHHHHHHHHH-HHcccHHHHHHHHHHHH
Confidence            122 24788899888 47899999999888765

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.02  E-value=4.5e-07  Score=76.56  Aligned_cols=232  Identities=15%  Similarity=0.068  Sum_probs=168.2

Q ss_pred             HhHHHHHHHHHccCCHHHHHHHHHHHhhc-----C-CCCChhh-HHHHHHHHHccCCHHHHHHHHHHHHHc-----C-CC
Q 023915           31 VLLNSMLCAYCRTGDMESVMHVMRKLDEL-----A-ISPDYNT-FHILIKYFCKEKMYILAYRTMVDMHRK-----G-HQ   97 (275)
Q Consensus        31 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~-----g-~~p~~~t-~~~li~~~~~~~~~~~a~~~~~~m~~~-----g-~~   97 (275)
                      .+...|-..|...|+++.|+.++....+.     | .-|...+ .+.+-..|...+++++|..+|+++..-     | ..
T Consensus       200 ~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h  279 (508)
T KOG1840|consen  200 RTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDH  279 (508)
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCC
Confidence            46667999999999999999999887653     2 2344444 345777899999999999999998742     2 22


Q ss_pred             CC-HHhHHHHHHHHhccCCHHHHHHHHHHHHhc-------cccccHHhHHHHHHHHHhccchHHHHHHHHHhhc------
Q 023915           98 PE-EELCSSLIFHLGKMRAHSEALSVYNMLRYS-------KRSMCKALHEKILHILISGKLLKDAYVVVKDNSE------  163 (275)
Q Consensus        98 ~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-------~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~------  163 (275)
                      |. ..+++.|-.+|.+.|++++|...++....-       ..+--...++.+...++..+++++|..++....+      
T Consensus       280 ~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~  359 (508)
T KOG1840|consen  280 PAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAP  359 (508)
T ss_pred             HHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhc
Confidence            33 247788888999999999888777754421       1111233567788888999999999999887443      


Q ss_pred             ---C-CChhHHHHHHHHHHhcCChhHHHHHHHHHHHc----CC--CCC-hhhHHHHHHHHHHhchhHHHHHHHHHHHhh-
Q 023915          164 ---S-ISHPAIKKFASAFVRLGNINLVNDVMKAIHAT----GY--RID-QGIFHIAIARYIAEREKKELLLKLLEWMTG-  231 (275)
Q Consensus       164 ---~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----g~--~p~-~~~y~~li~~~~~~~~~~~~a~~l~~~m~~-  231 (275)
                         . ....+++.|-..|...|++++|.++++.....    +.  .+. ...++.|-..|. +.++.++|.++|.+-.. 
T Consensus       360 g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~-~~k~~~~a~~l~~~~~~i  438 (508)
T KOG1840|consen  360 GEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYE-ELKKYEEAEQLFEEAKDI  438 (508)
T ss_pred             cccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHH-HhcccchHHHHHHHHHHH
Confidence               1 11227889999999999999999999986653    22  222 346777777774 77888888888876432 


Q ss_pred             ---CCC-CCC-hhhHHHHHHHHHHhhHHHHHHHHhcc
Q 023915          232 ---QGY-VVD-SSTRNLILKNSHLFGRQLIADILSKQ  263 (275)
Q Consensus       232 ---~~~-~p~-~~t~~~li~~~~~~g~~~~~~~~~~~  263 (275)
                         .|. .|+ ..+|..|...|.+.|+.+.+..+...
T Consensus       439 ~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~  475 (508)
T KOG1840|consen  439 MKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEK  475 (508)
T ss_pred             HHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHH
Confidence               231 233 58999999999999988777766543

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

Probab=99.01  E-value=1.6e-06  Score=70.68  Aligned_cols=158  Identities=9%  Similarity=-0.030  Sum_probs=89.9

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHh
Q 023915           68 FHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILIS  147 (275)
Q Consensus        68 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~  147 (275)
                      +.++.+-|+-.++.++|...|++..+.+ +-....|+.+-+-|....+...|.+-++....-.+. +-..|-.+-++|.-
T Consensus       333 CCiIaNYYSlr~eHEKAv~YFkRALkLN-p~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~p~-DyRAWYGLGQaYei  410 (559)
T KOG1155|consen  333 CCIIANYYSLRSEHEKAVMYFKRALKLN-PKYLSAWTLMGHEYVEMKNTHAAIESYRRAVDINPR-DYRAWYGLGQAYEI  410 (559)
T ss_pred             eeeehhHHHHHHhHHHHHHHHHHHHhcC-cchhHHHHHhhHHHHHhcccHHHHHHHHHHHhcCch-hHHHHhhhhHHHHH
Confidence            3344444555667777777777766543 222345666666666666666666666665543222 33345556666666


Q ss_pred             ccchHHHHHHHHHhhc--CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhchhHHHHHHH
Q 023915          148 GKLLKDAYVVVKDNSE--SISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKL  225 (275)
Q Consensus       148 ~~~~~~a~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~~a~~l  225 (275)
                      .+...-|+-.|++...  ..++..+.+|-..|.+.++.++|+..|+.....| ..+...|..|-+.|= +.++..+|...
T Consensus       411 m~Mh~YaLyYfqkA~~~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~-dte~~~l~~LakLye-~l~d~~eAa~~  488 (559)
T KOG1155|consen  411 MKMHFYALYYFQKALELKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLG-DTEGSALVRLAKLYE-ELKDLNEAAQY  488 (559)
T ss_pred             hcchHHHHHHHHHHHhcCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcc-ccchHHHHHHHHHHH-HHHhHHHHHHH
Confidence            6666666666666544  2333356666666666666666666666655543 224455666666553 55555555555


Q ss_pred             HHHH
Q 023915          226 LEWM  229 (275)
Q Consensus       226 ~~~m  229 (275)
                      |+.-
T Consensus       489 yek~  492 (559)
T KOG1155|consen  489 YEKY  492 (559)
T ss_pred             HHHH
Confidence            5443

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

Probab=99.00  E-value=1.8e-06  Score=70.37  Aligned_cols=146  Identities=13%  Similarity=0.068  Sum_probs=75.9

Q ss_pred             CHHHHHHHHHHHhhcCCCCCh-hhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHH
Q 023915           45 DMESVMHVMRKLDELAISPDY-NTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVY  123 (275)
Q Consensus        45 ~~~~a~~~~~~m~~~g~~p~~-~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~  123 (275)
                      +.++|...|+...+  +.|.. ..|+.+-+-|...++...|.+-++...+-. +.|-..|-.|-++|.-.+.+.-|+-.|
T Consensus       345 eHEKAv~YFkRALk--LNp~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~-p~DyRAWYGLGQaYeim~Mh~YaLyYf  421 (559)
T KOG1155|consen  345 EHEKAVMYFKRALK--LNPKYLSAWTLMGHEYVEMKNTHAAIESYRRAVDIN-PRDYRAWYGLGQAYEIMKMHFYALYYF  421 (559)
T ss_pred             hHHHHHHHHHHHHh--cCcchhHHHHHhhHHHHHhcccHHHHHHHHHHHhcC-chhHHHHhhhhHHHHHhcchHHHHHHH
Confidence            44555555555544  22332 234444455555555555555555555432 334455555555555555555555555


Q ss_pred             HHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhcCCCh--hHHHHHHHHHHhcCChhHHHHHHHHHH
Q 023915          124 NMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSESISH--PAIKKFASAFVRLGNINLVNDVMKAIH  194 (275)
Q Consensus       124 ~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~li~~~~~~~~~~~a~~~~~~m~  194 (275)
                      ++...-. +-++..|.++-++|.+.++.++|++.|+.....++.  ..+..+.+.|-+.++.++|-..|....
T Consensus       422 qkA~~~k-PnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte~~~l~~LakLye~l~d~~eAa~~yek~v  493 (559)
T KOG1155|consen  422 QKALELK-PNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDTEGSALVRLAKLYEELKDLNEAAQYYEKYV  493 (559)
T ss_pred             HHHHhcC-CCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            5544321 223445555555555555666666555555443333  345555555555555555555555433

>PRK11189 lipoprotein NlpI; Provisional

Probab=98.99  E-value=2.7e-06  Score=68.30  Aligned_cols=227  Identities=13%  Similarity=-0.017  Sum_probs=157.0

Q ss_pred             cCcHHHHHHHHHHHHhcC-CCCc--HHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCC-hhhHHHHHHHHHccCCHHH
Q 023915            8 GGCFEEAKQLAGDFEAKY-DKYD--VVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYIL   83 (275)
Q Consensus         8 ~g~~~~a~~~~~~m~~~g-~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~~   83 (275)
                      .+..+.++.-+.++.... ..|+  ...|..+-..+.+.|+.++|...|++..+.  .|+ ...|+.+...+...|+++.
T Consensus        39 ~~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l--~P~~~~a~~~lg~~~~~~g~~~~  116 (296)
T PRK11189         39 TLQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALAL--RPDMADAYNYLGIYLTQAGNFDA  116 (296)
T ss_pred             chHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHCCCHHH
Confidence            456677778887777532 2332  356888888899999999999999998874  454 5789999999999999999


Q ss_pred             HHHHHHHHHHcCCCCC-HHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhh
Q 023915           84 AYRTMVDMHRKGHQPE-EELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNS  162 (275)
Q Consensus        84 a~~~~~~m~~~g~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~  162 (275)
                      |...|+...+.  .|+ ..+|..+..++...|++++|.+.|+......+....  .......+...++.++|...+.+..
T Consensus       117 A~~~~~~Al~l--~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~P~~~~--~~~~~~l~~~~~~~~~A~~~l~~~~  192 (296)
T PRK11189        117 AYEAFDSVLEL--DPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQDDPNDPY--RALWLYLAESKLDPKQAKENLKQRY  192 (296)
T ss_pred             HHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHH--HHHHHHHHHccCCHHHHHHHHHHHH
Confidence            99999999875  454 567888888899999999999999988765433221  1122222345678999999997755


Q ss_pred             cCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHc---C--CCC-ChhhHHHHHHHHHHhchhHHHHHHHHHHHhhCCCCC
Q 023915          163 ESISHPAIKKFASAFVRLGNINLVNDVMKAIHAT---G--YRI-DQGIFHIAIARYIAEREKKELLLKLLEWMTGQGYVV  236 (275)
Q Consensus       163 ~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~---g--~~p-~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~~~~p  236 (275)
                      ...+++.+.. .......|+...+ +.+..+.+.   .  +.| ....|..+-..+. ..|+.++|...|++....+ +|
T Consensus       193 ~~~~~~~~~~-~~~~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~-~~g~~~~A~~~~~~Al~~~-~~  268 (296)
T PRK11189        193 EKLDKEQWGW-NIVEFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYL-SLGDLDEAAALFKLALANN-VY  268 (296)
T ss_pred             hhCCccccHH-HHHHHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHH-HCCCHHHHHHHHHHHHHhC-Cc
Confidence            5444444432 2333345666554 345554431   1  111 2246777777775 7799999999999998755 34


Q ss_pred             ChhhHHHH
Q 023915          237 DSSTRNLI  244 (275)
Q Consensus       237 ~~~t~~~l  244 (275)
                      |..-+...
T Consensus       269 ~~~e~~~~  276 (296)
T PRK11189        269 NFVEHRYA  276 (296)
T ss_pred             hHHHHHHH
Confidence            54444443

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

Probab=98.93  E-value=1.4e-07  Score=73.47  Aligned_cols=221  Identities=10%  Similarity=-0.042  Sum_probs=175.0

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHH-HHHHHHHccCCH
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFH-ILIKYFCKEKMY   81 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~-~li~~~~~~~~~   81 (275)
                      +.|.+.|...+|...|+.-.+.  .|-+.||-.|-.+|.+..++..|+.+|.+-.+  ..|-.+||- -..+.+-..++.
T Consensus       231 kCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld--~fP~~VT~l~g~ARi~eam~~~  306 (478)
T KOG1129|consen  231 KCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLD--SFPFDVTYLLGQARIHEAMEQQ  306 (478)
T ss_pred             HHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhh--cCCchhhhhhhhHHHHHHHHhH
Confidence            4677889999999999988876  56777899999999999999999999988766  446666664 556677788999


Q ss_pred             HHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHh
Q 023915           82 ILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDN  161 (275)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  161 (275)
                      +.|.+++....+.. ..++.....+-..|.-.++++.|+..|+.+.+.|... +..|+.+--+|.-.++++-++.-|...
T Consensus       307 ~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~s-peLf~NigLCC~yaqQ~D~~L~sf~RA  384 (478)
T KOG1129|consen  307 EDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQS-PELFCNIGLCCLYAQQIDLVLPSFQRA  384 (478)
T ss_pred             HHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHHHHHhcCCC-hHHHhhHHHHHHhhcchhhhHHHHHHH
Confidence            99999999988653 4566677778888888999999999999999988874 447888888888899999999988876


Q ss_pred             hcCCC-----hhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhchhHHHHHHHHHHHhh
Q 023915          162 SESIS-----HPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTG  231 (275)
Q Consensus       162 ~~~~~-----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~  231 (275)
                      .....     .+.|-.+-......|++..|.+.|+.....+ .-+...+|.|--. ..+.|++++|..+++....
T Consensus       385 lstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d-~~h~ealnNLavL-~~r~G~i~~Arsll~~A~s  457 (478)
T KOG1129|consen  385 LSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSD-AQHGEALNNLAVL-AARSGDILGARSLLNAAKS  457 (478)
T ss_pred             HhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccC-cchHHHHHhHHHH-HhhcCchHHHHHHHHHhhh
Confidence            55322     2256666677778899999999998877654 2244677776644 3477999999999997765

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

Probab=98.93  E-value=6e-06  Score=72.32  Aligned_cols=254  Identities=13%  Similarity=0.073  Sum_probs=174.5

Q ss_pred             hhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCC-ChhhHHHHHHHHHccCCHH
Q 023915            4 AFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP-DYNTFHILIKYFCKEKMYI   82 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~t~~~li~~~~~~~~~~   82 (275)
                      .+++ |++++|.+++.+..+..+. +...|-+|-..|-+.|+.+++...+-..  .-+.| |...|..+-....+.|+++
T Consensus       149 lfar-g~~eeA~~i~~EvIkqdp~-~~~ay~tL~~IyEqrGd~eK~l~~~llA--AHL~p~d~e~W~~ladls~~~~~i~  224 (895)
T KOG2076|consen  149 LFAR-GDLEEAEEILMEVIKQDPR-NPIAYYTLGEIYEQRGDIEKALNFWLLA--AHLNPKDYELWKRLADLSEQLGNIN  224 (895)
T ss_pred             HHHh-CCHHHHHHHHHHHHHhCcc-chhhHHHHHHHHHHcccHHHHHHHHHHH--HhcCCCChHHHHHHHHHHHhcccHH
Confidence            3455 9999999999999987654 7789999999999999999999887443  33444 5567888888888999999


Q ss_pred             HHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhH----HHHHHHHHhccchHHHHHHH
Q 023915           83 LAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALH----EKILHILISGKLLKDAYVVV  158 (275)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~----~~li~~~~~~~~~~~a~~~~  158 (275)
                      .|.-.|.+.++.. +++...+-.-+..|-+.|+...|...|.++.+..++.+-.-+    -.+++.+...+..+.|.+.+
T Consensus       225 qA~~cy~rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~l  303 (895)
T KOG2076|consen  225 QARYCYSRAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKAL  303 (895)
T ss_pred             HHHHHHHHHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            9999999998764 455556666777888899999999999888765443332222    23455566666667777777


Q ss_pred             HHhhc----CCChhHHHHHHHHHHhcCChhHHHHHHHHHHH---------------------------------------
Q 023915          159 KDNSE----SISHPAIKKFASAFVRLGNINLVNDVMKAIHA---------------------------------------  195 (275)
Q Consensus       159 ~~~~~----~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---------------------------------------  195 (275)
                      .....    ....++++.++..+.+...++.+......+..                                       
T Consensus       304 e~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~rl  383 (895)
T KOG2076|consen  304 EGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVIRL  383 (895)
T ss_pred             HHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhHhH
Confidence            76543    33445777777777777777777666665554                                       


Q ss_pred             ----------------------cCCCC--ChhhHHHHHHHHHHhchhHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHHh
Q 023915          196 ----------------------TGYRI--DQGIFHIAIARYIAEREKKELLLKLLEWMTGQGYVVDSSTRNLILKNSHLF  251 (275)
Q Consensus       196 ----------------------~g~~p--~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~~~~p~~~t~~~li~~~~~~  251 (275)
                                            ..+.|  +...|.-+..+|. ..|++.+|..+|..+...-..-+...|--+-++|...
T Consensus       384 ~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~-~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l  462 (895)
T KOG2076|consen  384 MICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALT-NIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMEL  462 (895)
T ss_pred             hhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHH-hcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHH
Confidence                                  11111  1123333444554 5677777888887777665555566666677777666


Q ss_pred             hHHHHHHHHhcc
Q 023915          252 GRQLIADILSKQ  263 (275)
Q Consensus       252 g~~~~~~~~~~~  263 (275)
                      |....|....+.
T Consensus       463 ~e~e~A~e~y~k  474 (895)
T KOG2076|consen  463 GEYEEAIEFYEK  474 (895)
T ss_pred             hhHHHHHHHHHH
Confidence            655555444433

>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=98.91  E-value=1.7e-07  Score=74.41  Aligned_cols=234  Identities=14%  Similarity=0.078  Sum_probs=144.8

Q ss_pred             hcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHH
Q 023915            7 RGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYR   86 (275)
Q Consensus         7 ~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~   86 (275)
                      =.|++..++.-.+ ........+......+.+++.-.|+.+.++   .+..... .|.......+...+...++-+.+..
T Consensus        13 y~G~Y~~~i~e~~-~~~~~~~~~~e~~~~~~Rs~iAlg~~~~vl---~ei~~~~-~~~l~av~~la~y~~~~~~~e~~l~   87 (290)
T PF04733_consen   13 YLGNYQQCINEAS-LKSFSPENKLERDFYQYRSYIALGQYDSVL---SEIKKSS-SPELQAVRLLAEYLSSPSDKESALE   87 (290)
T ss_dssp             CTT-HHHHCHHHH-CHTSTCHHHHHHHHHHHHHHHHTT-HHHHH---HHS-TTS-SCCCHHHHHHHHHHCTSTTHHCHHH
T ss_pred             HhhhHHHHHHHhh-ccCCCchhHHHHHHHHHHHHHHcCChhHHH---HHhccCC-ChhHHHHHHHHHHHhCccchHHHHH
Confidence            3577777776555 332322334556677888888888877544   4444433 6777766666555554455555555


Q ss_pred             HHHHHHHcCCCC-CHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhcCC
Q 023915           87 TMVDMHRKGHQP-EEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSESI  165 (275)
Q Consensus        87 ~~~~m~~~g~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~  165 (275)
                      -+++....+..+ +.......-..+...|++++|++++..-      .+.......+..|.+.++++.|.+.++.|.+..
T Consensus        88 ~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~~  161 (290)
T PF04733_consen   88 ELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNMQQID  161 (290)
T ss_dssp             HHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCCS
T ss_pred             HHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            544443333332 2222233334566789999998887642      234456678888999999999999999988765


Q ss_pred             ChhHHHHHHHHHH----hcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhchhHHHHHHHHHHHhhCCCCCChhhH
Q 023915          166 SHPAIKKFASAFV----RLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTGQGYVVDSSTR  241 (275)
Q Consensus       166 ~~~~~~~li~~~~----~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~~~~p~~~t~  241 (275)
                      ...+...+..++.    -..++++|..+|+++.+. ..++..+.+.+..+.. ..|++++|.+++.+..... +-|..|.
T Consensus       162 eD~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l-~~~~~~eAe~~L~~al~~~-~~~~d~L  238 (290)
T PF04733_consen  162 EDSILTQLAEAWVNLATGGEKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHL-QLGHYEEAEELLEEALEKD-PNDPDTL  238 (290)
T ss_dssp             CCHHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHH-HCT-HHHHHHHHHHHCCC--CCHHHHH
T ss_pred             CcHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHH-HhCCHHHHHHHHHHHHHhc-cCCHHHH
Confidence            5555554544433    334789999999998664 5577778887777766 7799999999998876543 3345666


Q ss_pred             HHHHHHHHHhhHH
Q 023915          242 NLILKNSHLFGRQ  254 (275)
Q Consensus       242 ~~li~~~~~~g~~  254 (275)
                      ..++-.....|+.
T Consensus       239 aNliv~~~~~gk~  251 (290)
T PF04733_consen  239 ANLIVCSLHLGKP  251 (290)
T ss_dssp             HHHHHHHHHTT-T
T ss_pred             HHHHHHHHHhCCC
Confidence            7777777776744

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.

>PRK11189 lipoprotein NlpI; Provisional

Probab=98.90  E-value=4.9e-06  Score=66.77  Aligned_cols=193  Identities=9%  Similarity=-0.002  Sum_probs=135.1

Q ss_pred             hhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCC-hhhHHHHHHHHHccCCHH
Q 023915            4 AFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYI   82 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~   82 (275)
                      .+.+.|+.++|...|+...+..+. +...|+.+-..+...|++++|.+.|+...+  +.|+ ..+|..+...+...|+++
T Consensus        73 ~~~~~g~~~~A~~~~~~Al~l~P~-~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~--l~P~~~~a~~~lg~~l~~~g~~~  149 (296)
T PRK11189         73 LYDSLGLRALARNDFSQALALRPD-MADAYNYLGIYLTQAGNFDAAYEAFDSVLE--LDPTYNYAYLNRGIALYYGGRYE  149 (296)
T ss_pred             HHHHCCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHCCCHH
Confidence            466789999999999999887544 678999999999999999999999999987  4575 457788888899999999


Q ss_pred             HHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhh
Q 023915           83 LAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNS  162 (275)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~  162 (275)
                      +|.+.|+...+.  .|+..........+...++.++|...|....... .++  .|.. .......|+...+ +.+..+.
T Consensus       150 eA~~~~~~al~~--~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~~-~~~--~~~~-~~~~~~lg~~~~~-~~~~~~~  222 (296)
T PRK11189        150 LAQDDLLAFYQD--DPNDPYRALWLYLAESKLDPKQAKENLKQRYEKL-DKE--QWGW-NIVEFYLGKISEE-TLMERLK  222 (296)
T ss_pred             HHHHHHHHHHHh--CCCCHHHHHHHHHHHccCCHHHHHHHHHHHHhhC-Ccc--ccHH-HHHHHHccCCCHH-HHHHHHH
Confidence            999999999875  4543322222223445678999999997654332 222  1221 1222234554433 2333332


Q ss_pred             cC---------CChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHH
Q 023915          163 ES---------ISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHI  207 (275)
Q Consensus       163 ~~---------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~  207 (275)
                      ..         .....|..+...+...|++++|...|+...+.+ +||..-+..
T Consensus       223 ~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~-~~~~~e~~~  275 (296)
T PRK11189        223 AGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANN-VYNFVEHRY  275 (296)
T ss_pred             hcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CchHHHHHH
Confidence            21         112257788899999999999999999988754 345444443

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

Probab=98.87  E-value=2.2e-05  Score=67.22  Aligned_cols=225  Identities=15%  Similarity=0.047  Sum_probs=141.8

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhcCCCCcH-HhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHH----c
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAKYDKYDV-VLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFC----K   77 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~-~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~----~   77 (275)
                      ..+...|++++|++.++.-...  -+|. ..+...-..+.+.|+.++|..+|..+.+.+  |+...|-..+..+.    .
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            4567789999999998775543  3354 456677778888999999999999998865  77777655444443    1


Q ss_pred             --cCCHHHHHHHHHHHHH----------------------------------cCCCCCHHhHHHHHHHHhccCCHHHHHH
Q 023915           78 --EKMYILAYRTMVDMHR----------------------------------KGHQPEEELCSSLIFHLGKMRAHSEALS  121 (275)
Q Consensus        78 --~~~~~~a~~~~~~m~~----------------------------------~g~~~~~~~~~~li~~~~~~g~~~~a~~  121 (275)
                        ..+.+....+++++..                                  .|++   .+|+.|-..|.......-..+
T Consensus        88 ~~~~~~~~~~~~y~~l~~~yp~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvP---slF~~lk~Ly~d~~K~~~i~~  164 (517)
T PF12569_consen   88 LSDEDVEKLLELYDELAEKYPRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVP---SLFSNLKPLYKDPEKAAIIES  164 (517)
T ss_pred             cccccHHHHHHHHHHHHHhCccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCc---hHHHHHHHHHcChhHHHHHHH
Confidence              1245555666666543                                  2221   234444444443334444444


Q ss_pred             HHHHHHhc--------------cccccHHhH--HHHHHHHHhccchHHHHHHHHHhhc-CCC-hhHHHHHHHHHHhcCCh
Q 023915          122 VYNMLRYS--------------KRSMCKALH--EKILHILISGKLLKDAYVVVKDNSE-SIS-HPAIKKFASAFVRLGNI  183 (275)
Q Consensus       122 ~~~~m~~~--------------~~~~~~~~~--~~li~~~~~~~~~~~a~~~~~~~~~-~~~-~~~~~~li~~~~~~~~~  183 (275)
                      ++......              .-+|+...|  .-+-+.|-..|++++|++.+++..+ .|+ +..|..-.+.+-..|++
T Consensus       165 l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~htPt~~ely~~KarilKh~G~~  244 (517)
T PF12569_consen  165 LVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEHTPTLVELYMTKARILKHAGDL  244 (517)
T ss_pred             HHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHCCCH
Confidence            44443321              112333233  3455666778888888888887555 333 33666777888888888


Q ss_pred             hHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhchhHHHHHHHHHHHhhCCCCC
Q 023915          184 NLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTGQGYVV  236 (275)
Q Consensus       184 ~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~~~~p  236 (275)
                      ++|.+.++..+.... -|...=+.....+. +.|++++|.+++......+..|
T Consensus       245 ~~Aa~~~~~Ar~LD~-~DRyiNsK~aKy~L-Ra~~~e~A~~~~~~Ftr~~~~~  295 (517)
T PF12569_consen  245 KEAAEAMDEARELDL-ADRYINSKCAKYLL-RAGRIEEAEKTASLFTREDVDP  295 (517)
T ss_pred             HHHHHHHHHHHhCCh-hhHHHHHHHHHHHH-HCCCHHHHHHHHHhhcCCCCCc
Confidence            888888888777542 24444444454444 7788888888888887766544

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=98.83  E-value=2.8e-06  Score=69.22  Aligned_cols=201  Identities=12%  Similarity=0.074  Sum_probs=151.9

Q ss_pred             hcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHH
Q 023915            7 RGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYR   86 (275)
Q Consensus         7 ~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~   86 (275)
                      -+|++++|.+.+.+....+..-....||+=+ .+-..|+.++|++.|-.+..- +.-+......+.+.|-...+...|.+
T Consensus       502 ~ngd~dka~~~ykeal~ndasc~ealfnigl-t~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie  579 (840)
T KOG2003|consen  502 ANGDLDKAAEFYKEALNNDASCTEALFNIGL-TAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIE  579 (840)
T ss_pred             ecCcHHHHHHHHHHHHcCchHHHHHHHHhcc-cHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHH
Confidence            4699999999999998764333333444433 345679999999999887642 23455666777888888999999999


Q ss_pred             HHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhc-CC
Q 023915           87 TMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSE-SI  165 (275)
Q Consensus        87 ~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~-~~  165 (275)
                      ++.+.... ++-|+...+.|-+.|-+.|+...|++.+-+-- .-.+.+..+...+-.-|....-++.++..|++..- .+
T Consensus       580 ~~~q~~sl-ip~dp~ilskl~dlydqegdksqafq~~ydsy-ryfp~nie~iewl~ayyidtqf~ekai~y~ekaaliqp  657 (840)
T KOG2003|consen  580 LLMQANSL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSY-RYFPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQP  657 (840)
T ss_pred             HHHHhccc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhcc-cccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCc
Confidence            98776532 45567889999999999999999998865432 22344555677788888888889999999998654 66


Q ss_pred             ChhHHHHHHHHH-HhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHH
Q 023915          166 SHPAIKKFASAF-VRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARY  212 (275)
Q Consensus       166 ~~~~~~~li~~~-~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~  212 (275)
                      +...|..||..| .+.|++++|..+++.... .++-|..+..-|++.+
T Consensus       658 ~~~kwqlmiasc~rrsgnyqka~d~yk~~hr-kfpedldclkflvri~  704 (840)
T KOG2003|consen  658 NQSKWQLMIASCFRRSGNYQKAFDLYKDIHR-KFPEDLDCLKFLVRIA  704 (840)
T ss_pred             cHHHHHHHHHHHHHhcccHHHHHHHHHHHHH-hCccchHHHHHHHHHh
Confidence            677888887655 567999999999999877 4667888888887764

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

Probab=98.82  E-value=1.7e-05  Score=59.14  Aligned_cols=203  Identities=12%  Similarity=0.059  Sum_probs=156.8

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCC-hhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHH
Q 023915           32 LLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHL  110 (275)
Q Consensus        32 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~  110 (275)
                      +...|--+|.+.|+...|..-+++..+.  .|+ ..+|..+...|-+.|..+.|.+-|+...... +-+..+.|..-..+
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~--DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~-p~~GdVLNNYG~FL  113 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEH--DPSYYLAHLVRAHYYQKLGENDLADESYRKALSLA-PNNGDVLNNYGAFL  113 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC-CCccchhhhhhHHH
Confidence            4566777899999999999999998884  355 4578888889999999999999999987653 23445777888888


Q ss_pred             hccCCHHHHHHHHHHHHhccc-cccHHhHHHHHHHHHhccchHHHHHHHHHhhc--CCChhHHHHHHHHHHhcCChhHHH
Q 023915          111 GKMRAHSEALSVYNMLRYSKR-SMCKALHEKILHILISGKLLKDAYVVVKDNSE--SISHPAIKKFASAFVRLGNINLVN  187 (275)
Q Consensus       111 ~~~g~~~~a~~~~~~m~~~~~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~  187 (275)
                      |..|++++|...|+....... .-...+|..+.-+..+.|+.+.|.+.|++...  ...+++.-.+.......|+...|.
T Consensus       114 C~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~~~~~~l~~a~~~~~~~~y~~Ar  193 (250)
T COG3063         114 CAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQFPPALLELARLHYKAGDYAPAR  193 (250)
T ss_pred             HhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcCCChHHHHHHHHHHhcccchHHH
Confidence            999999999999998776533 33345788888888899999999999998765  344557788889999999999999


Q ss_pred             HHHHHHHHcCCCCChhhHHHHHHHHHHhchhHHHHHHHHHHHhhCCCCCChhhH
Q 023915          188 DVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTGQGYVVDSSTR  241 (275)
Q Consensus       188 ~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~~~~p~~~t~  241 (275)
                      ..++.....+. ++..+....|+. .+..|+-+.+.+.=..+...  .|...-|
T Consensus       194 ~~~~~~~~~~~-~~A~sL~L~iri-ak~~gd~~~a~~Y~~qL~r~--fP~s~e~  243 (250)
T COG3063         194 LYLERYQQRGG-AQAESLLLGIRI-AKRLGDRAAAQRYQAQLQRL--FPYSEEY  243 (250)
T ss_pred             HHHHHHHhccc-ccHHHHHHHHHH-HHHhccHHHHHHHHHHHHHh--CCCcHHH
Confidence            99998888665 888888877765 46778888666665555543  3444333

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.79  E-value=8.7e-09  Score=54.07  Aligned_cols=33  Identities=24%  Similarity=0.619  Sum_probs=22.9

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCC
Q 023915           32 LLNSMLCAYCRTGDMESVMHVMRKLDELAISPD   64 (275)
Q Consensus        32 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~   64 (275)
                      +||++|.+|++.|++++|.++|++|.+.|++||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            566777777777777777777777776666665

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.

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

Probab=98.74  E-value=3.1e-05  Score=66.30  Aligned_cols=242  Identities=14%  Similarity=0.093  Sum_probs=156.3

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHcc-----CCHHHHHHHHHHHhhcC---CCC--------C--
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRT-----GDMESVMHVMRKLDELA---ISP--------D--   64 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~-----g~~~~a~~~~~~m~~~g---~~p--------~--   64 (275)
                      ..+.+.|+.++|..+|..+...++. |..-|..+..+..-.     .+.+...++|+++.+.-   ..|        +  
T Consensus        46 ~ll~kLg~~~eA~~~y~~Li~rNPd-n~~Yy~~L~~~~g~~~~~~~~~~~~~~~~y~~l~~~yp~s~~~~rl~L~~~~g~  124 (517)
T PF12569_consen   46 ELLLKLGRKEEAEKIYRELIDRNPD-NYDYYRGLEEALGLQLQLSDEDVEKLLELYDELAEKYPRSDAPRRLPLDFLEGD  124 (517)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHhhhcccccccHHHHHHHHHHHHHhCccccchhHhhcccCCHH
Confidence            4578899999999999999988543 444555555555222     24666777777775431   000        0  


Q ss_pred             ------------------hhhHHHHHHHHHccCCHHHHHHHHHHHHHc----C----------CCCCH--HhHHHHHHHH
Q 023915           65 ------------------YNTFHILIKYFCKEKMYILAYRTMVDMHRK----G----------HQPEE--ELCSSLIFHL  110 (275)
Q Consensus        65 ------------------~~t~~~li~~~~~~~~~~~a~~~~~~m~~~----g----------~~~~~--~~~~~li~~~  110 (275)
                                        ..+|+.|-..|....+.+-..+++......    |          -.|+.  .++..+-..|
T Consensus       125 ~F~~~~~~yl~~~l~KgvPslF~~lk~Ly~d~~K~~~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhy  204 (517)
T PF12569_consen  125 EFKERLDEYLRPQLRKGVPSLFSNLKPLYKDPEKAAIIESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHY  204 (517)
T ss_pred             HHHHHHHHHHHHHHhcCCchHHHHHHHHHcChhHHHHHHHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHH
Confidence                              124455555555555555556666665432    1          13444  3456667788


Q ss_pred             hccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhcCCChh--HHHHHHHHHHhcCChhHHHH
Q 023915          111 GKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSESISHP--AIKKFASAFVRLGNINLVND  188 (275)
Q Consensus       111 ~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~li~~~~~~~~~~~a~~  188 (275)
                      -..|+.++|+++.+......++ ....|..--+.+-+.|++.+|.+.++....--..+  .-+.....+.+.|++++|.+
T Consensus       205 d~~g~~~~Al~~Id~aI~htPt-~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~~DRyiNsK~aKy~LRa~~~e~A~~  283 (517)
T PF12569_consen  205 DYLGDYEKALEYIDKAIEHTPT-LVELYMTKARILKHAGDLKEAAEAMDEARELDLADRYINSKCAKYLLRAGRIEEAEK  283 (517)
T ss_pred             HHhCCHHHHHHHHHHHHhcCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCChhhHHHHHHHHHHHHHCCCHHHHHH
Confidence            8999999999999987766433 25578888899999999999999999877633333  44567889999999999999


Q ss_pred             HHHHHHHcCCCCChhhH--------HHHHHHHHHhchhHHHHHH-------HHHHHhhCCC--------CCChhhHHHHH
Q 023915          189 VMKAIHATGYRIDQGIF--------HIAIARYIAEREKKELLLK-------LLEWMTGQGY--------VVDSSTRNLIL  245 (275)
Q Consensus       189 ~~~~m~~~g~~p~~~~y--------~~li~~~~~~~~~~~~a~~-------l~~~m~~~~~--------~p~~~t~~~li  245 (275)
                      ++......+..|-...+        ...-.+|. +.|++..|++       .|+++.+..+        +.+..+|..++
T Consensus       284 ~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~-r~~~~~~ALk~~~~v~k~f~~~~~DQfDFH~Yc~RK~t~r~Y~~~L  362 (517)
T PF12569_consen  284 TASLFTREDVDPLSNLNDMQCMWFETECAEAYL-RQGDYGLALKRFHAVLKHFDDFEEDQFDFHSYCLRKMTLRAYVDML  362 (517)
T ss_pred             HHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHHHHHHhcccccHHHHHHhhccHHHHHHHH
Confidence            99998877654433222        22333444 3455555554       4455544332        24455555555


Q ss_pred             HH
Q 023915          246 KN  247 (275)
Q Consensus       246 ~~  247 (275)
                      +.
T Consensus       363 ~~  364 (517)
T PF12569_consen  363 RW  364 (517)
T ss_pred             HH
Confidence            54

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 [], [].

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.73  E-value=2e-08  Score=52.26  Aligned_cols=33  Identities=21%  Similarity=0.502  Sum_probs=20.2

Q ss_pred             HhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCC
Q 023915           31 VLLNSMLCAYCRTGDMESVMHVMRKLDELAISP   63 (275)
Q Consensus        31 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p   63 (275)
                      .+||++|.+|++.|+++.|.++|++|.+.|++|
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            356666666666666666666666666666555

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

Probab=98.73  E-value=2.7e-05  Score=58.02  Aligned_cols=199  Identities=9%  Similarity=-0.011  Sum_probs=156.6

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCh-hhHHHHHHHHHccCCH
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDY-NTFHILIKYFCKEKMY   81 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-~t~~~li~~~~~~~~~   81 (275)
                      -.|.+.|+...|..-+++..+.++. +..+|..+-..|.+.|..+.|.+-|+...+  +.|+. ...|.--..+|..|.+
T Consensus        43 l~YL~~gd~~~A~~nlekAL~~DPs-~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAls--l~p~~GdVLNNYG~FLC~qg~~  119 (250)
T COG3063          43 LGYLQQGDYAQAKKNLEKALEHDPS-YYLAHLVRAHYYQKLGENDLADESYRKALS--LAPNNGDVLNNYGAFLCAQGRP  119 (250)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCChhhHHHHHHHHHh--cCCCccchhhhhhHHHHhCCCh
Confidence            3688999999999999999998655 677999999999999999999999999887  44654 4567777778999999


Q ss_pred             HHHHHHHHHHHHcCCCC-CHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHH
Q 023915           82 ILAYRTMVDMHRKGHQP-EEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKD  160 (275)
Q Consensus        82 ~~a~~~~~~m~~~g~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  160 (275)
                      ++|.+.|++....---| -..+|..+.-+..+.|+.+.|...|++-......... ....+.+...+.|++..|...++.
T Consensus       120 ~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~~~~-~~l~~a~~~~~~~~y~~Ar~~~~~  198 (250)
T COG3063         120 EEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQFPP-ALLELARLHYKAGDYAPARLYLER  198 (250)
T ss_pred             HHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcCCCh-HHHHHHHHHHhcccchHHHHHHHH
Confidence            99999999988643222 2358999999999999999999999988776544333 566788888899999999999998


Q ss_pred             hhcCCCh--hHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHH
Q 023915          161 NSESISH--PAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHI  207 (275)
Q Consensus       161 ~~~~~~~--~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~  207 (275)
                      .......  .+.-.-|+.-.+.|+-+.+.+.=..+...  -|...-|..
T Consensus       199 ~~~~~~~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~--fP~s~e~q~  245 (250)
T COG3063         199 YQQRGGAQAESLLLGIRIAKRLGDRAAAQRYQAQLQRL--FPYSEEYQT  245 (250)
T ss_pred             HHhcccccHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCcHHHHh
Confidence            7765443  24455577777888888887776666653  455555443

>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=98.69  E-value=1.6e-06  Score=68.97  Aligned_cols=217  Identities=13%  Similarity=0.143  Sum_probs=135.2

Q ss_pred             hhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHH-HHHHHHHccCCHH
Q 023915            4 AFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFH-ILIKYFCKEKMYI   82 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~-~li~~~~~~~~~~   82 (275)
                      ++.-.|+.+.+   +.++... ..|.......+-..+...++-+.++.-+++....+..++..++. .....+...|+++
T Consensus        44 s~iAlg~~~~v---l~ei~~~-~~~~l~av~~la~y~~~~~~~e~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~  119 (290)
T PF04733_consen   44 SYIALGQYDSV---LSEIKKS-SSPELQAVRLLAEYLSSPSDKESALEELKELLADQAGESNEIVQLLAATILFHEGDYE  119 (290)
T ss_dssp             HHHHTT-HHHH---HHHS-TT-SSCCCHHHHHHHHHHCTSTTHHCHHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHH
T ss_pred             HHHHcCChhHH---HHHhccC-CChhHHHHHHHHHHHhCccchHHHHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHH
Confidence            34444554433   3344333 36677766555555544455566666666655444433333333 3335577789999


Q ss_pred             HHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhcccccc-HHhHHHHHHHHHhccchHHHHHHHHHh
Q 023915           83 LAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMC-KALHEKILHILISGKLLKDAYVVVKDN  161 (275)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~~  161 (275)
                      .|++++..-      .+.......+..|.+.++++.|.+.++.|.+....-. .....+.+....-.+.+.+|..+|+++
T Consensus       120 ~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~~eD~~l~qLa~awv~l~~g~e~~~~A~y~f~El  193 (290)
T PF04733_consen  120 EALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNMQQIDEDSILTQLAEAWVNLATGGEKYQDAFYIFEEL  193 (290)
T ss_dssp             HHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHTTTCCCHHHHHHHHH
T ss_pred             HHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHhCchhHHHHHHHHHHH
Confidence            999888652      4566777889999999999999999999986532211 112233343333445799999999999


Q ss_pred             hcC--CChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhchhH-HHHHHHHHHHhhC
Q 023915          162 SES--ISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKK-ELLLKLLEWMTGQ  232 (275)
Q Consensus       162 ~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~-~~a~~l~~~m~~~  232 (275)
                      .+.  .++...+.+..++...|++++|..++.+..+.+ +-+..+...++-... ..|+. +.+.+++.+++..
T Consensus       194 ~~~~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~-~~~~d~LaNliv~~~-~~gk~~~~~~~~l~qL~~~  265 (290)
T PF04733_consen  194 SDKFGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKD-PNDPDTLANLIVCSL-HLGKPTEAAERYLSQLKQS  265 (290)
T ss_dssp             HCCS--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC--CCHHHHHHHHHHHHH-HTT-TCHHHHHHHHHCHHH
T ss_pred             HhccCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhc-cCCHHHHHHHHHHHH-HhCCChhHHHHHHHHHHHh
Confidence            875  344477888899999999999999998866543 223445444554433 55555 6788899988764

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.

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.66  E-value=4.9e-08  Score=51.12  Aligned_cols=35  Identities=26%  Similarity=0.400  Sum_probs=29.9

Q ss_pred             hhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCH
Q 023915           66 NTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEE  100 (275)
Q Consensus        66 ~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~  100 (275)
                      .+||++|.+|++.|++++|.++|++|.+.|+.||.
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            37888888999999999999999988888888873

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.

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.64  E-value=6.3e-08  Score=50.37  Aligned_cols=33  Identities=21%  Similarity=0.322  Sum_probs=27.8

Q ss_pred             hhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCC
Q 023915           66 NTFHILIKYFCKEKMYILAYRTMVDMHRKGHQP   98 (275)
Q Consensus        66 ~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~   98 (275)
                      .||+++|.+|++.|+++.|.++|++|.+.|++|
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            578888888888888888888888888888877

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

Probab=98.62  E-value=1.2e-06  Score=57.58  Aligned_cols=80  Identities=11%  Similarity=0.138  Sum_probs=68.7

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHcCC-CCChhhHHHHHHHHHHhc-------hhHHHHHHHHHHHhhCCCCCChhhHHH
Q 023915          172 KFASAFVRLGNINLVNDVMKAIHATGY-RIDQGIFHIAIARYIAER-------EKKELLLKLLEWMTGQGYVVDSSTRNL  243 (275)
Q Consensus       172 ~li~~~~~~~~~~~a~~~~~~m~~~g~-~p~~~~y~~li~~~~~~~-------~~~~~a~~l~~~m~~~~~~p~~~t~~~  243 (275)
                      .-|..+...+++.....+|+.+++.|+ .|+..+|+.++.+.+++.       ++.-+++.+|+.|...+++|+..||+.
T Consensus        30 ~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYni  109 (120)
T PF08579_consen   30 DNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNI  109 (120)
T ss_pred             HHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHH
Confidence            456667777999999999999999999 999999999999987441       144568899999999999999999999


Q ss_pred             HHHHHHHh
Q 023915          244 ILKNSHLF  251 (275)
Q Consensus       244 li~~~~~~  251 (275)
                      ++.++.+.
T Consensus       110 vl~~Llkg  117 (120)
T PF08579_consen  110 VLGSLLKG  117 (120)
T ss_pred             HHHHHHHh
Confidence            99988664

Rpm2 is a protein subunit of the yeast mitochondrial RNase P. It has the ability to act as a transcriptional activator in the nucleus, where it plays a role in defining the steady-state levels of mRNAs for some nucleus-encoded mitochondrial components. Rpm2p is also involved in maturation of Rpm1 and in translation of mitochondrial mRNAs [, , ].

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

Probab=98.61  E-value=8.2e-07  Score=58.35  Aligned_cols=81  Identities=14%  Similarity=0.158  Sum_probs=61.8

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHhhcCC-CCChhhHHHHHHHHHccC--------CHHHHHHHHHHHHHcCCCCCHHh
Q 023915           32 LLNSMLCAYCRTGDMESVMHVMRKLDELAI-SPDYNTFHILIKYFCKEK--------MYILAYRTMVDMHRKGHQPEEEL  102 (275)
Q Consensus        32 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~-~p~~~t~~~li~~~~~~~--------~~~~a~~~~~~m~~~g~~~~~~~  102 (275)
                      |-...|..|...+++.....+|+.+++.|+ .|+..+|+.++.+.++..        ++-..+.+|+.|...+++|+..+
T Consensus        27 t~i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~et  106 (120)
T PF08579_consen   27 TQIDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDET  106 (120)
T ss_pred             HHHHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHH
Confidence            345566667777888888888888888888 888888888888877653        23346778888888888888888


Q ss_pred             HHHHHHHHhc
Q 023915          103 CSSLIFHLGK  112 (275)
Q Consensus       103 ~~~li~~~~~  112 (275)
                      |+.++..+.+
T Consensus       107 Ynivl~~Llk  116 (120)
T PF08579_consen  107 YNIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHHH
Confidence            8888877654

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 [, , ].

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

Probab=98.60  E-value=2.5e-05  Score=64.30  Aligned_cols=217  Identities=12%  Similarity=0.083  Sum_probs=160.2

Q ss_pred             hcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHH
Q 023915            7 RGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYR   86 (275)
Q Consensus         7 ~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~   86 (275)
                      -+|+...|..-|+........++. .|--+-..|....+.++.+..|++..+-+ +-|..+|..--....-.++++.|..
T Consensus       338 L~g~~~~a~~d~~~~I~l~~~~~~-lyI~~a~~y~d~~~~~~~~~~F~~A~~ld-p~n~dvYyHRgQm~flL~q~e~A~a  415 (606)
T KOG0547|consen  338 LKGDSLGAQEDFDAAIKLDPAFNS-LYIKRAAAYADENQSEKMWKDFNKAEDLD-PENPDVYYHRGQMRFLLQQYEEAIA  415 (606)
T ss_pred             hcCCchhhhhhHHHHHhcCcccch-HHHHHHHHHhhhhccHHHHHHHHHHHhcC-CCCCchhHhHHHHHHHHHHHHHHHH
Confidence            357888888999988876554333 27778888999999999999999987732 1244567777777777888999999


Q ss_pred             HHHHHHHcCCCC-CHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhc-C
Q 023915           87 TMVDMHRKGHQP-EEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSE-S  164 (275)
Q Consensus        87 ~~~~m~~~g~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~-~  164 (275)
                      =|+.....  .| +...|--+--+.-|.+++++++..|++.... .+-.+..|+..-..+...++++.|.+.|+.... .
T Consensus       416 DF~Kai~L--~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE  492 (606)
T KOG0547|consen  416 DFQKAISL--DPENAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELE  492 (606)
T ss_pred             HHHHHhhc--ChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhc
Confidence            99988764  44 4456666666777889999999999998755 444556899999999999999999999997554 1


Q ss_pred             C--------ChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCC-ChhhHHHHHHHHHHhchhHHHHHHHHHHHhh
Q 023915          165 I--------SHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRI-DQGIFHIAIARYIAEREKKELLLKLLEWMTG  231 (275)
Q Consensus       165 ~--------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~  231 (275)
                      +        ..|..+.-+-.+.=.+++..|.++++...+..  | ....|-.|-..-+ +.|+.++|.++|++-..
T Consensus       493 ~~~~~~~v~~~plV~Ka~l~~qwk~d~~~a~~Ll~KA~e~D--pkce~A~~tlaq~~l-Q~~~i~eAielFEksa~  565 (606)
T KOG0547|consen  493 PREHLIIVNAAPLVHKALLVLQWKEDINQAENLLRKAIELD--PKCEQAYETLAQFEL-QRGKIDEAIELFEKSAQ  565 (606)
T ss_pred             cccccccccchhhhhhhHhhhchhhhHHHHHHHHHHHHccC--chHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHH
Confidence            1        12222222222222388999999998877743  3 3457888887766 77999999999997543

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.58  E-value=6.2e-06  Score=63.75  Aligned_cols=201  Identities=14%  Similarity=0.109  Sum_probs=151.4

Q ss_pred             CCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCC-ChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhH
Q 023915           25 YDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP-DYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELC  103 (275)
Q Consensus        25 g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~  103 (275)
                      |+.....-|++.+..+.+..++.+|++++..-.++.  | +....+.|-..|....++..|-..++++...  -|...-|
T Consensus         5 g~~i~EGeftaviy~lI~d~ry~DaI~~l~s~~Er~--p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql--~P~~~qY   80 (459)
T KOG4340|consen    5 GAQIPEGEFTAVVYRLIRDARYADAIQLLGSELERS--PRSRAGLSLLGYCYYRLQEFALAAECYEQLGQL--HPELEQY   80 (459)
T ss_pred             cccCCCCchHHHHHHHHHHhhHHHHHHHHHHHHhcC--ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--ChHHHHH
Confidence            444444557888888889999999999998877754  5 6677888888999999999999999998764  5665555


Q ss_pred             HH-HHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHH--HhccchHHHHHHHHHhhcCCChhHHHHHHHHHHhc
Q 023915          104 SS-LIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHIL--ISGKLLKDAYVVVKDNSESISHPAIKKFASAFVRL  180 (275)
Q Consensus       104 ~~-li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~--~~~~~~~~a~~~~~~~~~~~~~~~~~~li~~~~~~  180 (275)
                      .. -...+-+.+.+..|+.+...|...   +....-..-+.+-  -..+++..+..++++....+...+.+..-....+.
T Consensus        81 rlY~AQSLY~A~i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en~Ad~~in~gCllyke  157 (459)
T KOG4340|consen   81 RLYQAQSLYKACIYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSENEADGQINLGCLLYKE  157 (459)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCCCccchhccchheeecc
Confidence            43 345566788899999999888643   1111111122222  24688888999999887767777777777778899


Q ss_pred             CChhHHHHHHHHHHHc-CCCCChhhHHHHHHHHHHhchhHHHHHHHHHHHhhCCCC
Q 023915          181 GNINLVNDVMKAIHAT-GYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTGQGYV  235 (275)
Q Consensus       181 ~~~~~a~~~~~~m~~~-g~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~~~~  235 (275)
                      |+.+.|.+-|+...+. |..| ...||.-+..|  +.++.+.|.++..++.++|++
T Consensus       158 gqyEaAvqkFqaAlqvsGyqp-llAYniALaHy--~~~qyasALk~iSEIieRG~r  210 (459)
T KOG4340|consen  158 GQYEAAVQKFQAALQVSGYQP-LLAYNLALAHY--SSRQYASALKHISEIIERGIR  210 (459)
T ss_pred             ccHHHHHHHHHHHHhhcCCCc-hhHHHHHHHHH--hhhhHHHHHHHHHHHHHhhhh
Confidence            9999999999987775 6554 57899888776  458888899999999988764

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

Probab=98.56  E-value=4.3e-05  Score=67.80  Aligned_cols=224  Identities=11%  Similarity=0.058  Sum_probs=154.4

Q ss_pred             CcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcC-CCCChhhHHHHHHHHHc----------
Q 023915            9 GCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA-ISPDYNTFHILIKYFCK----------   77 (275)
Q Consensus         9 g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g-~~p~~~t~~~li~~~~~----------   77 (275)
                      ++..+|..++.+....+ .-|+..++.+-..+.+...+..|.+-|....+.- ..+|+...-+|-+.|.+          
T Consensus       544 ~~~~ea~~~lk~~l~~d-~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~e  622 (1018)
T KOG2002|consen  544 NNLYEASLLLKDALNID-SSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPE  622 (1018)
T ss_pred             cCcHHHHHHHHHHHhcc-cCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChH
Confidence            56667777777766533 2245555556666777777777777665555432 23666666666665543          


Q ss_pred             --cCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHH
Q 023915           78 --EKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAY  155 (275)
Q Consensus        78 --~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~  155 (275)
                        .+..++|+++|.+.++.. +-|..+-|-+--.++..|+++.|..+|.+....... ...+|-.+-.+|...|++..|+
T Consensus       623 k~kk~~~KAlq~y~kvL~~d-pkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~~-~~dv~lNlah~~~e~~qy~~AI  700 (1018)
T KOG2002|consen  623 KEKKHQEKALQLYGKVLRND-PKNMYAANGIGIVLAEKGRFSEARDIFSQVREATSD-FEDVWLNLAHCYVEQGQYRLAI  700 (1018)
T ss_pred             HHHHHHHHHHHHHHHHHhcC-cchhhhccchhhhhhhccCchHHHHHHHHHHHHHhh-CCceeeeHHHHHHHHHHHHHHH
Confidence              245678999999888753 456667777888889999999999999999877552 2236888999999999999999


Q ss_pred             HHHHHhhc----CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHH--H---------------H
Q 023915          156 VVVKDNSE----SISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARY--I---------------A  214 (275)
Q Consensus       156 ~~~~~~~~----~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~--~---------------~  214 (275)
                      ++|+....    ..++...+.|.+++.+.|.+.+|.+.+.........-...-||..+-..  +               .
T Consensus       701 qmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~p~~~~v~FN~a~v~kkla~s~lr~~k~t~eev~~  780 (1018)
T KOG2002|consen  701 QMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHLAPSNTSVKFNLALVLKKLAESILRLEKRTLEEVLE  780 (1018)
T ss_pred             HHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCccchHHhHHHHHHHHHHHHHHhcccccHHHHHH
Confidence            99998554    3344567888899999999999998876655543222334555544322  0               1


Q ss_pred             hchhHHHHHHHHHHHhhCCCC
Q 023915          215 EREKKELLLKLLEWMTGQGYV  235 (275)
Q Consensus       215 ~~~~~~~a~~l~~~m~~~~~~  235 (275)
                      ..+..+.|.++|.+|...+-+
T Consensus       781 a~~~le~a~r~F~~ls~~~d~  801 (1018)
T KOG2002|consen  781 AVKELEEARRLFTELSKNGDK  801 (1018)
T ss_pred             HHHHHHHHHHHHHHHHhcCCC
Confidence            134577789999999876543

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

Probab=98.56  E-value=0.00018  Score=59.43  Aligned_cols=223  Identities=13%  Similarity=0.066  Sum_probs=128.0

Q ss_pred             hhhcCcHHHHHHHHHHHHhcCCCCcHHhHHH---HHHHHHccCCHHHHHHHHHHHhhcCCCCCh-hhHHHHHHHHHccCC
Q 023915            5 FCRGGCFEEAKQLAGDFEAKYDKYDVVLLNS---MLCAYCRTGDMESVMHVMRKLDELAISPDY-NTFHILIKYFCKEKM   80 (275)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~---li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-~t~~~li~~~~~~~~   80 (275)
                      +...|++++|.+.++...+..+. |...++.   ........+..+.+.+.+..  ..+..|+. .....+...+...|+
T Consensus        53 ~~~~g~~~~A~~~~~~~l~~~P~-~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~~~~~~a~~~~~~G~  129 (355)
T cd05804          53 AWIAGDLPKALALLEQLLDDYPR-DLLALKLHLGAFGLGDFSGMRDHVARVLPL--WAPENPDYWYLLGMLAFGLEEAGQ  129 (355)
T ss_pred             HHHcCCHHHHHHHHHHHHHHCCC-cHHHHHHhHHHHHhcccccCchhHHHHHhc--cCcCCCCcHHHHHHHHHHHHHcCC
Confidence            45678888999988888776332 3334442   11112223455555555544  12233433 233455567788899


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccc-cccH--HhHHHHHHHHHhccchHHHHHH
Q 023915           81 YILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKR-SMCK--ALHEKILHILISGKLLKDAYVV  157 (275)
Q Consensus        81 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~-~~~~--~~~~~li~~~~~~~~~~~a~~~  157 (275)
                      ++.|...+++..+.. +.+...+..+-..+...|++++|...++....... .+..  ..|..+...+...|++++|..+
T Consensus       130 ~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~  208 (355)
T cd05804         130 YDRAEEAARRALELN-PDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAI  208 (355)
T ss_pred             HHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHH
Confidence            999999999988764 34456777788888889999999999887765432 2222  2344677778888999999999


Q ss_pred             HHHhhcCCC-hhHH----H--HHHHHHHhcCChhHHHHH--HHHHHHcCCCCChhhHH--HHHHHHHHhchhHHHHHHHH
Q 023915          158 VKDNSESIS-HPAI----K--KFASAFVRLGNINLVNDV--MKAIHATGYRIDQGIFH--IAIARYIAEREKKELLLKLL  226 (275)
Q Consensus       158 ~~~~~~~~~-~~~~----~--~li~~~~~~~~~~~a~~~--~~~m~~~g~~p~~~~y~--~li~~~~~~~~~~~~a~~l~  226 (275)
                      +++...... .+..    +  .++.-+...|..+.+.+.  ...............+.  ....+++ ..|+.+.|..++
T Consensus       209 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~-~~~~~~~a~~~L  287 (355)
T cd05804         209 YDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALA-GAGDKDALDKLL  287 (355)
T ss_pred             HHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHh-cCCCHHHHHHHH
Confidence            988653211 1211    1  223334444443333332  11111111111111222  2333433 567788898888


Q ss_pred             HHHhhC
Q 023915          227 EWMTGQ  232 (275)
Q Consensus       227 ~~m~~~  232 (275)
                      +.+...
T Consensus       288 ~~l~~~  293 (355)
T cd05804         288 AALKGR  293 (355)
T ss_pred             HHHHHH
Confidence            888653

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.

>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=98.55  E-value=3.5e-06  Score=62.35  Aligned_cols=89  Identities=16%  Similarity=0.265  Sum_probs=73.6

Q ss_pred             CCChhHHHHHHHHHHh-----cCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHH---------------HhchhHHHHH
Q 023915          164 SISHPAIKKFASAFVR-----LGNINLVNDVMKAIHATGYRIDQGIFHIAIARYI---------------AEREKKELLL  223 (275)
Q Consensus       164 ~~~~~~~~~li~~~~~-----~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~---------------~~~~~~~~a~  223 (275)
                      ..+..+|..++..|.+     .|+.+-....++.|.+.|+.-|..+|+.||+.+=               .-..+.+-|.
T Consensus        44 ~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~i  123 (228)
T PF06239_consen   44 AKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECAI  123 (228)
T ss_pred             cccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHHH
Confidence            4445566666666654     4788888899999999999999999999999752               1133567799


Q ss_pred             HHHHHHhhCCCCCChhhHHHHHHHHHHhh
Q 023915          224 KLLEWMTGQGYVVDSSTRNLILKNSHLFG  252 (275)
Q Consensus       224 ~l~~~m~~~~~~p~~~t~~~li~~~~~~g  252 (275)
                      +++++|+..|+-||..|+..|+..+++.+
T Consensus       124 ~lL~qME~~gV~Pd~Et~~~ll~iFG~~s  152 (228)
T PF06239_consen  124 DLLEQMENNGVMPDKETEQMLLNIFGRKS  152 (228)
T ss_pred             HHHHHHHHcCCCCcHHHHHHHHHHhcccc
Confidence            99999999999999999999999998888

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

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

Probab=98.53  E-value=0.00019  Score=63.36  Aligned_cols=247  Identities=13%  Similarity=0.083  Sum_probs=156.0

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHH----HHHHHccCCHHHHHHHHHHHhhc-CCCCChhhHHHHHHHHHc
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSM----LCAYCRTGDMESVMHVMRKLDEL-AISPDYNTFHILIKYFCK   77 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~l----i~~~~~~g~~~~a~~~~~~m~~~-g~~p~~~t~~~li~~~~~   77 (275)
                      ..|-+.|+...|.+-|.++....+..|..-+..+    +..+...++-+.|.+.++...+. +-..+...++.++..+.+
T Consensus       249 ~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~s~~~~~~~~ed~ni~ael~l~  328 (895)
T KOG2076|consen  249 SLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGALSKEKDEASLEDLNILAELFLK  328 (895)
T ss_pred             HHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhccccccccHHHHHHHHHHH
Confidence            3456677777777777777765432233333333    33455556667777776666542 233445567777777777


Q ss_pred             cCCHHHHHHHHHHHHHcCCC---------------------------CCHHhHHHHHHHHhccCCHHHHHHHHHHHHhcc
Q 023915           78 EKMYILAYRTMVDMHRKGHQ---------------------------PEEELCSSLIFHLGKMRAHSEALSVYNMLRYSK  130 (275)
Q Consensus        78 ~~~~~~a~~~~~~m~~~g~~---------------------------~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  130 (275)
                      ...++.|......+.....+                           ++..+ -.++-++.+....+...-+...+....
T Consensus       329 ~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v-~rl~icL~~L~~~e~~e~ll~~l~~~n  407 (895)
T KOG2076|consen  329 NKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRV-IRLMICLVHLKERELLEALLHFLVEDN  407 (895)
T ss_pred             hHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchh-HhHhhhhhcccccchHHHHHHHHHHhc
Confidence            77788877777777652112                           22222 123333444444444444444444444


Q ss_pred             --ccccHHhHHHHHHHHHhccchHHHHHHHHHhhcCCCh---hHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhH
Q 023915          131 --RSMCKALHEKILHILISGKLLKDAYVVVKDNSESISH---PAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIF  205 (275)
Q Consensus       131 --~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y  205 (275)
                        +.-....|.-+..+|...|++.+|+.+|..+......   ..|-.+...|...|..+.|.+.|+.....  .|+..--
T Consensus       408 ~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~--~p~~~D~  485 (895)
T KOG2076|consen  408 VWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEYEEAIEFYEKVLIL--APDNLDA  485 (895)
T ss_pred             CChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhHHHHHHHHHHHHhc--CCCchhh
Confidence              4445567888889999999999999999998774332   26777888999999999999999988774  4554333


Q ss_pred             HHHHHHHHHhchhHHHHHHHHHHHh--------hCCCCCChhhHHHHHHHHHHhh
Q 023915          206 HIAIARYIAEREKKELLLKLLEWMT--------GQGYVVDSSTRNLILKNSHLFG  252 (275)
Q Consensus       206 ~~li~~~~~~~~~~~~a~~l~~~m~--------~~~~~p~~~t~~~li~~~~~~g  252 (275)
                      .+=+.....+.|+.++|.+.+..|.        ..++.|+...-......+...|
T Consensus       486 Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l~~~g  540 (895)
T KOG2076|consen  486 RITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDILFQVG  540 (895)
T ss_pred             hhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHHHHhh
Confidence            3333333346789999999999854        3346676666656666666666

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.49  E-value=2.8e-05  Score=60.22  Aligned_cols=166  Identities=15%  Similarity=0.077  Sum_probs=102.4

Q ss_pred             cHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCh----hhHHHHHHHHHccCCHHHHHHHHHHHHHcCCC-CCH-Hh
Q 023915           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDY----NTFHILIKYFCKEKMYILAYRTMVDMHRKGHQ-PEE-EL  102 (275)
Q Consensus        29 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~----~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~-~~~-~~  102 (275)
                      ....+-.+...+.+.|++++|...|++....  .|+.    .++..+...+.+.|+++.|...++++.+..-. |.. .+
T Consensus        32 ~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a  109 (235)
T TIGR03302        32 PAEELYEEAKEALDSGDYTEAIKYFEALESR--YPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYA  109 (235)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHH
Confidence            4455666666666777777777777766552  2332    24555666667777777777777776654211 111 12


Q ss_pred             HHHHHHHHhcc--------CCHHHHHHHHHHHHhccccccHH----------------hHHHHHHHHHhccchHHHHHHH
Q 023915          103 CSSLIFHLGKM--------RAHSEALSVYNMLRYSKRSMCKA----------------LHEKILHILISGKLLKDAYVVV  158 (275)
Q Consensus       103 ~~~li~~~~~~--------g~~~~a~~~~~~m~~~~~~~~~~----------------~~~~li~~~~~~~~~~~a~~~~  158 (275)
                      +..+-.++.+.        |+.+.|.+.|+.+....+.....                ....+-..+.+.|++.+|...+
T Consensus       110 ~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~  189 (235)
T TIGR03302       110 YYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRYPNSEYAPDAKKRMDYLRNRLAGKELYVARFYLKRGAYVAAINRF  189 (235)
T ss_pred             HHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHH
Confidence            33333333332        56667777777665432221100                0113456688899999999999


Q ss_pred             HHhhcC-CC----hhHHHHHHHHHHhcCChhHHHHHHHHHHHc
Q 023915          159 KDNSES-IS----HPAIKKFASAFVRLGNINLVNDVMKAIHAT  196 (275)
Q Consensus       159 ~~~~~~-~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  196 (275)
                      ++.... +.    +..+..+..++...|++++|...++.+...
T Consensus       190 ~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       190 ETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            987653 22    236778899999999999999998887764

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).

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

Probab=98.49  E-value=0.00021  Score=60.05  Aligned_cols=240  Identities=12%  Similarity=0.064  Sum_probs=158.2

Q ss_pred             hhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHH
Q 023915            4 AFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYIL   83 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~   83 (275)
                      -|-..+++++.+++++.+.+.. +++...+-.=|.++...|+..+-+.+=.+|.+. .+-...+|-++--.|.-.|+.++
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            3556788888888888888753 345566666677777777777766666666653 33334567777777777777778


Q ss_pred             HHHHHHHHHHcCCCCCH-HhHHHHHHHHhccCCHHHHHHHHHHHHhc--------------------------------c
Q 023915           84 AYRTMVDMHRKGHQPEE-ELCSSLIFHLGKMRAHSEALSVYNMLRYS--------------------------------K  130 (275)
Q Consensus        84 a~~~~~~m~~~g~~~~~-~~~~~li~~~~~~g~~~~a~~~~~~m~~~--------------------------------~  130 (275)
                      |.+.|......  .|.- ..|-..-..|+-.|..|+|+..+...-+-                                +
T Consensus       331 ARry~SKat~l--D~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G~hlP~LYlgmey~~t~n~kLAe~Ff~~A~a  408 (611)
T KOG1173|consen  331 ARRYFSKATTL--DPTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPGCHLPSLYLGMEYMRTNNLKLAEKFFKQALA  408 (611)
T ss_pred             HHHHHHHHhhc--CccccHHHHHHhHHhhhcchHHHHHHHHHHHHHhccCCcchHHHHHHHHHHhccHHHHHHHHHHHHh
Confidence            87777775532  3321 25555566666666666665554432210                                1


Q ss_pred             ccc-cHHhHHHHHHHHHhccchHHHHHHHHHhhc---------CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCC
Q 023915          131 RSM-CKALHEKILHILISGKLLKDAYVVVKDNSE---------SISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRI  200 (275)
Q Consensus       131 ~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---------~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p  200 (275)
                      +.| ++...+-+--..-..+.+.+|..+|+....         ....|+++.|-.+|.+.+..++|+..++.-.... +-
T Consensus       409 i~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l~-~k  487 (611)
T KOG1173|consen  409 IAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLLS-PK  487 (611)
T ss_pred             cCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHcC-CC
Confidence            111 222222222222345677888888876441         1245678899999999999999999999877753 34


Q ss_pred             ChhhHHHHHHHHHHhchhHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHHh
Q 023915          201 DQGIFHIAIARYIAEREKKELLLKLLEWMTGQGYVVDSSTRNLILKNSHLF  251 (275)
Q Consensus       201 ~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~~~~p~~~t~~~li~~~~~~  251 (275)
                      +..+|.++--.|. ..|+++.|.+.|.+-.  .+.||-.+...++..+...
T Consensus       488 ~~~~~asig~iy~-llgnld~Aid~fhKaL--~l~p~n~~~~~lL~~aie~  535 (611)
T KOG1173|consen  488 DASTHASIGYIYH-LLGNLDKAIDHFHKAL--ALKPDNIFISELLKLAIED  535 (611)
T ss_pred             chhHHHHHHHHHH-HhcChHHHHHHHHHHH--hcCCccHHHHHHHHHHHHh
Confidence            6677777776665 6799999999999754  5789988888888766443

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

Probab=98.49  E-value=3.4e-06  Score=69.78  Aligned_cols=121  Identities=15%  Similarity=0.122  Sum_probs=102.9

Q ss_pred             cccccHHhHHHHHHHHHhccchHHHHHHHHHhhcC-----CChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhh
Q 023915          130 KRSMCKALHEKILHILISGKLLKDAYVVVKDNSES-----ISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGI  204 (275)
Q Consensus       130 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~  204 (275)
                      +.+.+......+++.+....+++.+..++-+....     ..+.|.+++++.|...|..+.+..+++.=...|+-||..+
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            44556666777888888888888888887776653     2234778999999999999999999999888999999999


Q ss_pred             HHHHHHHHHHhchhHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHHh
Q 023915          205 FHIAIARYIAEREKKELLLKLLEWMTGQGYVVDSSTRNLILKNSHLF  251 (275)
Q Consensus       205 y~~li~~~~~~~~~~~~a~~l~~~m~~~~~~p~~~t~~~li~~~~~~  251 (275)
                      ||.||+.+. +.|++..|.++..+|...+...+..|+..-+.+|.+.
T Consensus       141 ~n~Lmd~fl-~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  141 FNLLMDHFL-KKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHHHHh-hcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            999999998 7799999999999999998888889999889888877

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 [].

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

Probab=98.48  E-value=5.6e-06  Score=68.55  Aligned_cols=124  Identities=13%  Similarity=-0.002  Sum_probs=103.5

Q ss_pred             CCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhc--CCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHh
Q 023915           25 YDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDEL--AISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEEL  102 (275)
Q Consensus        25 g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~--g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~  102 (275)
                      +...+......+++.+....+.+.+..++-..+..  ....-..|..++|+.|.+.|..+.++.++..=...|+-||..+
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            34557788888999999999999999998888865  3334445667999999999999999999999999999999999


Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhc
Q 023915          103 CSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISG  148 (275)
Q Consensus       103 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~  148 (275)
                      |+.||+.+.+.|++..|.++..+|.......++.++...+.+|.+.
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            9999999999999999999999888776666667777666666655

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 [].

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

Probab=98.48  E-value=1.9e-07  Score=47.32  Aligned_cols=29  Identities=28%  Similarity=0.676  Sum_probs=18.5

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHhhcC
Q 023915           32 LLNSMLCAYCRTGDMESVMHVMRKLDELA   60 (275)
Q Consensus        32 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g   60 (275)
                      +||++|++|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            56666666666666666666666666655

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.

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

Probab=98.47  E-value=6.8e-06  Score=64.32  Aligned_cols=194  Identities=12%  Similarity=0.044  Sum_probs=152.8

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHH
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYI   82 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~   82 (275)
                      ++|.+..+...|+.+|.+-.+. .+-|+....-+-+.+-..++.++|.++|+...+.. +-++.....+..+|.-.++++
T Consensus       264 kvY~ridQP~~AL~~~~~gld~-fP~~VT~l~g~ARi~eam~~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE  341 (478)
T KOG1129|consen  264 KVYQRIDQPERALLVIGEGLDS-FPFDVTYLLGQARIHEAMEQQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPE  341 (478)
T ss_pred             HHHHHhccHHHHHHHHhhhhhc-CCchhhhhhhhHHHHHHHHhHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChH
Confidence            5688889999999999888765 22244455667777888899999999999887632 234555666777888899999


Q ss_pred             HHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccc--cccHHhHHHHHHHHHhccchHHHHHHHHH
Q 023915           83 LAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKR--SMCKALHEKILHILISGKLLKDAYVVVKD  160 (275)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~  160 (275)
                      .|+..++++++.|+ .+...|+.+--+|.-.+++|.++.-|+.....-.  .....+|-.+-...+..|++..|...|+-
T Consensus       342 ~AlryYRRiLqmG~-~speLf~NigLCC~yaqQ~D~~L~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrl  420 (478)
T KOG1129|consen  342 MALRYYRRILQMGA-QSPELFCNIGLCCLYAQQIDLVLPSFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRL  420 (478)
T ss_pred             HHHHHHHHHHHhcC-CChHHHhhHHHHHHhhcchhhhHHHHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHH
Confidence            99999999999995 5667899999999999999999999998776433  33345677787888889999999999997


Q ss_pred             hhcC--CChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCC
Q 023915          161 NSES--ISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRID  201 (275)
Q Consensus       161 ~~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~  201 (275)
                      ....  .....+|.|.-.-.+.|+++.|..+++.....  .|+
T Consensus       421 aL~~d~~h~ealnNLavL~~r~G~i~~Arsll~~A~s~--~P~  461 (478)
T KOG1129|consen  421 ALTSDAQHGEALNNLAVLAARSGDILGARSLLNAAKSV--MPD  461 (478)
T ss_pred             HhccCcchHHHHHhHHHHHhhcCchHHHHHHHHHhhhh--Ccc
Confidence            6553  23347888888889999999999999887663  354

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.47  E-value=6.5e-05  Score=58.21  Aligned_cols=167  Identities=9%  Similarity=-0.027  Sum_probs=116.7

Q ss_pred             ChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCH---HhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHH--hH
Q 023915           64 DYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEE---ELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKA--LH  138 (275)
Q Consensus        64 ~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~---~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~--~~  138 (275)
                      ....+-.+...+.+.|+++.|...|++..... +.+.   .++..+..++.+.|++++|...++.+....+.....  .+
T Consensus        32 ~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~  110 (235)
T TIGR03302        32 PAEELYEEAKEALDSGDYTEAIKYFEALESRY-PFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAY  110 (235)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHH
Confidence            44567778888999999999999999987653 2222   467778889999999999999999998654432221  23


Q ss_pred             HHHHHHHHhc--------cchHHHHHHHHHhhc-CCChh-HH-----------------HHHHHHHHhcCChhHHHHHHH
Q 023915          139 EKILHILISG--------KLLKDAYVVVKDNSE-SISHP-AI-----------------KKFASAFVRLGNINLVNDVMK  191 (275)
Q Consensus       139 ~~li~~~~~~--------~~~~~a~~~~~~~~~-~~~~~-~~-----------------~~li~~~~~~~~~~~a~~~~~  191 (275)
                      ..+-.++...        |+.++|.+.+++... .+..+ ..                 ..+...|.+.|++++|...+.
T Consensus       111 ~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~  190 (235)
T TIGR03302       111 YLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRYPNSEYAPDAKKRMDYLRNRLAGKELYVARFYLKRGAYVAAINRFE  190 (235)
T ss_pred             HHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHHH
Confidence            3333344433        778899999998765 22222 11                 134456778899999999988


Q ss_pred             HHHHcC--CCCChhhHHHHHHHHHHhchhHHHHHHHHHHHhhC
Q 023915          192 AIHATG--YRIDQGIFHIAIARYIAEREKKELLLKLLEWMTGQ  232 (275)
Q Consensus       192 ~m~~~g--~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~  232 (275)
                      ...+..  -+.....+..+..++. +.|++++|..+++.+..+
T Consensus       191 ~al~~~p~~~~~~~a~~~l~~~~~-~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       191 TVVENYPDTPATEEALARLVEAYL-KLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHCCCCcchHHHHHHHHHHHH-HcCCHHHHHHHHHHHHhh
Confidence            877652  1123456777777775 778889999988887654

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).

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

Probab=98.42  E-value=0.00046  Score=56.98  Aligned_cols=220  Identities=13%  Similarity=0.040  Sum_probs=134.2

Q ss_pred             cCcHHHHHHHHHHHHhcCCCCcH-HhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCC-hhhHHHHHHHHHccCCHHHHH
Q 023915            8 GGCFEEAKQLAGDFEAKYDKYDV-VLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYILAY   85 (275)
Q Consensus         8 ~g~~~~a~~~~~~m~~~g~~p~~-~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~~a~   85 (275)
                      .+..+.+.+.+..  .....|+. .....+...+...|++++|.+.+++..+..  |+ ...+..+...+...|++++|.
T Consensus        93 ~~~~~~~~~~l~~--~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~--p~~~~~~~~la~i~~~~g~~~eA~  168 (355)
T cd05804          93 SGMRDHVARVLPL--WAPENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELN--PDDAWAVHAVAHVLEMQGRFKEGI  168 (355)
T ss_pred             ccCchhHHHHHhc--cCcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCCcHHHHHHHHHHHHcCCHHHHH
Confidence            3455555555544  12223333 344566678889999999999999998853  54 556778888999999999999


Q ss_pred             HHHHHHHHcCC-CCCH--HhHHHHHHHHhccCCHHHHHHHHHHHHhccc-cccHHhH-H--HHHHHHHhccchHHHHHH-
Q 023915           86 RTMVDMHRKGH-QPEE--ELCSSLIFHLGKMRAHSEALSVYNMLRYSKR-SMCKALH-E--KILHILISGKLLKDAYVV-  157 (275)
Q Consensus        86 ~~~~~m~~~g~-~~~~--~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~-~~~~~~~-~--~li~~~~~~~~~~~a~~~-  157 (275)
                      .++++.....- .|+.  ..|..+...+...|+.++|..+++....... .+..... +  .++.-+...|....+..+ 
T Consensus       169 ~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~  248 (355)
T cd05804         169 AFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRWE  248 (355)
T ss_pred             HHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHHH
Confidence            99999876432 2332  3455788889999999999999999754322 1111111 1  233333344433322222 


Q ss_pred             -HHHh-hcC-C-ChhHH--HHHHHHHHhcCChhHHHHHHHHHHHcCCCC--C-h---hhHHHHHHHHH-HhchhHHHHHH
Q 023915          158 -VKDN-SES-I-SHPAI--KKFASAFVRLGNINLVNDVMKAIHATGYRI--D-Q---GIFHIAIARYI-AEREKKELLLK  224 (275)
Q Consensus       158 -~~~~-~~~-~-~~~~~--~~li~~~~~~~~~~~a~~~~~~m~~~g~~p--~-~---~~y~~li~~~~-~~~~~~~~a~~  224 (275)
                       +... ... . ....+  .....++...|+.+.|..++..+....-.+  . .   .+-..++.+.. ...|+.++|.+
T Consensus       249 ~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~~~A~~  328 (355)
T cd05804         249 DLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLAALKGRASSADDNKQPARDVGLPLAEALYAFAEGNYATALE  328 (355)
T ss_pred             HHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCHHHHHH
Confidence             1111 111 1 11122  256778888999999999999987743221  1 0   11122222221 24688888998


Q ss_pred             HHHHHhh
Q 023915          225 LLEWMTG  231 (275)
Q Consensus       225 l~~~m~~  231 (275)
                      ++.+...
T Consensus       329 ~L~~al~  335 (355)
T cd05804         329 LLGPVRD  335 (355)
T ss_pred             HHHHHHH
Confidence            8887654

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.

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

Probab=98.40  E-value=0.00099  Score=57.29  Aligned_cols=251  Identities=12%  Similarity=-0.003  Sum_probs=177.2

Q ss_pred             hhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHH
Q 023915            6 CRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAY   85 (275)
Q Consensus         6 ~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~   85 (275)
                      -..|++..|..++....+.... +...|-.-+..-..+..++.|..+|.+.+.  ..|+...|.--++.-.-.+..++|.
T Consensus       595 w~agdv~~ar~il~~af~~~pn-seeiwlaavKle~en~e~eraR~llakar~--~sgTeRv~mKs~~~er~ld~~eeA~  671 (913)
T KOG0495|consen  595 WKAGDVPAARVILDQAFEANPN-SEEIWLAAVKLEFENDELERARDLLAKARS--ISGTERVWMKSANLERYLDNVEEAL  671 (913)
T ss_pred             HhcCCcHHHHHHHHHHHHhCCC-cHHHHHHHHHHhhccccHHHHHHHHHHHhc--cCCcchhhHHHhHHHHHhhhHHHHH
Confidence            3568899999999888887555 778888888888999999999999988776  5588888877777777778899999


Q ss_pred             HHHHHHHHcCCCCCHH-hHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhc-
Q 023915           86 RTMVDMHRKGHQPEEE-LCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSE-  163 (275)
Q Consensus        86 ~~~~~m~~~g~~~~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~-  163 (275)
                      +++++.++.  -|+.. .|-.+-+.+-+.++++.|.+.|..=.. .++-+...|-.+.+.=-+.|++-.|..+++...- 
T Consensus       672 rllEe~lk~--fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k-~cP~~ipLWllLakleEk~~~~~rAR~ildrarlk  748 (913)
T KOG0495|consen  672 RLLEEALKS--FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTK-KCPNSIPLWLLLAKLEEKDGQLVRARSILDRARLK  748 (913)
T ss_pred             HHHHHHHHh--CCchHHHHHHHhHHHHHHHHHHHHHHHHHhccc-cCCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhc
Confidence            999888764  45543 566666677777888888777765332 2333344666666666677888889888887543 


Q ss_pred             -CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHc----C-------------------------CCCChhhHHHHHHHHH
Q 023915          164 -SISHPAIKKFASAFVRLGNINLVNDVMKAIHAT----G-------------------------YRIDQGIFHIAIARYI  213 (275)
Q Consensus       164 -~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----g-------------------------~~p~~~~y~~li~~~~  213 (275)
                       ..+...|-..|++=.+.|+.+.|..+.....+.    |                         +.-|....-++-..|.
T Consensus       749 NPk~~~lwle~Ir~ElR~gn~~~a~~lmakALQecp~sg~LWaEaI~le~~~~rkTks~DALkkce~dphVllaia~lfw  828 (913)
T KOG0495|consen  749 NPKNALLWLESIRMELRAGNKEQAELLMAKALQECPSSGLLWAEAIWLEPRPQRKTKSIDALKKCEHDPHVLLAIAKLFW  828 (913)
T ss_pred             CCCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccchhHHHHHHhccCcccchHHHHHHHhccCCchhHHHHHHHHH
Confidence             334447788888888999888888776554332    1                         1222223333334444


Q ss_pred             HhchhHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHHhhHHHHHHHHhccC
Q 023915          214 AEREKKELLLKLLEWMTGQGYVVDSSTRNLILKNSHLFGRQLIADILSKQH  264 (275)
Q Consensus       214 ~~~~~~~~a~~l~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~~~~~~~~~  264 (275)
                       ...+++.|.+.|.+..+.+ +-+-.+|..+.+-+..+|.+.....+.+.+
T Consensus       829 -~e~k~~kar~Wf~Ravk~d-~d~GD~wa~fykfel~hG~eed~kev~~~c  877 (913)
T KOG0495|consen  829 -SEKKIEKAREWFERAVKKD-PDNGDAWAWFYKFELRHGTEEDQKEVLKKC  877 (913)
T ss_pred             -HHHHHHHHHHHHHHHHccC-CccchHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence             4577888999999887643 234578889999999999555555444433

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

Probab=98.39  E-value=0.00059  Score=63.20  Aligned_cols=225  Identities=10%  Similarity=0.051  Sum_probs=173.7

Q ss_pred             cHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCC-----hhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhH
Q 023915           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-----YNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELC  103 (275)
Q Consensus        29 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-----~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~  103 (275)
                      +...|-..|.-..+.++.++|.+++++.... +.+.     ...|.++++.-.--|.-+...++|++..+.-  -....|
T Consensus      1457 SSi~WI~YMaf~LelsEiekAR~iaerAL~t-IN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqyc--d~~~V~ 1533 (1710)
T KOG1070|consen 1457 SSILWIRYMAFHLELSEIEKARKIAERALKT-INFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYC--DAYTVH 1533 (1710)
T ss_pred             cchHHHHHHHHHhhhhhhHHHHHHHHHHhhh-CCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhc--chHHHH
Confidence            4567888899999999999999999998753 3232     2356777777677777888899999988652  223478


Q ss_pred             HHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhcCCCh----hHHHHHHHHHHh
Q 023915          104 SSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSESISH----PAIKKFASAFVR  179 (275)
Q Consensus       104 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~----~~~~~li~~~~~  179 (275)
                      ..|..-|.+.+..++|.++|+.|.++-. -....|......+.+..+-+.|..++.+.......    .....++..-.+
T Consensus      1534 ~~L~~iy~k~ek~~~A~ell~~m~KKF~-q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLEFk 1612 (1710)
T KOG1070|consen 1534 LKLLGIYEKSEKNDEADELLRLMLKKFG-QTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLEFK 1612 (1710)
T ss_pred             HHHHHHHHHhhcchhHHHHHHHHHHHhc-chhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHhh
Confidence            8999999999999999999999987633 45568999999999999999999999987664333    245566777788


Q ss_pred             cCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhchhHHHHHHHHHHHhhCCCCCCh--hhHHHHHHHHHHhhHHHHH
Q 023915          180 LGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTGQGYVVDS--STRNLILKNSHLFGRQLIA  257 (275)
Q Consensus       180 ~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~~~~p~~--~t~~~li~~~~~~g~~~~~  257 (275)
                      .|+.+.+..+|+.....- +--...|+..|+.=. +.|..+.+..+|++....++.|-.  ..|.-.++.=-..|.+.-.
T Consensus      1613 ~GDaeRGRtlfEgll~ay-PKRtDlW~VYid~ei-k~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde~~v 1690 (1710)
T KOG1070|consen 1613 YGDAERGRTLFEGLLSAY-PKRTDLWSVYIDMEI-KHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDEKNV 1690 (1710)
T ss_pred             cCCchhhHHHHHHHHhhC-ccchhHHHHHHHHHH-ccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCchhhH
Confidence            999999999999988753 335678999999866 667788899999999999988763  5666666655556644443


Q ss_pred             HH
Q 023915          258 DI  259 (275)
Q Consensus       258 ~~  259 (275)
                      +.
T Consensus      1691 E~ 1692 (1710)
T KOG1070|consen 1691 EY 1692 (1710)
T ss_pred             HH
Confidence            33

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

Probab=98.36  E-value=6.9e-07  Score=45.22  Aligned_cols=30  Identities=27%  Similarity=0.479  Sum_probs=21.3

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHHcCC
Q 023915           67 TFHILIKYFCKEKMYILAYRTMVDMHRKGH   96 (275)
Q Consensus        67 t~~~li~~~~~~~~~~~a~~~~~~m~~~g~   96 (275)
                      ||+++|++|++.|++++|.++|++|.+.|+
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            677777777777777777777777776653

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.

>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=98.32  E-value=1.1e-05  Score=59.72  Aligned_cols=90  Identities=19%  Similarity=0.315  Sum_probs=72.9

Q ss_pred             CCcHHhHHHHHHHHHcc-----CCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHcc----------------CCHHHHH
Q 023915           27 KYDVVLLNSMLCAYCRT-----GDMESVMHVMRKLDELAISPDYNTFHILIKYFCKE----------------KMYILAY   85 (275)
Q Consensus        27 ~p~~~~~~~li~~~~~~-----g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~----------------~~~~~a~   85 (275)
                      ..|..+|..+|..|.+.     |..+=....+..|.+-|+.-|..+|+.||+.+=+.                .+-+-|+
T Consensus        44 ~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~i  123 (228)
T PF06239_consen   44 AKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECAI  123 (228)
T ss_pred             cccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHHH
Confidence            55888999999988765     66777777888899999999999999999987653                2345588


Q ss_pred             HHHHHHHHcCCCCCHHhHHHHHHHHhccCCH
Q 023915           86 RTMVDMHRKGHQPEEELCSSLIFHLGKMRAH  116 (275)
Q Consensus        86 ~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~  116 (275)
                      +++++|...|+.||..++..+++.|++.+..
T Consensus       124 ~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~p  154 (228)
T PF06239_consen  124 DLLEQMENNGVMPDKETEQMLLNIFGRKSHP  154 (228)
T ss_pred             HHHHHHHHcCCCCcHHHHHHHHHHhccccHH
Confidence            8888888888888888888888888877664

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

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

Probab=98.32  E-value=0.00037  Score=58.57  Aligned_cols=199  Identities=11%  Similarity=0.034  Sum_probs=130.8

Q ss_pred             CcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChh-hHHHHHHHHHccCCHHHHHHH
Q 023915            9 GCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYN-TFHILIKYFCKEKMYILAYRT   87 (275)
Q Consensus         9 g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~-t~~~li~~~~~~~~~~~a~~~   87 (275)
                      |+..+|.+.|...-..+.. =...|-..-..|+-.|..|.|+..+...-+-  -|..+ -+--+---|.+.++.+.|.++
T Consensus       326 ~k~seARry~SKat~lD~~-fgpaWl~fghsfa~e~EhdQAmaaY~tAarl--~~G~hlP~LYlgmey~~t~n~kLAe~F  402 (611)
T KOG1173|consen  326 GKYSEARRYFSKATTLDPT-FGPAWLAFGHSFAGEGEHDQAMAAYFTAARL--MPGCHLPSLYLGMEYMRTNNLKLAEKF  402 (611)
T ss_pred             cCcHHHHHHHHHHhhcCcc-ccHHHHHHhHHhhhcchHHHHHHHHHHHHHh--ccCCcchHHHHHHHHHHhccHHHHHHH
Confidence            4455555555444322111 1234455555555555555555544443321  11111 111222336677788888888


Q ss_pred             HHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhc------cccccHHhHHHHHHHHHhccchHHHHHHHHHh
Q 023915           88 MVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYS------KRSMCKALHEKILHILISGKLLKDAYVVVKDN  161 (275)
Q Consensus        88 ~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~------~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  161 (275)
                      |.+.... .+-|+...+.+--.....+.+.+|...|+.....      ....+..+++.+-.+|.+.+..++|+..+++.
T Consensus       403 f~~A~ai-~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~a  481 (611)
T KOG1173|consen  403 FKQALAI-APSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKA  481 (611)
T ss_pred             HHHHHhc-CCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHH
Confidence            8876643 1345667777777777789999999999876521      11235667888999999999999999999986


Q ss_pred             hc--CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHH
Q 023915          162 SE--SISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYI  213 (275)
Q Consensus       162 ~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~  213 (275)
                      ..  ..+..++.++--.|...|+++.|...|++-.  .+.|+..+-..++..+.
T Consensus       482 L~l~~k~~~~~asig~iy~llgnld~Aid~fhKaL--~l~p~n~~~~~lL~~ai  533 (611)
T KOG1173|consen  482 LLLSPKDASTHASIGYIYHLLGNLDKAIDHFHKAL--ALKPDNIFISELLKLAI  533 (611)
T ss_pred             HHcCCCchhHHHHHHHHHHHhcChHHHHHHHHHHH--hcCCccHHHHHHHHHHH
Confidence            55  5556689999999999999999999998755  46799888888887654

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

Probab=98.30  E-value=0.00011  Score=60.80  Aligned_cols=199  Identities=11%  Similarity=0.060  Sum_probs=145.7

Q ss_pred             hhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCC-hhhHHHHHHHHHccCCHH
Q 023915            4 AFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYI   82 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~   82 (275)
                      .|....+-++....|+.....+.. |..+|..=-....-.+++++|..=|++..+  +.|. +..|.-+.-+..|.+.++
T Consensus       369 ~y~d~~~~~~~~~~F~~A~~ldp~-n~dvYyHRgQm~flL~q~e~A~aDF~Kai~--L~pe~~~~~iQl~~a~Yr~~k~~  445 (606)
T KOG0547|consen  369 AYADENQSEKMWKDFNKAEDLDPE-NPDVYYHRGQMRFLLQQYEEAIADFQKAIS--LDPENAYAYIQLCCALYRQHKIA  445 (606)
T ss_pred             HHhhhhccHHHHHHHHHHHhcCCC-CCchhHhHHHHHHHHHHHHHHHHHHHHHhh--cChhhhHHHHHHHHHHHHHHHHH
Confidence            577788888999999998876654 555555555555556789999999999887  4454 456777777778899999


Q ss_pred             HHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhcc-------ccccHHhHHHHHHHHHhccchHHHH
Q 023915           83 LAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSK-------RSMCKALHEKILHILISGKLLKDAY  155 (275)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-------~~~~~~~~~~li~~~~~~~~~~~a~  155 (275)
                      .+...|++.++. ++--+..|+..-..+...+++++|.+.|+....--       +.+.+.+.-.++..- =.+++..|+
T Consensus       446 ~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~~~~~~v~~~plV~Ka~l~~q-wk~d~~~a~  523 (606)
T KOG0547|consen  446 ESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEPREHLIIVNAAPLVHKALLVLQ-WKEDINQAE  523 (606)
T ss_pred             HHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhccccccccccchhhhhhhHhhhc-hhhhHHHHH
Confidence            999999999875 45556789999999999999999999999765321       122222222222221 248899999


Q ss_pred             HHHHHhhcC--CChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHH
Q 023915          156 VVVKDNSES--ISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARY  212 (275)
Q Consensus       156 ~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~  212 (275)
                      +++++..+.  ...-.|.+|...-...|++++|+++|+.-...     ..|-.-++++|
T Consensus       524 ~Ll~KA~e~Dpkce~A~~tlaq~~lQ~~~i~eAielFEksa~l-----Art~~E~~~a~  577 (606)
T KOG0547|consen  524 NLLRKAIELDPKCEQAYETLAQFELQRGKIDEAIELFEKSAQL-----ARTESEMVHAY  577 (606)
T ss_pred             HHHHHHHccCchHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH-----HHhHHHHHHHH
Confidence            999987762  23337899999999999999999999875542     23444455554

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

Probab=98.26  E-value=0.00011  Score=55.31  Aligned_cols=147  Identities=7%  Similarity=-0.026  Sum_probs=101.4

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHH
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYI   82 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~   82 (275)
                      ..|...|+++.+....+.+..    |. .       .+...++.+++...++...+. -+.|...|..+...|...|+++
T Consensus        24 ~~Y~~~g~~~~v~~~~~~~~~----~~-~-------~~~~~~~~~~~i~~l~~~L~~-~P~~~~~w~~Lg~~~~~~g~~~   90 (198)
T PRK10370         24 GSYLLSPKWQAVRAEYQRLAD----PL-H-------QFASQQTPEAQLQALQDKIRA-NPQNSEQWALLGEYYLWRNDYD   90 (198)
T ss_pred             HHHHHcchHHHHHHHHHHHhC----cc-c-------cccCchhHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHCCCHH
Confidence            467788888887555433221    11 0       122356667777777666553 2355667888888888999999


Q ss_pred             HHHHHHHHHHHcCCCCCHHhHHHHHHHH-hccCC--HHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHH
Q 023915           83 LAYRTMVDMHRKGHQPEEELCSSLIFHL-GKMRA--HSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVK  159 (275)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~~li~~~-~~~g~--~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~  159 (275)
                      .|...|++..+.. +-+...+..+-.++ ...|+  .++|.+++++....... +...+..+-..+...|++++|...|+
T Consensus        91 ~A~~a~~~Al~l~-P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~-~~~al~~LA~~~~~~g~~~~Ai~~~~  168 (198)
T PRK10370         91 NALLAYRQALQLR-GENAELYAALATVLYYQAGQHMTPQTREMIDKALALDAN-EVTALMLLASDAFMQADYAQAIELWQ  168 (198)
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCC-ChhHHHHHHHHHHHcCCHHHHHHHHH
Confidence            9999999888754 33556677776653 56676  48899999888766554 33466777778888999999999999


Q ss_pred             HhhcC
Q 023915          160 DNSES  164 (275)
Q Consensus       160 ~~~~~  164 (275)
                      ++.+.
T Consensus       169 ~aL~l  173 (198)
T PRK10370        169 KVLDL  173 (198)
T ss_pred             HHHhh
Confidence            88763

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

Probab=98.25  E-value=0.00036  Score=64.48  Aligned_cols=212  Identities=12%  Similarity=0.038  Sum_probs=161.1

Q ss_pred             hhhhcCcHHHHHHHHHHHHhc-CCCC---cHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccC
Q 023915            4 AFCRGGCFEEAKQLAGDFEAK-YDKY---DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEK   79 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~-g~~p---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~   79 (275)
                      ...+.++++.|.+++++.... ++.-   -...|.++++.--.-|.-+...++|++..+-  .-....|..|...|.+..
T Consensus      1467 f~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqy--cd~~~V~~~L~~iy~k~e 1544 (1710)
T KOG1070|consen 1467 FHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQY--CDAYTVHLKLLGIYEKSE 1544 (1710)
T ss_pred             HHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHh--cchHHHHHHHHHHHHHhh
Confidence            455678999999999988752 2221   1245777777766678888899999999873  233456889999999999


Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhcccc-ccHHhHHHHHHHHHhccchHHHHHHH
Q 023915           80 MYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRS-MCKALHEKILHILISGKLLKDAYVVV  158 (275)
Q Consensus        80 ~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~-~~~~~~~~li~~~~~~~~~~~a~~~~  158 (275)
                      ..+.|.++++.|.+.- .-....|...++.+.+.++-+.|.+++.+..+.-+. -...........-.+.|+.+.+..+|
T Consensus      1545 k~~~A~ell~~m~KKF-~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLEFk~GDaeRGRtlf 1623 (1710)
T KOG1070|consen 1545 KNDEADELLRLMLKKF-GQTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLEFKYGDAERGRTLF 1623 (1710)
T ss_pred             cchhHHHHHHHHHHHh-cchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHhhcCCchhhHHHH
Confidence            9999999999998753 355678999999999999999999999987654332 12223444555556799999999999


Q ss_pred             HHhhcCC--ChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCh--hhHHHHHHHHHHhchhH
Q 023915          159 KDNSESI--SHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQ--GIFHIAIARYIAEREKK  219 (275)
Q Consensus       159 ~~~~~~~--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~--~~y~~li~~~~~~~~~~  219 (275)
                      +.....-  ..+.|+.+|+.=.++|+.+.+..+|+.....++.|-.  ..|...+. |=.+.|+-
T Consensus      1624 Egll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLe-yEk~~Gde 1687 (1710)
T KOG1070|consen 1624 EGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLE-YEKSHGDE 1687 (1710)
T ss_pred             HHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHH-HHHhcCch
Confidence            9877633  4568999999999999999999999999999887764  35666664 33343443

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

Probab=98.25  E-value=0.0021  Score=57.63  Aligned_cols=184  Identities=9%  Similarity=0.031  Sum_probs=113.6

Q ss_pred             hhHHHHHHHHHccCCHHHHHHHHHHHHHcCCC--CCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHH
Q 023915           66 NTFHILIKYFCKEKMYILAYRTMVDMHRKGHQ--PEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILH  143 (275)
Q Consensus        66 ~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~--~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~  143 (275)
                      ...+.|.+.|.-.|++..+.++...+......  .-...|-.+-.+|...|++++|...|.+-.+....-....+--+.+
T Consensus       271 ~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~~~l~~~GlgQ  350 (1018)
T KOG2002|consen  271 VALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKADNDNFVLPLVGLGQ  350 (1018)
T ss_pred             HHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCCCCccccccchhH
Confidence            34566777777788888888888887754311  1223577788888888999999988887665433332223445788


Q ss_pred             HHHhccchHHHHHHHHHhhcC-CC-hhHHHHHHHHHHhcC----ChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhch
Q 023915          144 ILISGKLLKDAYVVVKDNSES-IS-HPAIKKFASAFVRLG----NINLVNDVMKAIHATGYRIDQGIFHIAIARYIAERE  217 (275)
Q Consensus       144 ~~~~~~~~~~a~~~~~~~~~~-~~-~~~~~~li~~~~~~~----~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~  217 (275)
                      .+.+.|+++.+...|+..... ++ ..+...+-..|...+    ..+.|..++....+.- +-|...|-.+-..+- . +
T Consensus       351 m~i~~~dle~s~~~fEkv~k~~p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~-~~d~~a~l~laql~e-~-~  427 (1018)
T KOG2002|consen  351 MYIKRGDLEESKFCFEKVLKQLPNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQT-PVDSEAWLELAQLLE-Q-T  427 (1018)
T ss_pred             HHHHhchHHHHHHHHHHHHHhCcchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcc-cccHHHHHHHHHHHH-h-c
Confidence            888899999998888887652 22 235555555566554    4456666655544432 234556665555542 3 3


Q ss_pred             hHHHHHHHHH----HHhhCCCCCChhhHHHHHHHHHHhh
Q 023915          218 KKELLLKLLE----WMTGQGYVVDSSTRNLILKNSHLFG  252 (275)
Q Consensus       218 ~~~~a~~l~~----~m~~~~~~p~~~t~~~li~~~~~~g  252 (275)
                      +....+..|.    .|...+-.+-....|.+-......|
T Consensus       428 d~~~sL~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g  466 (1018)
T KOG2002|consen  428 DPWASLDAYGNALDILESKGKQIPPEVLNNVASLHFRLG  466 (1018)
T ss_pred             ChHHHHHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhc
Confidence            3333344444    3344555566666777766666666

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

Probab=98.23  E-value=0.0007  Score=61.35  Aligned_cols=55  Identities=9%  Similarity=0.068  Sum_probs=27.0

Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHH
Q 023915           69 HILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNM  125 (275)
Q Consensus        69 ~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  125 (275)
                      -.+..+|-+.|+.++|..+|+++.+.. +-|+.+.|.+-..|... ++++|.+++..
T Consensus       120 ~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~~K  174 (906)
T PRK14720        120 RTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAITYLKK  174 (906)
T ss_pred             HHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHHHHHH
Confidence            334444444455555555555555443 33344455555555555 55555555444

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

Probab=98.22  E-value=0.00019  Score=54.77  Aligned_cols=171  Identities=11%  Similarity=0.102  Sum_probs=114.3

Q ss_pred             HHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcC
Q 023915           16 QLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKG   95 (275)
Q Consensus        16 ~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g   95 (275)
                      ++.+.+...-..-+......-...|+..|++++|++.....      -+......=...+.+..+.|.|.+.++.|.+. 
T Consensus        94 ~l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~------~~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~i-  166 (299)
T KOG3081|consen   94 SLYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLG------ENLEAAALNVQILLKMHRFDLAEKELKKMQQI-  166 (299)
T ss_pred             HHHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhcc------chHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc-
Confidence            34444444433434344444455688999999999987762      12222333344567788899999999999863 


Q ss_pred             CCCCHHhHHHHHHHHhc----cCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhc--CCChhH
Q 023915           96 HQPEEELCSSLIFHLGK----MRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSE--SISHPA  169 (275)
Q Consensus        96 ~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~--~~~~~~  169 (275)
                        -+..|.+-|..++.+    .+....|.-+|++|.+ ...|++.+.+-...++...+++++|..++++...  ...|.+
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 --DEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSE-KTPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAKDPET  243 (299)
T ss_pred             --chHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhc-ccCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCCCHHH
Confidence              344566666666654    4668999999999974 3566666788888888899999999999998765  444555


Q ss_pred             HHHHH-HHHHhcCChhHHHHHHHHHHHc
Q 023915          170 IKKFA-SAFVRLGNINLVNDVMKAIHAT  196 (275)
Q Consensus       170 ~~~li-~~~~~~~~~~~a~~~~~~m~~~  196 (275)
                      ...+| .+.-...+.+-..+.+.+++..
T Consensus       244 L~Nliv~a~~~Gkd~~~~~r~l~QLk~~  271 (299)
T KOG3081|consen  244 LANLIVLALHLGKDAEVTERNLSQLKLS  271 (299)
T ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHhc
Confidence            54444 4444444555666677777664

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

Probab=98.21  E-value=0.00042  Score=52.79  Aligned_cols=155  Identities=15%  Similarity=0.072  Sum_probs=105.3

Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhcc
Q 023915           34 NSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKM  113 (275)
Q Consensus        34 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~  113 (275)
                      ..+=..+...|+-+....+....... -.-|....+..+....+.|++..|...+++..... ++|..+|+.+--+|.+.
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~-~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~-p~d~~~~~~lgaaldq~  147 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIA-YPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLA-PTDWEAWNLLGAALDQL  147 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhcc-CcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccC-CCChhhhhHHHHHHHHc
Confidence            44455566667777776665553321 12233344557778888888888888888876543 66777888888888888


Q ss_pred             CCHHHHHHHHHHHHhc-cccccHHhHHHHHHHHHhccchHHHHHHHHHhhcCCC--hhHHHHHHHHHHhcCChhHHHHHH
Q 023915          114 RAHSEALSVYNMLRYS-KRSMCKALHEKILHILISGKLLKDAYVVVKDNSESIS--HPAIKKFASAFVRLGNINLVNDVM  190 (275)
Q Consensus       114 g~~~~a~~~~~~m~~~-~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~li~~~~~~~~~~~a~~~~  190 (275)
                      |+++.|..-|.+..+- +-.|  ...+.+--.+.-.|+.+.|..++......+.  +..-..+.-.....|+++.|..+.
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 GRFDEARRAYRQALELAPNEP--SIANNLGMSLLLRGDLEDAETLLLPAYLSPAADSRVRQNLALVVGLQGDFREAEDIA  225 (257)
T ss_pred             cChhHHHHHHHHHHHhccCCc--hhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCCchHHHHHHHHHHhhcCChHHHHhhc
Confidence            8888888887776643 2222  3467777777778888888888877655433  335567777778888888888876


Q ss_pred             HH
Q 023915          191 KA  192 (275)
Q Consensus       191 ~~  192 (275)
                      ..
T Consensus       226 ~~  227 (257)
T COG5010         226 VQ  227 (257)
T ss_pred             cc
Confidence            54

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

Probab=98.20  E-value=0.00023  Score=58.79  Aligned_cols=161  Identities=12%  Similarity=0.058  Sum_probs=106.4

Q ss_pred             HHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHH-HHHHHHHccCCHHHHHHHHHHHHHcCCCCC-HHhHHHHH
Q 023915           30 VVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFH-ILIKYFCKEKMYILAYRTMVDMHRKGHQPE-EELCSSLI  107 (275)
Q Consensus        30 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~-~li~~~~~~~~~~~a~~~~~~m~~~g~~~~-~~~~~~li  107 (275)
                      ..-|..-+..| ..|++++|+..++.+..  -.||..-|. .....+.+.++..+|.+.++.+...  .|+ ....-.+-
T Consensus       307 aa~YG~A~~~~-~~~~~d~A~~~l~~L~~--~~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~a  381 (484)
T COG4783         307 AAQYGRALQTY-LAGQYDEALKLLQPLIA--AQPDNPYYLELAGDILLEANKAKEAIERLKKALAL--DPNSPLLQLNLA  381 (484)
T ss_pred             HHHHHHHHHHH-HhcccchHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCCccHHHHHHH
Confidence            33455555443 56788888888888765  335555444 5556777888888888888887765  455 44556677


Q ss_pred             HHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhcCCChhHHHHHHHHHHhcCChhHHH
Q 023915          108 FHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSESISHPAIKKFASAFVRLGNINLVN  187 (275)
Q Consensus       108 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~  187 (275)
                      .+|.+.|++.+|..+++..... .+-++..|..+-++|...|+..++..-..+               .|...|+++.|.
T Consensus       382 ~all~~g~~~eai~~L~~~~~~-~p~dp~~w~~LAqay~~~g~~~~a~~A~AE---------------~~~~~G~~~~A~  445 (484)
T COG4783         382 QALLKGGKPQEAIRILNRYLFN-DPEDPNGWDLLAQAYAELGNRAEALLARAE---------------GYALAGRLEQAI  445 (484)
T ss_pred             HHHHhcCChHHHHHHHHHHhhc-CCCCchHHHHHHHHHHHhCchHHHHHHHHH---------------HHHhCCCHHHHH
Confidence            7788888888888888776543 334556788888888888888877776666               345567788888


Q ss_pred             HHHHHHHHcC--CCCChhhHHHHHHH
Q 023915          188 DVMKAIHATG--YRIDQGIFHIAIAR  211 (275)
Q Consensus       188 ~~~~~m~~~g--~~p~~~~y~~li~~  211 (275)
                      ..+...++..  -.|+-.=+...|..
T Consensus       446 ~~l~~A~~~~~~~~~~~aR~dari~~  471 (484)
T COG4783         446 IFLMRASQQVKLGFPDWARADARIDQ  471 (484)
T ss_pred             HHHHHHHHhccCCcHHHHHHHHHHHH
Confidence            7777666642  12333334445544

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.19  E-value=0.00024  Score=50.52  Aligned_cols=95  Identities=13%  Similarity=-0.046  Sum_probs=69.0

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhc
Q 023915           33 LNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGK  112 (275)
Q Consensus        33 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~  112 (275)
                      +..+-.++...|++++|...|+...... +.+...|..+...+.+.|++++|...|+...+.. +.+..++..+-.++.+
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            4456667777888888888888876632 2355667777778888888888888888887643 4456677777778888


Q ss_pred             cCCHHHHHHHHHHHHhc
Q 023915          113 MRAHSEALSVYNMLRYS  129 (275)
Q Consensus       113 ~g~~~~a~~~~~~m~~~  129 (275)
                      .|+.++|...|+.....
T Consensus       105 ~g~~~eAi~~~~~Al~~  121 (144)
T PRK15359        105 MGEPGLAREAFQTAIKM  121 (144)
T ss_pred             cCCHHHHHHHHHHHHHh
Confidence            88888888888876543

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

Probab=98.17  E-value=0.00022  Score=61.69  Aligned_cols=207  Identities=13%  Similarity=0.065  Sum_probs=130.1

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHH
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYI   82 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~   82 (275)
                      ..+...|-+..|..+|+.+.         .|.-+|.+|+..|+..+|..+..+-.+  -+||...|..+.+......-++
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            34566777888888877664         366778888888888888888777666  5588888888888877777777


Q ss_pred             HHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhc-cccccHHhHHHHHHHHHhccchHHHHHHHHHh
Q 023915           83 LAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYS-KRSMCKALHEKILHILISGKLLKDAYVVVKDN  161 (275)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  161 (275)
                      +|..+++.....       +-..+-....+.++++++.+.|+.-..- ...  ..+|-..-.+..+.+++..|.+-|..-
T Consensus       475 kawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~nplq--~~~wf~~G~~ALqlek~q~av~aF~rc  545 (777)
T KOG1128|consen  475 KAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEINPLQ--LGTWFGLGCAALQLEKEQAAVKAFHRC  545 (777)
T ss_pred             HHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhcCccc--hhHHHhccHHHHHHhhhHHHHHHHHHH
Confidence            777777765432       1111111122356777777776643322 222  234545555555667777777777664


Q ss_pred             hc--CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhchhHHHHHHHHHHHhh
Q 023915          162 SE--SISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTG  231 (275)
Q Consensus       162 ~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~  231 (275)
                      ..  ......||.+-.+|.+.++-.+|...+++..+.+..| -..|..-+.... .-|.+++|++.+.+|..
T Consensus       546 vtL~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~~~-w~iWENymlvsv-dvge~eda~~A~~rll~  615 (777)
T KOG1128|consen  546 VTLEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNYQH-WQIWENYMLVSV-DVGEFEDAIKAYHRLLD  615 (777)
T ss_pred             hhcCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCCCC-Ceeeechhhhhh-hcccHHHHHHHHHHHHH
Confidence            44  2233377777777888877777777777776665332 223322222223 56777777777776654

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.17  E-value=0.00014  Score=63.24  Aligned_cols=137  Identities=17%  Similarity=0.205  Sum_probs=82.6

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHH
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYI   82 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~   82 (275)
                      .+......|.+|+.+++.+...  +.-..-|.-+-+-|+..|+++.|.++|.+.-         .|+-.|..|.+.|+|+
T Consensus       740 eaai~akew~kai~ildniqdq--k~~s~yy~~iadhyan~~dfe~ae~lf~e~~---------~~~dai~my~k~~kw~  808 (1636)
T KOG3616|consen  740 EAAIGAKEWKKAISILDNIQDQ--KTASGYYGEIADHYANKGDFEIAEELFTEAD---------LFKDAIDMYGKAGKWE  808 (1636)
T ss_pred             HHHhhhhhhhhhHhHHHHhhhh--ccccccchHHHHHhccchhHHHHHHHHHhcc---------hhHHHHHHHhccccHH
Confidence            3445566777777777777654  2123346667777888888888888876532         3667778888888888


Q ss_pred             HHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHh
Q 023915           83 LAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDN  161 (275)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  161 (275)
                      .|.++-.+..  |-......|-+-..-.-+.|++.+|.++|-.+.    .|     ...|.+|-+.|..++.+++..+.
T Consensus       809 da~kla~e~~--~~e~t~~~yiakaedldehgkf~eaeqlyiti~----~p-----~~aiqmydk~~~~ddmirlv~k~  876 (1636)
T KOG3616|consen  809 DAFKLAEECH--GPEATISLYIAKAEDLDEHGKFAEAEQLYITIG----EP-----DKAIQMYDKHGLDDDMIRLVEKH  876 (1636)
T ss_pred             HHHHHHHHhc--CchhHHHHHHHhHHhHHhhcchhhhhheeEEcc----Cc-----hHHHHHHHhhCcchHHHHHHHHh
Confidence            8877766543  333444455555555555666666655543221    11     23455666666666666665543

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.16  E-value=0.00071  Score=60.33  Aligned_cols=132  Identities=9%  Similarity=-0.017  Sum_probs=109.9

Q ss_pred             CCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChh-hHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCC-HHhHH
Q 023915           27 KYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYN-TFHILIKYFCKEKMYILAYRTMVDMHRKGHQPE-EELCS  104 (275)
Q Consensus        27 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~-t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~-~~~~~  104 (275)
                      ..++..+-.|-....+.|..++|..+++...+  +.||.. ....+...+.+.+++++|+...++..+.  .|+ .....
T Consensus        83 ~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~--~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~--~p~~~~~~~  158 (694)
T PRK15179         83 PHTELFQVLVARALEAAHRSDEGLAVWRGIHQ--RFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSG--GSSSAREIL  158 (694)
T ss_pred             cccHHHHHHHHHHHHHcCCcHHHHHHHHHHHh--hCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhc--CCCCHHHHH
Confidence            34678888888999999999999999999988  668865 4567788899999999999999999876  454 45667


Q ss_pred             HHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhc
Q 023915          105 SLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSE  163 (275)
Q Consensus       105 ~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  163 (275)
                      .+-.++.+.|++++|..+|++.... .+-+..++..+-..+-..|+.++|...|++..+
T Consensus       159 ~~a~~l~~~g~~~~A~~~y~~~~~~-~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~  216 (694)
T PRK15179        159 LEAKSWDEIGQSEQADACFERLSRQ-HPEFENGYVGWAQSLTRRGALWRARDVLQAGLD  216 (694)
T ss_pred             HHHHHHHHhcchHHHHHHHHHHHhc-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            7888889999999999999999873 333466788888888999999999999998765

>PF09295 ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); InterPro: IPR015374 ChAPs (Chs5p-Arf1p-binding proteins) are required for the export of specialised cargo from the Golgi

Probab=98.15  E-value=8.2e-05  Score=61.42  Aligned_cols=126  Identities=14%  Similarity=0.108  Sum_probs=84.7

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHh
Q 023915           32 LLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLG  111 (275)
Q Consensus        32 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  111 (275)
                      .-.+|+..+...++++.|.++|+++.+..  |+.  ...+++.+...++-.+|.+++++..+.. +-+......-...|.
T Consensus       171 Lv~~Ll~~l~~t~~~~~ai~lle~L~~~~--pev--~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fLl  245 (395)
T PF09295_consen  171 LVDTLLKYLSLTQRYDEAIELLEKLRERD--PEV--AVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFLL  245 (395)
T ss_pred             HHHHHHHHHhhcccHHHHHHHHHHHHhcC--CcH--HHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence            34455666666777888888888887754  553  3346666666777777888877777442 334555555666677


Q ss_pred             ccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhc
Q 023915          112 KMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSE  163 (275)
Q Consensus       112 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  163 (275)
                      +.++.+.|+++.++.....+. +-.+|..|..+|...|+++.|+..+..+..
T Consensus       246 ~k~~~~lAL~iAk~av~lsP~-~f~~W~~La~~Yi~~~d~e~ALlaLNs~Pm  296 (395)
T PF09295_consen  246 SKKKYELALEIAKKAVELSPS-EFETWYQLAECYIQLGDFENALLALNSCPM  296 (395)
T ss_pred             hcCCHHHHHHHHHHHHHhCch-hHHHHHHHHHHHHhcCCHHHHHHHHhcCcC
Confidence            788888888888877644222 233677788888888888888877776543

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

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

Probab=98.14  E-value=0.0019  Score=49.54  Aligned_cols=182  Identities=12%  Similarity=-0.009  Sum_probs=113.7

Q ss_pred             CCChhhHHHHHHHHHccCCHHH-HHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHH
Q 023915           62 SPDYNTFHILIKYFCKEKMYIL-AYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEK  140 (275)
Q Consensus        62 ~p~~~t~~~li~~~~~~~~~~~-a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~  140 (275)
                      .|....+..+-......++.+. ..++.+.+.......+...-..-...|++.|++++|++......      +......
T Consensus        69 ~~~lqAvr~~a~~~~~e~~~~~~~~~l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~~------~lE~~Al  142 (299)
T KOG3081|consen   69 ATPLQAVRLLAEYLELESNKKSILASLYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLGE------NLEAAAL  142 (299)
T ss_pred             CChHHHHHHHHHHhhCcchhHHHHHHHHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhccc------hHHHHHH
Confidence            3444444444444444444443 33344445444444443333344455788888999888876621      1223334


Q ss_pred             HHHHHHhccchHHHHHHHHHhhcCCChhHHHHHHHHHHh----cCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhc
Q 023915          141 ILHILISGKLLKDAYVVVKDNSESISHPAIKKFASAFVR----LGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAER  216 (275)
Q Consensus       141 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~  216 (275)
                      =+..+.+..+.+.|.+.+++|.+.-...+.+-|..++.+    .+.+.+|.-+|++|.+ ...|+..+.+-..-... ..
T Consensus       143 ~VqI~lk~~r~d~A~~~lk~mq~ided~tLtQLA~awv~la~ggek~qdAfyifeE~s~-k~~~T~~llnG~Av~~l-~~  220 (299)
T KOG3081|consen  143 NVQILLKMHRFDLAEKELKKMQQIDEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSE-KTPPTPLLLNGQAVCHL-QL  220 (299)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhc-ccCCChHHHccHHHHHH-Hh
Confidence            455666778888888888888887776677666555544    4578888888888876 35677777777766554 66


Q ss_pred             hhHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHHhh
Q 023915          217 EKKELLLKLLEWMTGQGYVVDSSTRNLILKNSHLFG  252 (275)
Q Consensus       217 ~~~~~a~~l~~~m~~~~~~p~~~t~~~li~~~~~~g  252 (275)
                      +++++|..++++.....- -+..|...+|-.-...|
T Consensus       221 ~~~eeAe~lL~eaL~kd~-~dpetL~Nliv~a~~~G  255 (299)
T KOG3081|consen  221 GRYEEAESLLEEALDKDA-KDPETLANLIVLALHLG  255 (299)
T ss_pred             cCHHHHHHHHHHHHhccC-CCHHHHHHHHHHHHHhC
Confidence            888889998888876543 33555555555555555

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

Probab=98.12  E-value=0.00017  Score=50.60  Aligned_cols=99  Identities=9%  Similarity=0.003  Sum_probs=71.4

Q ss_pred             cHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHH
Q 023915           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIF  108 (275)
Q Consensus        29 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~  108 (275)
                      +......+...+...|++++|.+.|+...+.+ +.+...+..+...+.+.|+++.|...+++..+.+ +.+...+..+-.
T Consensus        16 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~   93 (135)
T TIGR02552        16 QLEQIYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAE   93 (135)
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHH
Confidence            33456666677778888888888888876643 2355666777777888888888888888876654 445566777777


Q ss_pred             HHhccCCHHHHHHHHHHHHhc
Q 023915          109 HLGKMRAHSEALSVYNMLRYS  129 (275)
Q Consensus       109 ~~~~~g~~~~a~~~~~~m~~~  129 (275)
                      .|...|+.++|...|+.....
T Consensus        94 ~~~~~g~~~~A~~~~~~al~~  114 (135)
T TIGR02552        94 CLLALGEPESALKALDLAIEI  114 (135)
T ss_pred             HHHHcCCHHHHHHHHHHHHHh
Confidence            788888888888888776654

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

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

Probab=98.10  E-value=0.00065  Score=48.35  Aligned_cols=22  Identities=14%  Similarity=-0.035  Sum_probs=10.1

Q ss_pred             HHHHccCCHHHHHHHHHHHHHc
Q 023915           73 KYFCKEKMYILAYRTMVDMHRK   94 (275)
Q Consensus        73 ~~~~~~~~~~~a~~~~~~m~~~   94 (275)
                      ..+...|++++|...|+.....
T Consensus        56 ~~~~~~g~~~~A~~~l~~~~~~   77 (145)
T PF09976_consen   56 KAAYEQGDYDEAKAALEKALAN   77 (145)
T ss_pred             HHHHHCCCHHHHHHHHHHHHhh
Confidence            3344444444444444444443

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

Probab=98.05  E-value=0.00083  Score=47.80  Aligned_cols=124  Identities=7%  Similarity=0.020  Sum_probs=85.5

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCC---HHhHHHHHHHHhccCCHHHHHHHHHHHHhcccccc--HHhHHHH
Q 023915           67 TFHILIKYFCKEKMYILAYRTMVDMHRKGHQPE---EELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMC--KALHEKI  141 (275)
Q Consensus        67 t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~--~~~~~~l  141 (275)
                      .|..++..+ ..++.+.+...++.+.+.. +.+   ....-.+-..+...|++++|...|+........+.  ......+
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            344555555 4788888888888887653 222   12333455677888999999999998887653332  2234456


Q ss_pred             HHHHHhccchHHHHHHHHHhhcCCChh-HHHHHHHHHHhcCChhHHHHHHHH
Q 023915          142 LHILISGKLLKDAYVVVKDNSESISHP-AIKKFASAFVRLGNINLVNDVMKA  192 (275)
Q Consensus       142 i~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~li~~~~~~~~~~~a~~~~~~  192 (275)
                      -..+...|++++|+..++........+ .+...-..|.+.|++++|...|+.
T Consensus        92 A~~~~~~~~~d~Al~~L~~~~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen   92 ARILLQQGQYDEALATLQQIPDEAFKALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHHHHHcCCHHHHHHHHHhccCcchHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            777888999999999997755444444 445566888999999999988865

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

Probab=98.04  E-value=0.0021  Score=54.55  Aligned_cols=120  Identities=18%  Similarity=0.199  Sum_probs=84.4

Q ss_pred             hhhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHH--HccC
Q 023915            2 ISAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYF--CKEK   79 (275)
Q Consensus         2 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~--~~~~   79 (275)
                      ++-+.+.|++++|.+....+...+.. +...+..=+-+..+.+++++|+.+.+.-..  ...+..-+  +=.+|  .+.+
T Consensus        19 ln~~~~~~e~e~a~k~~~Kil~~~pd-d~~a~~cKvValIq~~ky~~ALk~ikk~~~--~~~~~~~~--fEKAYc~Yrln   93 (652)
T KOG2376|consen   19 LNRHGKNGEYEEAVKTANKILSIVPD-DEDAIRCKVVALIQLDKYEDALKLIKKNGA--LLVINSFF--FEKAYCEYRLN   93 (652)
T ss_pred             HHHhccchHHHHHHHHHHHHHhcCCC-cHhhHhhhHhhhhhhhHHHHHHHHHHhcch--hhhcchhh--HHHHHHHHHcc
Confidence            45677899999999999999987633 556677777788999999999966543221  11111111  23344  4789


Q ss_pred             CHHHHHHHHHHHHHcCCCCCH-HhHHHHHHHHhccCCHHHHHHHHHHHHhccc
Q 023915           80 MYILAYRTMVDMHRKGHQPEE-ELCSSLIFHLGKMRAHSEALSVYNMLRYSKR  131 (275)
Q Consensus        80 ~~~~a~~~~~~m~~~g~~~~~-~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~  131 (275)
                      ..|.|+..++     |..++. .+...--..+-+.|++++|+.+|+.+..++.
T Consensus        94 k~Dealk~~~-----~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~  141 (652)
T KOG2376|consen   94 KLDEALKTLK-----GLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNS  141 (652)
T ss_pred             cHHHHHHHHh-----cccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC
Confidence            9999999888     444433 3555566678889999999999999976543

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

Probab=98.02  E-value=0.00018  Score=50.42  Aligned_cols=100  Identities=12%  Similarity=0.005  Sum_probs=81.4

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHH
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYI   82 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~   82 (275)
                      ..+.+.|++++|.+.|+.....+.. +...+..+-..+.+.|++++|...|+...+.+ +.+...+..+...+...|+++
T Consensus        25 ~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~g~~~  102 (135)
T TIGR02552        25 YNLYQQGRYDEALKLFQLLAAYDPY-NSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAECLLALGEPE  102 (135)
T ss_pred             HHHHHcccHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHHcCCHH
Confidence            4567889999999999999886543 77888999999999999999999999887753 345667778888999999999


Q ss_pred             HHHHHHHHHHHcCCCCCHHhHHHH
Q 023915           83 LAYRTMVDMHRKGHQPEEELCSSL  106 (275)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~~l  106 (275)
                      .|...|+...+.  .|+...+..+
T Consensus       103 ~A~~~~~~al~~--~p~~~~~~~~  124 (135)
T TIGR02552       103 SALKALDLAIEI--CGENPEYSEL  124 (135)
T ss_pred             HHHHHHHHHHHh--ccccchHHHH
Confidence            999999998875  4655554433

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

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

Probab=98.02  E-value=0.00096  Score=50.16  Aligned_cols=125  Identities=10%  Similarity=-0.022  Sum_probs=76.1

Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHH-Hhccc--hHHH
Q 023915           78 EKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHIL-ISGKL--LKDA  154 (275)
Q Consensus        78 ~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~-~~~~~--~~~a  154 (275)
                      .++.+++...++...+.. +.|...|..+-..|...|++++|...|+........ +...+..+-.++ ...|+  .++|
T Consensus        52 ~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P~-~~~~~~~lA~aL~~~~g~~~~~~A  129 (198)
T PRK10370         52 QQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDNALLAYRQALQLRGE-NAELYAALATVLYYQAGQHMTPQT  129 (198)
T ss_pred             chhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCCCCcHHH
Confidence            555566666666655543 455667777777777777888877777776654332 333444444443 45555  4777


Q ss_pred             HHHHHHhhc--CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhH
Q 023915          155 YVVVKDNSE--SISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIF  205 (275)
Q Consensus       155 ~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y  205 (275)
                      .+++++...  ..++..+..+...+...|++++|...|+.+.+.. .|+..-+
T Consensus       130 ~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l~-~~~~~r~  181 (198)
T PRK10370        130 REMIDKALALDANEVTALMLLASDAFMQADYAQAIELWQKVLDLN-SPRVNRT  181 (198)
T ss_pred             HHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCccHH
Confidence            777777655  2233356666667777777777777777776643 3444333

>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=98.00  E-value=0.0012  Score=54.75  Aligned_cols=122  Identities=18%  Similarity=0.179  Sum_probs=97.5

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHh
Q 023915           68 FHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILIS  147 (275)
Q Consensus        68 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~  147 (275)
                      -.+|+..+...++++.|..+|+++.+..  |+.  ...+...+...++-.+|.+++++....... +......-.+.|.+
T Consensus       172 v~~Ll~~l~~t~~~~~ai~lle~L~~~~--pev--~~~LA~v~l~~~~E~~AI~ll~~aL~~~p~-d~~LL~~Qa~fLl~  246 (395)
T PF09295_consen  172 VDTLLKYLSLTQRYDEAIELLEKLRERD--PEV--AVLLARVYLLMNEEVEAIRLLNEALKENPQ-DSELLNLQAEFLLS  246 (395)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHhcC--CcH--HHHHHHHHHhcCcHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHh
Confidence            3566677777899999999999999764  654  445788888888999999999988754332 34455666677889


Q ss_pred             ccchHHHHHHHHHhhcCCCh--hHHHHHHHHHHhcCChhHHHHHHHHHH
Q 023915          148 GKLLKDAYVVVKDNSESISH--PAIKKFASAFVRLGNINLVNDVMKAIH  194 (275)
Q Consensus       148 ~~~~~~a~~~~~~~~~~~~~--~~~~~li~~~~~~~~~~~a~~~~~~m~  194 (275)
                      .++.+.|+.+.++.....+.  .+|..|..+|...|+++.|+..++.+.
T Consensus       247 k~~~~lAL~iAk~av~lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  247 KKKYELALEIAKKAVELSPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             cCCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            99999999999998873332  388999999999999999999998765

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

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=97.99  E-value=0.0076  Score=53.98  Aligned_cols=145  Identities=8%  Similarity=-0.046  Sum_probs=115.2

Q ss_pred             CCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCH-HhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHH
Q 023915           61 ISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEE-ELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHE  139 (275)
Q Consensus        61 ~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~-~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~  139 (275)
                      ...+...+-.|.....+.|.+++|+.+++...+.  .|+. .....+...+.+.+++++|+...++.....+. +.....
T Consensus        82 ~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~--~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p~-~~~~~~  158 (694)
T PRK15179         82 YPHTELFQVLVARALEAAHRSDEGLAVWRGIHQR--FPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGGSS-SAREIL  158 (694)
T ss_pred             ccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhh--CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCCC-CHHHHH
Confidence            4455778888889999999999999999999875  6764 47778999999999999999999988755433 444667


Q ss_pred             HHHHHHHhccchHHHHHHHHHhhc-CCC-hhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHH
Q 023915          140 KILHILISGKLLKDAYVVVKDNSE-SIS-HPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAI  209 (275)
Q Consensus       140 ~li~~~~~~~~~~~a~~~~~~~~~-~~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li  209 (275)
                      .+-.++...|++++|..+|++... .+. +..+..+-..+...|+.++|...|+...+. ..|....|+..+
T Consensus       159 ~~a~~l~~~g~~~~A~~~y~~~~~~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~-~~~~~~~~~~~~  229 (694)
T PRK15179        159 LEAKSWDEIGQSEQADACFERLSRQHPEFENGYVGWAQSLTRRGALWRARDVLQAGLDA-IGDGARKLTRRL  229 (694)
T ss_pred             HHHHHHHHhcchHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-hCcchHHHHHHH
Confidence            778888999999999999999885 322 347788888999999999999999987774 234555555444

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

Probab=97.98  E-value=0.00022  Score=61.66  Aligned_cols=184  Identities=10%  Similarity=-0.001  Sum_probs=129.2

Q ss_pred             ChhhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCC
Q 023915            1 MISAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKM   80 (275)
Q Consensus         1 li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~   80 (275)
                      +|..|+..|+..+|..+..+..+.  +||...|..+.+......-+++|.++++....+       .-..+-....+.++
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            366788999999999998877763  789999999999988888899999998775432       11111112233677


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHH
Q 023915           81 YILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKD  160 (275)
Q Consensus        81 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  160 (275)
                      ++.+.+.|+.-.+.. +....+|-.+-.+..+.++++.|.+.|..-... -+-....||.+-.+|.+.++-.+|...+++
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-PLQLGTWFGLGCAALQLEKEQAAVKAFHRCVTL-EPDNAEAWNNLSTAYIRLKKKKRAFRKLKE  578 (777)
T ss_pred             HHHHHHHHHHHhhcC-ccchhHHHhccHHHHHHhhhHHHHHHHHHHhhc-CCCchhhhhhhhHHHHHHhhhHHHHHHHHH
Confidence            888888777755432 334457777777777788888888888776532 222345688888888888888888888887


Q ss_pred             hhcCCCh--hHHHHHHHHHHhcCChhHHHHHHHHHHH
Q 023915          161 NSESISH--PAIKKFASAFVRLGNINLVNDVMKAIHA  195 (275)
Q Consensus       161 ~~~~~~~--~~~~~li~~~~~~~~~~~a~~~~~~m~~  195 (275)
                      ..+....  ..+...+-.....|.+++|.+.+..+..
T Consensus       579 AlKcn~~~w~iWENymlvsvdvge~eda~~A~~rll~  615 (777)
T KOG1128|consen  579 ALKCNYQHWQIWENYMLVSVDVGEFEDAIKAYHRLLD  615 (777)
T ss_pred             HhhcCCCCCeeeechhhhhhhcccHHHHHHHHHHHHH
Confidence            6653222  2455666667778888888888877655

>PRK04841 transcriptional regulator MalT; Provisional

Probab=97.98  E-value=0.0057  Score=57.20  Aligned_cols=228  Identities=12%  Similarity=-0.023  Sum_probs=143.5

Q ss_pred             hhhhcCcHHHHHHHHHHHHhc----CC-CCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhc----CCC--C-ChhhHHHH
Q 023915            4 AFCRGGCFEEAKQLAGDFEAK----YD-KYDVVLLNSMLCAYCRTGDMESVMHVMRKLDEL----AIS--P-DYNTFHIL   71 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~----g~-~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~--p-~~~t~~~l   71 (275)
                      .+...|++++|...+++....    |. .+-..+++.+-..+...|+++.|.+.+++....    +..  | ....+..+
T Consensus       500 ~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l  579 (903)
T PRK04841        500 VHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIR  579 (903)
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHH
Confidence            345689999999998887642    11 112235566667788899999999988876542    221  1 22334455


Q ss_pred             HHHHHccCCHHHHHHHHHHHHHcC--CCCC--HHhHHHHHHHHhccCCHHHHHHHHHHHHhc----cccccH-Hh-HHHH
Q 023915           72 IKYFCKEKMYILAYRTMVDMHRKG--HQPE--EELCSSLIFHLGKMRAHSEALSVYNMLRYS----KRSMCK-AL-HEKI  141 (275)
Q Consensus        72 i~~~~~~~~~~~a~~~~~~m~~~g--~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~~~~-~~-~~~l  141 (275)
                      ...+...|+++.|...+.+.....  ..+.  ...+..+...+...|+.+.|...+......    +..... .. ....
T Consensus       580 a~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~  659 (903)
T PRK04841        580 AQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVR  659 (903)
T ss_pred             HHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHH
Confidence            566777899999999988876431  1122  234445666777889999999988877542    111100 00 0112


Q ss_pred             HHHHHhccchHHHHHHHHHhhcCCChhH------HHHHHHHHHhcCChhHHHHHHHHHHHc----CCCCCh-hhHHHHHH
Q 023915          142 LHILISGKLLKDAYVVVKDNSESISHPA------IKKFASAFVRLGNINLVNDVMKAIHAT----GYRIDQ-GIFHIAIA  210 (275)
Q Consensus       142 i~~~~~~~~~~~a~~~~~~~~~~~~~~~------~~~li~~~~~~~~~~~a~~~~~~m~~~----g~~p~~-~~y~~li~  210 (275)
                      +..+...|+.+.|..++...........      ...+..++...|+.++|...+......    |..++. .+...+-.
T Consensus       660 ~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~  739 (903)
T PRK04841        660 LIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQ  739 (903)
T ss_pred             HHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHH
Confidence            2444557889999988877554211111      245667788999999999999886653    333322 24444444


Q ss_pred             HHHHhchhHHHHHHHHHHHhhC
Q 023915          211 RYIAEREKKELLLKLLEWMTGQ  232 (275)
Q Consensus       211 ~~~~~~~~~~~a~~l~~~m~~~  232 (275)
                      ++. ..|+.++|...+.+..+.
T Consensus       740 a~~-~~G~~~~A~~~L~~Al~l  760 (903)
T PRK04841        740 LYW-QQGRKSEAQRVLLEALKL  760 (903)
T ss_pred             HHH-HcCCHHHHHHHHHHHHHH
Confidence            554 678888899998887654

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=97.97  E-value=0.00036  Score=49.62  Aligned_cols=94  Identities=6%  Similarity=-0.138  Sum_probs=80.2

Q ss_pred             hhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHH
Q 023915            4 AFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYIL   83 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~   83 (275)
                      .+.+.|++++|...|+......+. +...|..+-.++.+.|++++|...|+.....+ +.+...+..+..++.+.|++++
T Consensus        33 ~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~-p~~~~a~~~lg~~l~~~g~~~e  110 (144)
T PRK15359         33 ASWQEGDYSRAVIDFSWLVMAQPW-SWRAHIALAGTWMMLKEYTTAINFYGHALMLD-ASHPEPVYQTGVCLKMMGEPGL  110 (144)
T ss_pred             HHHHcCCHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHH
Confidence            567889999999999999876544 78899999999999999999999999998742 3466778899999999999999


Q ss_pred             HHHHHHHHHHcCCCCCHH
Q 023915           84 AYRTMVDMHRKGHQPEEE  101 (275)
Q Consensus        84 a~~~~~~m~~~g~~~~~~  101 (275)
                      |...|+...+.  .|+..
T Consensus       111 Ai~~~~~Al~~--~p~~~  126 (144)
T PRK15359        111 AREAFQTAIKM--SYADA  126 (144)
T ss_pred             HHHHHHHHHHh--CCCCh
Confidence            99999999875  45543

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.96  E-value=0.0047  Score=49.46  Aligned_cols=149  Identities=9%  Similarity=0.033  Sum_probs=72.6

Q ss_pred             HHHHHHHHHHHhhcCCCCChh-hHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHH
Q 023915           46 MESVMHVMRKLDELAISPDYN-TFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYN  124 (275)
Q Consensus        46 ~~~a~~~~~~m~~~g~~p~~~-t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~  124 (275)
                      ..-|.+.|+-.-+++..-|.. --.++.+.+.-..++|.++-.++.+...-..-|...| .+..+++..|...+|.++|-
T Consensus       339 lKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~sYF~NdD~Fn~-N~AQAk~atgny~eaEelf~  417 (557)
T KOG3785|consen  339 LKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIESYFTNDDDFNL-NLAQAKLATGNYVEAEELFI  417 (557)
T ss_pred             HHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcchhhh-HHHHHHHHhcChHHHHHHHh
Confidence            334555554444444332222 2234444444455555555555555544322222222 25556666666666666665


Q ss_pred             HHHhccccccHHhHHH-HHHHHHhccchHHHHHHHHHhhcCCChhHH-HHHHHHHHhcCChhHHHHHHHHHHHc
Q 023915          125 MLRYSKRSMCKALHEK-ILHILISGKLLKDAYVVVKDNSESISHPAI-KKFASAFVRLGNINLVNDVMKAIHAT  196 (275)
Q Consensus       125 ~m~~~~~~~~~~~~~~-li~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~li~~~~~~~~~~~a~~~~~~m~~~  196 (275)
                      .+....+.- ..+|.+ +-++|++++..+.|++++-++......-+. ..+.+-|.+++.+--|.+.|+.+...
T Consensus       418 ~is~~~ikn-~~~Y~s~LArCyi~nkkP~lAW~~~lk~~t~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~l  490 (557)
T KOG3785|consen  418 RISGPEIKN-KILYKSMLARCYIRNKKPQLAWDMMLKTNTPSERFSLLQLIANDCYKANEFYYAAKAFDELEIL  490 (557)
T ss_pred             hhcChhhhh-hHHHHHHHHHHHHhcCCchHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHcc
Confidence            554333222 223433 445556666666666666554433322222 23345566666666666666665553

>PRK04841 transcriptional regulator MalT; Provisional

Probab=97.88  E-value=0.023  Score=53.22  Aligned_cols=249  Identities=13%  Similarity=0.011  Sum_probs=153.3

Q ss_pred             hhhcCcHHHHHHHHHHHHhcCCCCcH----HhHHHHHHHHHccCCHHHHHHHHHHHhhc----C-CCCChhhHHHHHHHH
Q 023915            5 FCRGGCFEEAKQLAGDFEAKYDKYDV----VLLNSMLCAYCRTGDMESVMHVMRKLDEL----A-ISPDYNTFHILIKYF   75 (275)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~g~~p~~----~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g-~~p~~~t~~~li~~~   75 (275)
                      +...|++++|...+++....-...+.    ...+.+-..+...|++++|...+++....    | ..+...++..+...+
T Consensus       462 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~  541 (903)
T PRK04841        462 AINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEIL  541 (903)
T ss_pred             HHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHH
Confidence            45688999999999987653112121    34566666778899999999999887642    1 111123455666778


Q ss_pred             HccCCHHHHHHHHHHHHH----cCCC--C-CHHhHHHHHHHHhccCCHHHHHHHHHHHHhc----cccccHHhHHHHHHH
Q 023915           76 CKEKMYILAYRTMVDMHR----KGHQ--P-EEELCSSLIFHLGKMRAHSEALSVYNMLRYS----KRSMCKALHEKILHI  144 (275)
Q Consensus        76 ~~~~~~~~a~~~~~~m~~----~g~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~~~~~~~~~li~~  144 (275)
                      ...|+++.|...+++..+    .|..  + ....+..+...+...|++++|...+++....    +.......+..+-..
T Consensus       542 ~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~  621 (903)
T PRK04841        542 FAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKI  621 (903)
T ss_pred             HHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHH
Confidence            889999999999888764    2221  1 2233445555667789999999998876542    211122344445566


Q ss_pred             HHhccchHHHHHHHHHhhc----CCChhHH-----HHHHHHHHhcCChhHHHHHHHHHHHcCCCCChh---hHHHHHHHH
Q 023915          145 LISGKLLKDAYVVVKDNSE----SISHPAI-----KKFASAFVRLGNINLVNDVMKAIHATGYRIDQG---IFHIAIARY  212 (275)
Q Consensus       145 ~~~~~~~~~a~~~~~~~~~----~~~~~~~-----~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~---~y~~li~~~  212 (275)
                      ....|+.+.|...+.....    ......+     ...+..+...|+.+.|...+.............   .+..+...+
T Consensus       622 ~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~  701 (903)
T PRK04841        622 SLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQ  701 (903)
T ss_pred             HHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHH
Confidence            7789999999998887643    1111111     112244556889999999876654321111111   123344444


Q ss_pred             HHhchhHHHHHHHHHHHhhC----CCCCC-hhhHHHHHHHHHHhhHH
Q 023915          213 IAEREKKELLLKLLEWMTGQ----GYVVD-SSTRNLILKNSHLFGRQ  254 (275)
Q Consensus       213 ~~~~~~~~~a~~l~~~m~~~----~~~p~-~~t~~~li~~~~~~g~~  254 (275)
                      . ..|+.++|..++++....    |..++ ..+...+-.++.+.|+.
T Consensus       702 ~-~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~  747 (903)
T PRK04841        702 I-LLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRK  747 (903)
T ss_pred             H-HcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCH
Confidence            4 568888899988887543    33332 24455555666777743

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

Probab=97.88  E-value=0.0052  Score=51.10  Aligned_cols=199  Identities=11%  Similarity=-0.027  Sum_probs=134.5

Q ss_pred             CCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHH
Q 023915           27 KYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSL  106 (275)
Q Consensus        27 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~l  106 (275)
                      .|+...+...+.+......-..+-.++.+-.+.+  -...-|..-+ .+...|.++.|+..++.+... .+-|+.-....
T Consensus       271 ~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~--~~aa~YG~A~-~~~~~~~~d~A~~~l~~L~~~-~P~N~~~~~~~  346 (484)
T COG4783         271 SPDFQLARARIRAKYEALPNQQAADLLAKRSKRG--GLAAQYGRAL-QTYLAGQYDEALKLLQPLIAA-QPDNPYYLELA  346 (484)
T ss_pred             CccHHHHHHHHHHHhccccccchHHHHHHHhCcc--chHHHHHHHH-HHHHhcccchHHHHHHHHHHh-CCCCHHHHHHH
Confidence            4566777888877665554444444443333311  1122243333 455779999999999998865 23455566678


Q ss_pred             HHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhc--CCChhHHHHHHHHHHhcCChh
Q 023915          107 IFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSE--SISHPAIKKFASAFVRLGNIN  184 (275)
Q Consensus       107 i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~  184 (275)
                      .+.+.+.++.++|.+.++.+....+.- ....-.+-.+|.+.|+..+|..+++....  ..++..|..|..+|...|+..
T Consensus       347 ~~i~~~~nk~~~A~e~~~kal~l~P~~-~~l~~~~a~all~~g~~~eai~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~  425 (484)
T COG4783         347 GDILLEANKAKEAIERLKKALALDPNS-PLLQLNLAQALLKGGKPQEAIRILNRYLFNDPEDPNGWDLLAQAYAELGNRA  425 (484)
T ss_pred             HHHHHHcCChHHHHHHHHHHHhcCCCc-cHHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCchH
Confidence            888999999999999999988654332 44667788899999999999999998655  445568999999999999999


Q ss_pred             HHHHHHHHHHHcCCCCChhhHHHHHHHHHHhchhHHHHHHHHHHHhhCC--CCCChhhHHHHHHHHH
Q 023915          185 LVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTGQG--YVVDSSTRNLILKNSH  249 (275)
Q Consensus       185 ~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~~--~~p~~~t~~~li~~~~  249 (275)
                      ++..-..+..                  . ..|++++|...+....+..  -.|+-.=+...|....
T Consensus       426 ~a~~A~AE~~------------------~-~~G~~~~A~~~l~~A~~~~~~~~~~~aR~dari~~~~  473 (484)
T COG4783         426 EALLARAEGY------------------A-LAGRLEQAIIFLMRASQQVKLGFPDWARADARIDQLR  473 (484)
T ss_pred             HHHHHHHHHH------------------H-hCCCHHHHHHHHHHHHHhccCCcHHHHHHHHHHHHHH
Confidence            9887765542                  2 3466666666666655432  2344444444444443

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

Probab=97.86  E-value=6.6e-05  Score=47.95  Aligned_cols=80  Identities=16%  Similarity=0.256  Sum_probs=42.5

Q ss_pred             cCcHHHHHHHHHHHHhcCCC-CcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCh-hhHHHHHHHHHccCCHHHHH
Q 023915            8 GGCFEEAKQLAGDFEAKYDK-YDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDY-NTFHILIKYFCKEKMYILAY   85 (275)
Q Consensus         8 ~g~~~~a~~~~~~m~~~g~~-p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-~t~~~li~~~~~~~~~~~a~   85 (275)
                      .|+++.|+.+++.+.+.... |+...+-.+-.++.+.|++++|+++++. .+  ..|+. ...-.+..++.+.|++++|.
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~--~~~~~~~~~~l~a~~~~~l~~y~eAi   78 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LK--LDPSNPDIHYLLARCLLKLGKYEEAI   78 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HT--HHHCHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hC--CCCCCHHHHHHHHHHHHHhCCHHHHH
Confidence            45666666666666665331 2333444466666666666666666666 21  22222 22223355566666666666


Q ss_pred             HHHHH
Q 023915           86 RTMVD   90 (275)
Q Consensus        86 ~~~~~   90 (275)
                      .++++
T Consensus        79 ~~l~~   83 (84)
T PF12895_consen   79 KALEK   83 (84)
T ss_dssp             HHHHH
T ss_pred             HHHhc
Confidence            66654

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=97.84  E-value=0.00048  Score=44.15  Aligned_cols=93  Identities=18%  Similarity=0.162  Sum_probs=50.8

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhc
Q 023915           33 LNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGK  112 (275)
Q Consensus        33 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~  112 (275)
                      +..+...+...|++++|...+++..+.. +.+...+..+...+...++++.|.+.++...+.. +.+..++..+...+..
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~   80 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYK   80 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHH
Confidence            3344455555666666666666655421 1122445555555666666666666666655543 2233455555566666


Q ss_pred             cCCHHHHHHHHHHHH
Q 023915          113 MRAHSEALSVYNMLR  127 (275)
Q Consensus       113 ~g~~~~a~~~~~~m~  127 (275)
                      .|+.+.|...+....
T Consensus        81 ~~~~~~a~~~~~~~~   95 (100)
T cd00189          81 LGKYEEALEAYEKAL   95 (100)
T ss_pred             HHhHHHHHHHHHHHH
Confidence            666666666655543

>PLN02789 farnesyltranstransferase

Probab=97.83  E-value=0.011  Score=47.95  Aligned_cols=205  Identities=9%  Similarity=-0.041  Sum_probs=126.2

Q ss_pred             hhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccC-CHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCC--
Q 023915            4 AFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTG-DMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKM--   80 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g-~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~--   80 (275)
                      .+...++.++|+.+.+++....+. +..+|+.--.++...| +++++++.++++.+.+- -+..+|+.--..+.+.|+  
T Consensus        46 ~l~~~e~serAL~lt~~aI~lnP~-~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~np-knyqaW~~R~~~l~~l~~~~  123 (320)
T PLN02789         46 VYASDERSPRALDLTADVIRLNPG-NYTVWHFRRLCLEALDADLEEELDFAEDVAEDNP-KNYQIWHHRRWLAEKLGPDA  123 (320)
T ss_pred             HHHcCCCCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCC-cchHHhHHHHHHHHHcCchh
Confidence            345567788888888888876433 4456665555566666 57889999888877432 223345544444445554  


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhc---cch----HH
Q 023915           81 YILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISG---KLL----KD  153 (275)
Q Consensus        81 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~---~~~----~~  153 (275)
                      .+.++.+++.+.+.. +-|..+|+....++.+.|+++++++.++.+....+.... .|+..-..+.+.   |..    ++
T Consensus       124 ~~~el~~~~kal~~d-pkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~N~s-AW~~R~~vl~~~~~l~~~~~~~e~  201 (320)
T PLN02789        124 ANKELEFTRKILSLD-AKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVRNNS-AWNQRYFVITRSPLLGGLEAMRDS  201 (320)
T ss_pred             hHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCchh-HHHHHHHHHHhccccccccccHHH
Confidence            366788888887653 446678888888888888999999999988776544333 454444344333   222    34


Q ss_pred             HHHHHHHhhc-CC-ChhHHHHHHHHHHhc----CChhHHHHHHHHHHHcCCCCChhhHHHHHHHHH
Q 023915          154 AYVVVKDNSE-SI-SHPAIKKFASAFVRL----GNINLVNDVMKAIHATGYRIDQGIFHIAIARYI  213 (275)
Q Consensus       154 a~~~~~~~~~-~~-~~~~~~~li~~~~~~----~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~  213 (275)
                      .++...+... .+ +...|+-+...+...    ++..+|...+.+....+ ..+......|++.|+
T Consensus       202 el~y~~~aI~~~P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~-~~s~~al~~l~d~~~  266 (320)
T PLN02789        202 ELKYTIDAILANPRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKD-SNHVFALSDLLDLLC  266 (320)
T ss_pred             HHHHHHHHHHhCCCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhccc-CCcHHHHHHHHHHHH
Confidence            5555544433 22 233555555555552    33455777776655533 235567777888876

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=97.81  E-value=0.018  Score=51.50  Aligned_cols=109  Identities=19%  Similarity=0.194  Sum_probs=73.2

Q ss_pred             hhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHH--HHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCH
Q 023915            4 AFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCA--YCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMY   81 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~--~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~   81 (275)
                      .....+++..|++..+.+.+.  .||. .|..++.+  ..+.|+.++|..+++....-+.. |..|..++-..|...++.
T Consensus        18 d~ld~~qfkkal~~~~kllkk--~Pn~-~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~   93 (932)
T KOG2053|consen   18 DLLDSSQFKKALAKLGKLLKK--HPNA-LYAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKL   93 (932)
T ss_pred             HHhhhHHHHHHHHHHHHHHHH--CCCc-HHHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhh
Confidence            345567788888888777764  3332 23333333  34678888888777776654443 777788888888888888


Q ss_pred             HHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHH
Q 023915           82 ILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSE  118 (275)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~  118 (275)
                      ++|..+|++....  -|+......+..+|.|.+.+.+
T Consensus        94 d~~~~~Ye~~~~~--~P~eell~~lFmayvR~~~yk~  128 (932)
T KOG2053|consen   94 DEAVHLYERANQK--YPSEELLYHLFMAYVREKSYKK  128 (932)
T ss_pred             hHHHHHHHHHHhh--CCcHHHHHHHHHHHHHHHHHHH
Confidence            8888888887643  5666666667777777766644

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.81  E-value=0.0097  Score=46.64  Aligned_cols=243  Identities=14%  Similarity=0.090  Sum_probs=142.0

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHH-HHHHHHccCCH
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHI-LIKYFCKEKMY   81 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~-li~~~~~~~~~   81 (275)
                      ..+.+..++++|++++....+...+ +....+.|-.+|-...++..|-+.++++..  .-|...-|.. -...+.+.+.+
T Consensus        18 y~lI~d~ry~DaI~~l~s~~Er~p~-~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~q--l~P~~~qYrlY~AQSLY~A~i~   94 (459)
T KOG4340|consen   18 YRLIRDARYADAIQLLGSELERSPR-SRAGLSLLGYCYYRLQEFALAAECYEQLGQ--LHPELEQYRLYQAQSLYKACIY   94 (459)
T ss_pred             HHHHHHhhHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHHHHHHHHHHHHHHHHh--hChHHHHHHHHHHHHHHHhccc
Confidence            4457788899999998887776433 778888999999999999999888888876  4465554431 22344455555


Q ss_pred             HHHHHHHHHHHHc------------------CC----------CC---CHHhHHHHHHHHhccCCHHHHHHHHHHHHhcc
Q 023915           82 ILAYRTMVDMHRK------------------GH----------QP---EEELCSSLIFHLGKMRAHSEALSVYNMLRYSK  130 (275)
Q Consensus        82 ~~a~~~~~~m~~~------------------g~----------~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  130 (275)
                      ..|+++...|.+.                  +-          .|   +..+.+..-....+.|+++.|.+-|+...+-+
T Consensus        95 ADALrV~~~~~D~~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en~Ad~~in~gCllykegqyEaAvqkFqaAlqvs  174 (459)
T KOG4340|consen   95 ADALRVAFLLLDNPALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSENEADGQINLGCLLYKEGQYEAAVQKFQAALQVS  174 (459)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHhcccccCcchHHHHHhccCCCccchhccchheeeccccHHHHHHHHHHHHhhc
Confidence            5555555555331                  00          01   11122222222346788888888888776654


Q ss_pred             ccccHHhHHHHHHHHHhccchHHHHHHHHHhhcCCCh----------------h--------HHHHH-------HHHHHh
Q 023915          131 RSMCKALHEKILHILISGKLLKDAYVVVKDNSESISH----------------P--------AIKKF-------ASAFVR  179 (275)
Q Consensus       131 ~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~----------------~--------~~~~l-------i~~~~~  179 (275)
                      .--+...|+..+.-| +.|+.+.|++...++.+.+..                .        ....+       ...+.+
T Consensus       175 GyqpllAYniALaHy-~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal~eAfNLKaAIeyq  253 (459)
T KOG4340|consen  175 GYQPLLAYNLALAHY-SSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSALVEAFNLKAAIEYQ  253 (459)
T ss_pred             CCCchhHHHHHHHHH-hhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchHHHHHHHHHHHhhhhhhhhhh
Confidence            333444677666544 456778888877765432110                0        11222       234556


Q ss_pred             cCChhHHHHHHHHHHHc-CCCCChhhHHHHHHHHHHhchhHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHHhh
Q 023915          180 LGNINLVNDVMKAIHAT-GYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTGQGYVVDSSTRNLILKNSHLFG  252 (275)
Q Consensus       180 ~~~~~~a~~~~~~m~~~-g~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~~~~p~~~t~~~li~~~~~~g  252 (275)
                      .|+++.|.+-+-.|... .-..|+.|.+.+.-.  ...+++-+..+-+.-+.... +-...||..++-.|||..
T Consensus       254 ~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~--n~~~~p~~g~~KLqFLL~~n-PfP~ETFANlLllyCKNe  324 (459)
T KOG4340|consen  254 LRNYEAAQEALTDMPPRAEEELDPVTLHNQALM--NMDARPTEGFEKLQFLLQQN-PFPPETFANLLLLYCKNE  324 (459)
T ss_pred             cccHHHHHHHhhcCCCcccccCCchhhhHHHHh--cccCCccccHHHHHHHHhcC-CCChHHHHHHHHHHhhhH
Confidence            78888888887777654 234455666554432  12333333444344333321 223467777777777776

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.79  E-value=0.001  Score=45.29  Aligned_cols=97  Identities=11%  Similarity=0.091  Sum_probs=57.6

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCC----hhhHHHHHHHHHccCCHHHHHHHHHHHHHcCC--CCCHHhHHH
Q 023915           32 LLNSMLCAYCRTGDMESVMHVMRKLDELAISPD----YNTFHILIKYFCKEKMYILAYRTMVDMHRKGH--QPEEELCSS  105 (275)
Q Consensus        32 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~----~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~--~~~~~~~~~  105 (275)
                      ++-.+...+.+.|++++|.+.|..+.+..  |+    ...+..+...+.+.|+++.|...|+.+....-  +.....+..
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~   81 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKY--PKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLK   81 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHH
Confidence            34455556666677777777776666532  22    23444566667777777777777777665321  111344555


Q ss_pred             HHHHHhccCCHHHHHHHHHHHHhcc
Q 023915          106 LIFHLGKMRAHSEALSVYNMLRYSK  130 (275)
Q Consensus       106 li~~~~~~g~~~~a~~~~~~m~~~~  130 (275)
                      +..++.+.|+.+.|...++++....
T Consensus        82 ~~~~~~~~~~~~~A~~~~~~~~~~~  106 (119)
T TIGR02795        82 LGMSLQELGDKEKAKATLQQVIKRY  106 (119)
T ss_pred             HHHHHHHhCChHHHHHHHHHHHHHC
Confidence            6666666777777777777666553

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.

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

Probab=97.79  E-value=0.0092  Score=45.70  Aligned_cols=158  Identities=8%  Similarity=-0.107  Sum_probs=117.5

Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhc
Q 023915           69 HILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISG  148 (275)
Q Consensus        69 ~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~  148 (275)
                      ..+-..+.-.|+-+....+....... ..-|............+.|++..|...+++... .-+++...|+.+--+|-+.
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~-~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~-l~p~d~~~~~~lgaaldq~  147 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIA-YPKDRELLAAQGKNQIRNGNFGEAVSVLRKAAR-LAPTDWEAWNLLGAALDQL  147 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhcc-CcccHHHHHHHHHHHHHhcchHHHHHHHHHHhc-cCCCChhhhhHHHHHHHHc
Confidence            55556677778877777777665432 234445566688889999999999999998874 4556777899999999999


Q ss_pred             cchHHHHHHHHHhhc--CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhchhHHHHHHHH
Q 023915          149 KLLKDAYVVVKDNSE--SISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLL  226 (275)
Q Consensus       149 ~~~~~a~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~~a~~l~  226 (275)
                      |+.++|..-|.+..+  ...+..+|.+.-.|.-.|+.+.|..++......+-. |...-..+..... ..|++++|..+.
T Consensus       148 Gr~~~Ar~ay~qAl~L~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~a-d~~v~~NLAl~~~-~~g~~~~A~~i~  225 (257)
T COG5010         148 GRFDEARRAYRQALELAPNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAA-DSRVRQNLALVVG-LQGDFREAEDIA  225 (257)
T ss_pred             cChhHHHHHHHHHHHhccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCC-chHHHHHHHHHHh-hcCChHHHHhhc
Confidence            999999999988766  344457788989999999999999999887775432 4444455554543 678899888877


Q ss_pred             HHHh
Q 023915          227 EWMT  230 (275)
Q Consensus       227 ~~m~  230 (275)
                      ..-.
T Consensus       226 ~~e~  229 (257)
T COG5010         226 VQEL  229 (257)
T ss_pred             cccc
Confidence            6543

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

Probab=97.77  E-value=0.022  Score=49.46  Aligned_cols=250  Identities=8%  Similarity=-0.072  Sum_probs=103.8

Q ss_pred             hhcCcHHHHHHHHHHHHhcCCCCc--HHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHH
Q 023915            6 CRGGCFEEAKQLAGDFEAKYDKYD--VVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYIL   83 (275)
Q Consensus         6 ~~~g~~~~a~~~~~~m~~~g~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~   83 (275)
                      -+.|..--+..+.......|+.-.  ..||+.--..|.+.+.++-|..+|....+- ++-+...|......=-..|..+.
T Consensus       490 e~agsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~alqv-fp~k~slWlra~~~ek~hgt~Es  568 (913)
T KOG0495|consen  490 EDAGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQV-FPCKKSLWLRAAMFEKSHGTRES  568 (913)
T ss_pred             hhcCChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhh-ccchhHHHHHHHHHHHhcCcHHH
Confidence            334444444455444444443211  134444444555555555555555444431 11122333333333333344444


Q ss_pred             HHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhc
Q 023915           84 AYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSE  163 (275)
Q Consensus        84 a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  163 (275)
                      ...+|++.... ++-....|-....-+-..|+...|..++...-+.... +...|-+.+..-..+..++.|..+|.+...
T Consensus       569 l~Allqkav~~-~pkae~lwlM~ake~w~agdv~~ar~il~~af~~~pn-seeiwlaavKle~en~e~eraR~llakar~  646 (913)
T KOG0495|consen  569 LEALLQKAVEQ-CPKAEILWLMYAKEKWKAGDVPAARVILDQAFEANPN-SEEIWLAAVKLEFENDELERARDLLAKARS  646 (913)
T ss_pred             HHHHHHHHHHh-CCcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCC-cHHHHHHHHHHhhccccHHHHHHHHHHHhc
Confidence            44444444432 1112223333333334444444444444443333222 333444444444444444444444444332


Q ss_pred             -CCChhHHHHHHHHHHhcCChhHHHHHHHHHHH--------------------------------cCCCCChhhHHHHHH
Q 023915          164 -SISHPAIKKFASAFVRLGNINLVNDVMKAIHA--------------------------------TGYRIDQGIFHIAIA  210 (275)
Q Consensus       164 -~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~--------------------------------~g~~p~~~~y~~li~  210 (275)
                       .++...|..-++.-.-.++.++|.+++++..+                                ....|+......++.
T Consensus       647 ~sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~cP~~ipLWllLa  726 (913)
T KOG0495|consen  647 ISGTERVWMKSANLERYLDNVEEALRLLEEALKSFPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKKCPNSIPLWLLLA  726 (913)
T ss_pred             cCCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHhCCchHHHHHHHhHHHHHHHHHHHHHHHHHhccccCCCCchHHHHHH
Confidence             22222333323333333333333333322211                                112344444444443


Q ss_pred             HHHHhchhHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHHhhHHHHHHH
Q 023915          211 RYIAEREKKELLLKLLEWMTGQGYVVDSSTRNLILKNSHLFGRQLIADI  259 (275)
Q Consensus       211 ~~~~~~~~~~~a~~l~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~~~~  259 (275)
                      -+=.+.|..-.|..++++-.-.+ +-|...|-..|+.=.+.|....++.
T Consensus       727 kleEk~~~~~rAR~ildrarlkN-Pk~~~lwle~Ir~ElR~gn~~~a~~  774 (913)
T KOG0495|consen  727 KLEEKDGQLVRARSILDRARLKN-PKNALLWLESIRMELRAGNKEQAEL  774 (913)
T ss_pred             HHHHHhcchhhHHHHHHHHHhcC-CCcchhHHHHHHHHHHcCCHHHHHH
Confidence            33323344555666666554332 3356667777777777774444443

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

Probab=97.75  E-value=0.011  Score=50.04  Aligned_cols=146  Identities=11%  Similarity=0.086  Sum_probs=109.2

Q ss_pred             HHHHHHHHHHHhhc-CCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCC-CHHhHHHHHHHHhccCCHHHHHHHH
Q 023915           46 MESVMHVMRKLDEL-AISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQP-EEELCSSLIFHLGKMRAHSEALSVY  123 (275)
Q Consensus        46 ~~~a~~~~~~m~~~-g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~-~~~~~~~li~~~~~~g~~~~a~~~~  123 (275)
                      .+...+.++++... .+.|+ .+|...++...+..-+..|..+|.+.++.+..+ .+..++++|.-||. ++...|.++|
T Consensus       347 ~~~~~~~~~~ll~~~~~~~t-Lv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~cs-kD~~~AfrIF  424 (656)
T KOG1914|consen  347 EKKVHEIYNKLLKIEDIDLT-LVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYCS-KDKETAFRIF  424 (656)
T ss_pred             hhhhHHHHHHHHhhhccCCc-eehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHhc-CChhHHHHHH
Confidence            55566666666653 23444 368888888888888999999999999888877 77788888888875 7888899999


Q ss_pred             HHHHhc-cccccHHhHHHHHHHHHhccchHHHHHHHHHhhcCCCh-----hHHHHHHHHHHhcCChhHHHHHHHHHHH
Q 023915          124 NMLRYS-KRSMCKALHEKILHILISGKLLKDAYVVVKDNSESISH-----PAIKKFASAFVRLGNINLVNDVMKAIHA  195 (275)
Q Consensus       124 ~~m~~~-~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~-----~~~~~li~~~~~~~~~~~a~~~~~~m~~  195 (275)
                      +.=... |..  +.--...++-+...++-..+..+|+.......+     +.|..+|..=..-|++..+.++-+.+..
T Consensus       425 eLGLkkf~d~--p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~  500 (656)
T KOG1914|consen  425 ELGLKKFGDS--PEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFT  500 (656)
T ss_pred             HHHHHhcCCC--hHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            854433 332  234456777888888888899999987775333     4788888888888998888888777654

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.74  E-value=0.0016  Score=44.27  Aligned_cols=88  Identities=17%  Similarity=0.113  Sum_probs=39.9

Q ss_pred             hhhcCcHHHHHHHHHHHHhcCCC--CcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCC----hhhHHHHHHHHHcc
Q 023915            5 FCRGGCFEEAKQLAGDFEAKYDK--YDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD----YNTFHILIKYFCKE   78 (275)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~g~~--p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~----~~t~~~li~~~~~~   78 (275)
                      +.+.|++++|.+.|+.+......  .....+..+..++.+.|+++.|.+.|+......  |+    ...+..+...+.+.
T Consensus        12 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~~~~~~~~~   89 (119)
T TIGR02795        12 VLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKY--PKSPKAPDALLKLGMSLQEL   89 (119)
T ss_pred             HHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHC--CCCCcccHHHHHHHHHHHHh
Confidence            34445555555555555443211  012234444555555555555555555544321  22    22334444444555


Q ss_pred             CCHHHHHHHHHHHHHc
Q 023915           79 KMYILAYRTMVDMHRK   94 (275)
Q Consensus        79 ~~~~~a~~~~~~m~~~   94 (275)
                      |+++.|...++++.+.
T Consensus        90 ~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        90 GDKEKAKATLQQVIKR  105 (119)
T ss_pred             CChHHHHHHHHHHHHH
Confidence            5555555555555444

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.

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

Probab=97.73  E-value=0.0093  Score=50.63  Aligned_cols=242  Identities=7%  Similarity=0.009  Sum_probs=172.4

Q ss_pred             hhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCh-hhHHHHHHHHHccCCHHH
Q 023915            5 FCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDY-NTFHILIKYFCKEKMYIL   83 (275)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-~t~~~li~~~~~~~~~~~   83 (275)
                      +.+.|++.+|.-.|+.....++. +...|--|-..-...++-..|+..+.+..+  +.|+- ...-.|.-.|...|.-..
T Consensus       295 lm~nG~L~~A~LafEAAVkqdP~-haeAW~~LG~~qaENE~E~~ai~AL~rcl~--LdP~NleaLmaLAVSytNeg~q~~  371 (579)
T KOG1125|consen  295 LMKNGDLSEAALAFEAAVKQDPQ-HAEAWQKLGITQAENENEQNAISALRRCLE--LDPTNLEALMALAVSYTNEGLQNQ  371 (579)
T ss_pred             HHhcCCchHHHHHHHHHHhhChH-HHHHHHHhhhHhhhccchHHHHHHHHHHHh--cCCccHHHHHHHHHHHhhhhhHHH
Confidence            57889999999999999888655 778999999999999999999999999887  55764 456677778888888888


Q ss_pred             HHHHHHHHHHcCCC--------CCHHhHHHHHHHHhccCCHHHHHHHHHHHHhc-cccccHHhHHHHHHHHHhccchHHH
Q 023915           84 AYRTMVDMHRKGHQ--------PEEELCSSLIFHLGKMRAHSEALSVYNMLRYS-KRSMCKALHEKILHILISGKLLKDA  154 (275)
Q Consensus        84 a~~~~~~m~~~g~~--------~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~~~~~~~~~li~~~~~~~~~~~a  154 (275)
                      |+..+..=+....+        ++...-..  ..+.....+....++|-++... +..+++.++..|---|--.|.++.|
T Consensus       372 Al~~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdra  449 (579)
T KOG1125|consen  372 ALKMLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRA  449 (579)
T ss_pred             HHHHHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHH
Confidence            88888776543211        01000000  2233334455566666666544 5457888888888888889999999


Q ss_pred             HHHHHHhhcC-C-ChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChh--hHHHHHHHHHHhchhHHHHHHHHHHHh
Q 023915          155 YVVVKDNSES-I-SHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQG--IFHIAIARYIAEREKKELLLKLLEWMT  230 (275)
Q Consensus       155 ~~~~~~~~~~-~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~--~y~~li~~~~~~~~~~~~a~~l~~~m~  230 (275)
                      .+.|+..... | +...||.|-..++...+.++|..-|++..+  ++|+.+  =||.-|. |. ..|.+++|.+.|-+..
T Consensus       450 iDcf~~AL~v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALq--LqP~yVR~RyNlgIS-~m-NlG~ykEA~~hlL~AL  525 (579)
T KOG1125|consen  450 VDCFEAALQVKPNDYLLWNRLGATLANGNRSEEAISAYNRALQ--LQPGYVRVRYNLGIS-CM-NLGAYKEAVKHLLEAL  525 (579)
T ss_pred             HHHHHHHHhcCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHh--cCCCeeeeehhhhhh-hh-hhhhHHHHHHHHHHHH
Confidence            9999987663 2 333899999999999999999999998887  467653  5777774 45 7799999888776543


Q ss_pred             ---hCCC------CCChhhHHHHHHHHHHhhHHH
Q 023915          231 ---GQGY------VVDSSTRNLILKNSHLFGRQL  255 (275)
Q Consensus       231 ---~~~~------~p~~~t~~~li~~~~~~g~~~  255 (275)
                         ..+-      .++...|..|=.++.-.++.+
T Consensus       526 ~mq~ks~~~~~~~~~se~iw~tLR~als~~~~~D  559 (579)
T KOG1125|consen  526 SMQRKSRNHNKAPMASENIWQTLRLALSAMNRSD  559 (579)
T ss_pred             HhhhcccccccCCcchHHHHHHHHHHHHHcCCch
Confidence               3321      223445555555555555444

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

Probab=97.70  E-value=0.027  Score=48.63  Aligned_cols=200  Identities=17%  Similarity=0.089  Sum_probs=138.4

Q ss_pred             hhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCC-hhhHHHHHHHHHccCCHHH
Q 023915            5 FCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYIL   83 (275)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~~   83 (275)
                      ++..|+.++|.+....-.+.++. +.++|+++--.+-...++++|+..|.....  +.|| ...+.-+--.-++.++++.
T Consensus        51 L~~lg~~~ea~~~vr~glr~d~~-S~vCwHv~gl~~R~dK~Y~eaiKcy~nAl~--~~~dN~qilrDlslLQ~QmRd~~~  127 (700)
T KOG1156|consen   51 LNCLGKKEEAYELVRLGLRNDLK-SHVCWHVLGLLQRSDKKYDEAIKCYRNALK--IEKDNLQILRDLSLLQIQMRDYEG  127 (700)
T ss_pred             hhcccchHHHHHHHHHHhccCcc-cchhHHHHHHHHhhhhhHHHHHHHHHHHHh--cCCCcHHHHHHHHHHHHHHHhhhh
Confidence            34567778888887777665555 778888888877778888888888888766  3354 3445544444566777887


Q ss_pred             HHHHHHHHHHcCCCCC-HHhHHHHHHHHhccCCHHHHHHHHHHHHhcc-ccccHHhHHHHH------HHHHhccchHHHH
Q 023915           84 AYRTMVDMHRKGHQPE-EELCSSLIFHLGKMRAHSEALSVYNMLRYSK-RSMCKALHEKIL------HILISGKLLKDAY  155 (275)
Q Consensus        84 a~~~~~~m~~~g~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-~~~~~~~~~~li------~~~~~~~~~~~a~  155 (275)
                      ......+..+.  .|+ ...|..+.-++.-.|+...|.+++++..+.. -.|+...|....      ....+.|..++|.
T Consensus       128 ~~~tr~~LLql--~~~~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~al  205 (700)
T KOG1156|consen  128 YLETRNQLLQL--RPSQRASWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKAL  205 (700)
T ss_pred             HHHHHHHHHHh--hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHH
Confidence            77777777654  344 3467778888888899999999999988764 355555554332      3345677888888


Q ss_pred             HHHHHhhcCC-ChhHH-HHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHH
Q 023915          156 VVVKDNSESI-SHPAI-KKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIAR  211 (275)
Q Consensus       156 ~~~~~~~~~~-~~~~~-~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~  211 (275)
                      +.+.+..... +...+ .+-...+.+.+++++|..++..+...+  ||..-|...+..
T Consensus       206 e~L~~~e~~i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~rn--Pdn~~Yy~~l~~  261 (700)
T KOG1156|consen  206 EHLLDNEKQIVDKLAFEETKADLLMKLGQLEEAVKVYRRLLERN--PDNLDYYEGLEK  261 (700)
T ss_pred             HHHHhhhhHHHHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhhC--chhHHHHHHHHH
Confidence            8777654422 22222 345677888899999999999988864  777766555544

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.66  E-value=0.0023  Score=46.74  Aligned_cols=113  Identities=6%  Similarity=-0.045  Sum_probs=68.9

Q ss_pred             HHHHHHHHHHHH-hcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCC--ChhhHHHHHHHHHccCCHHHHHHH
Q 023915           11 FEEAKQLAGDFE-AKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP--DYNTFHILIKYFCKEKMYILAYRT   87 (275)
Q Consensus        11 ~~~a~~~~~~m~-~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p--~~~t~~~li~~~~~~~~~~~a~~~   87 (275)
                      +..+.+.+..+. ..+..-....|..+...+...|++++|+..|+......-.|  ...++..+-..+...|+++.|...
T Consensus        15 ~~~~~~~l~~~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~   94 (168)
T CHL00033         15 FTIVADILLRILPTTSGEKEAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEY   94 (168)
T ss_pred             cccchhhhhHhccCCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHH
Confidence            444555555553 33333345566777777778888888888888876543222  134677777888888888888888


Q ss_pred             HHHHHHcCCCCCHHhHHHHHHHHh-------ccCCHHHHHHHHH
Q 023915           88 MVDMHRKGHQPEEELCSSLIFHLG-------KMRAHSEALSVYN  124 (275)
Q Consensus        88 ~~~m~~~g~~~~~~~~~~li~~~~-------~~g~~~~a~~~~~  124 (275)
                      ++...... +....++..+...+.       +.|+++.|...++
T Consensus        95 ~~~Al~~~-~~~~~~~~~la~i~~~~~~~~~~~g~~~~A~~~~~  137 (168)
T CHL00033         95 YFQALERN-PFLPQALNNMAVICHYRGEQAIEQGDSEIAEAWFD  137 (168)
T ss_pred             HHHHHHhC-cCcHHHHHHHHHHHHHhhHHHHHcccHHHHHHHHH
Confidence            88877542 222334555555555       4555554444443

>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=97.66  E-value=0.00036  Score=42.39  Aligned_cols=64  Identities=16%  Similarity=0.270  Sum_probs=45.8

Q ss_pred             hhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHH
Q 023915            6 CRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILI   72 (275)
Q Consensus         6 ~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li   72 (275)
                      .+.|++++|.++|+.+....+. +...+-.+..+|.+.|++++|.++++.+...  .|+...|..++
T Consensus         2 l~~~~~~~A~~~~~~~l~~~p~-~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~--~~~~~~~~~l~   65 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQRNPD-NPEARLLLAQCYLKQGQYDEAEELLERLLKQ--DPDNPEYQQLL   65 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHHTTT-SHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG--GTTHHHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCHHHHHHHH
Confidence            4678888888888888776544 6667777888888888888888888887763  36655554443

...

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=97.65  E-value=0.041  Score=49.35  Aligned_cols=189  Identities=15%  Similarity=0.111  Sum_probs=110.3

Q ss_pred             hhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHH
Q 023915            5 FCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILA   84 (275)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a   84 (275)
                      ..+.|+.++|..+++....-+.. |..|..++-.+|-..++.++|..+|+...+  .-|+......+..+|.|.+++.+-
T Consensus        53 l~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~~~~~Ye~~~~--~~P~eell~~lFmayvR~~~yk~q  129 (932)
T KOG2053|consen   53 LFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDEAVHLYERANQ--KYPSEELLYHLFMAYVREKSYKKQ  129 (932)
T ss_pred             HHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhHHHHHHHHHHh--hCCcHHHHHHHHHHHHHHHHHHHH
Confidence            35677778888777777665555 777788888888888888888888877765  447766677777777777777654


Q ss_pred             HHHHHHHHHcCCCCCHHhHHHHHHHHhccCC----------HHHHHHHHHHHHhcc-ccccHHhHHHHHHHHHhccchHH
Q 023915           85 YRTMVDMHRKGHQPEEELCSSLIFHLGKMRA----------HSEALSVYNMLRYSK-RSMCKALHEKILHILISGKLLKD  153 (275)
Q Consensus        85 ~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~----------~~~a~~~~~~m~~~~-~~~~~~~~~~li~~~~~~~~~~~  153 (275)
                      -++--+|-+ .++-+...|-+++......-.          ..-|.+.++.+...+ ..-+..-...-...+-..+.+++
T Consensus       130 Qkaa~~LyK-~~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~e  208 (932)
T KOG2053|consen  130 QKAALQLYK-NFPKRAYYFWSVISLILQSIFSENELLDPILLALAEKMVQKLLEKKGKIESEAEIILYLLILELQGKYQE  208 (932)
T ss_pred             HHHHHHHHH-hCCcccchHHHHHHHHHHhccCCcccccchhHHHHHHHHHHHhccCCccchHHHHHHHHHHHHhcccHHH
Confidence            444333333 233344555566655544321          122444444444433 11122222222334445666777


Q ss_pred             HHHHHH-HhhcCCChh---HHHHHHHHHHhcCChhHHHHHHHHHHHcC
Q 023915          154 AYVVVK-DNSESISHP---AIKKFASAFVRLGNINLVNDVMKAIHATG  197 (275)
Q Consensus       154 a~~~~~-~~~~~~~~~---~~~~li~~~~~~~~~~~a~~~~~~m~~~g  197 (275)
                      |++++. ...+...+.   .-+.-+..+...++|.+..++-.++...|
T Consensus       209 al~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~Ll~k~  256 (932)
T KOG2053|consen  209 ALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRLLEKG  256 (932)
T ss_pred             HHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHHHHhC
Confidence            777773 333322222   22345666777777777777777766655

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.64  E-value=0.011  Score=47.51  Aligned_cols=192  Identities=10%  Similarity=0.010  Sum_probs=126.6

Q ss_pred             HHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHH-----HHccCCHHHHHHHHHHHHHcCCCCCHH-hHHHHHH
Q 023915           35 SMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKY-----FCKEKMYILAYRTMVDMHRKGHQPEEE-LCSSLIF  108 (275)
Q Consensus        35 ~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~-----~~~~~~~~~a~~~~~~m~~~g~~~~~~-~~~~li~  108 (275)
                      .|+--|.+++++.+|..+..++.-  ..|-......+..+     ......+.-|.+.|+-.-.++..-|.. --.++..
T Consensus       290 NL~iYyL~q~dVqeA~~L~Kdl~P--ttP~EyilKgvv~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs  367 (557)
T KOG3785|consen  290 NLIIYYLNQNDVQEAISLCKDLDP--TTPYEYILKGVVFAALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQSMAS  367 (557)
T ss_pred             hheeeecccccHHHHHHHHhhcCC--CChHHHHHHHHHHHHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHHHHH
Confidence            455567899999999998766532  22322222222221     222234556777777776666655443 3345556


Q ss_pred             HHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhcC--CChhHHH-HHHHHHHhcCChhH
Q 023915          109 HLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSES--ISHPAIK-KFASAFVRLGNINL  185 (275)
Q Consensus       109 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~-~li~~~~~~~~~~~  185 (275)
                      ++.-..++++++-.++.++.--...+. .--.+-++.+..|.+.+|+++|-.+...  .+..+|- .+.+.|.++++++.
T Consensus       368 ~fFL~~qFddVl~YlnSi~sYF~NdD~-Fn~N~AQAk~atgny~eaEelf~~is~~~ikn~~~Y~s~LArCyi~nkkP~l  446 (557)
T KOG3785|consen  368 YFFLSFQFDDVLTYLNSIESYFTNDDD-FNLNLAQAKLATGNYVEAEELFIRISGPEIKNKILYKSMLARCYIRNKKPQL  446 (557)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhcCcch-hhhHHHHHHHHhcChHHHHHHHhhhcChhhhhhHHHHHHHHHHHHhcCCchH
Confidence            666677889999888888755443333 2234788999999999999999887653  3344665 45678999999999


Q ss_pred             HHHHHHHHHHcCCCCChhhHHHHHHHHHHhchhHHHHHHHHHHHhhC
Q 023915          186 VNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTGQ  232 (275)
Q Consensus       186 a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~  232 (275)
                      |+.++-.+   +-..+..+.-.+|.--|-+.+.+--|-+.|++++..
T Consensus       447 AW~~~lk~---~t~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~l  490 (557)
T KOG3785|consen  447 AWDMMLKT---NTPSERFSLLQLIANDCYKANEFYYAAKAFDELEIL  490 (557)
T ss_pred             HHHHHHhc---CCchhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHcc
Confidence            98886444   334455666666665565778877788888888764

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

Probab=97.62  E-value=0.0022  Score=52.96  Aligned_cols=99  Identities=16%  Similarity=0.046  Sum_probs=80.2

Q ss_pred             hhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCC-ChhhHHHHHHHHHccCCHH
Q 023915            4 AFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP-DYNTFHILIKYFCKEKMYI   82 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~t~~~li~~~~~~~~~~   82 (275)
                      .+...|++++|++.|++..+.... +...|..+-.+|.+.|++++|+..++...+.  .| +...|..+..+|...|+++
T Consensus        11 ~a~~~~~~~~Ai~~~~~Al~~~P~-~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l--~P~~~~a~~~lg~~~~~lg~~~   87 (356)
T PLN03088         11 EAFVDDDFALAVDLYTQAIDLDPN-NAELYADRAQANIKLGNFTEAVADANKAIEL--DPSLAKAYLRKGTACMKLEEYQ   87 (356)
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHhCCHH
Confidence            356789999999999999987554 6778888889999999999999999999874  45 4557888888999999999


Q ss_pred             HHHHHHHHHHHcCCCCCHHhHHHHH
Q 023915           83 LAYRTMVDMHRKGHQPEEELCSSLI  107 (275)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~~li  107 (275)
                      .|...|++..+.  .|+.......+
T Consensus        88 eA~~~~~~al~l--~P~~~~~~~~l  110 (356)
T PLN03088         88 TAKAALEKGASL--APGDSRFTKLI  110 (356)
T ss_pred             HHHHHHHHHHHh--CCCCHHHHHHH
Confidence            999999998875  45544444443

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=97.59  E-value=0.0022  Score=40.95  Aligned_cols=92  Identities=12%  Similarity=-0.055  Sum_probs=49.9

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHh
Q 023915           68 FHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILIS  147 (275)
Q Consensus        68 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~  147 (275)
                      +..+...+...|+++.|...+++..+.. +.+...+..+...+...|++++|.+.++......... ...+..+...+..
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~~~~~~~   80 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDN-AKAYYNLGLAYYK   80 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcc-hhHHHHHHHHHHH
Confidence            3445555666677777777777665542 2233455556666666666666666666655432221 1344444455555


Q ss_pred             ccchHHHHHHHHHh
Q 023915          148 GKLLKDAYVVVKDN  161 (275)
Q Consensus       148 ~~~~~~a~~~~~~~  161 (275)
                      .|+.+.|...+...
T Consensus        81 ~~~~~~a~~~~~~~   94 (100)
T cd00189          81 LGKYEEALEAYEKA   94 (100)
T ss_pred             HHhHHHHHHHHHHH
Confidence            55555555555443

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.59  E-value=0.021  Score=44.45  Aligned_cols=57  Identities=9%  Similarity=0.097  Sum_probs=34.3

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHc--CCCCChhhHHHHHHHHHHhchhHHHHHHHHHHHh
Q 023915          173 FASAFVRLGNINLVNDVMKAIHAT--GYRIDQGIFHIAIARYIAEREKKELLLKLLEWMT  230 (275)
Q Consensus       173 li~~~~~~~~~~~a~~~~~~m~~~--g~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~m~  230 (275)
                      +.+.|.+.|.+..|..-++.+.+.  +-+........++.+|. ..|..++|......+.
T Consensus       181 ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~-~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        181 VAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYR-QLQLNAQADKVAKIIA  239 (243)
T ss_pred             HHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHH-HcCChHHHHHHHHHHh
Confidence            345566777777777777776664  33333445556666664 5566666666655443

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

Probab=97.58  E-value=0.00031  Score=44.81  Aligned_cols=19  Identities=11%  Similarity=0.179  Sum_probs=7.5

Q ss_pred             HHHHHccCCHHHHHHHHHH
Q 023915           72 IKYFCKEKMYILAYRTMVD   90 (275)
Q Consensus        72 i~~~~~~~~~~~a~~~~~~   90 (275)
                      ..++.+.|++++|..+++.
T Consensus        32 a~~~~~~~~y~~A~~~~~~   50 (84)
T PF12895_consen   32 AQCYFQQGKYEEAIELLQK   50 (84)
T ss_dssp             HHHHHHTTHHHHHHHHHHC
T ss_pred             HHHHHHCCCHHHHHHHHHH
Confidence            3333334444444333333

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

Probab=97.56  E-value=0.032  Score=45.84  Aligned_cols=151  Identities=13%  Similarity=0.068  Sum_probs=81.6

Q ss_pred             hhhcCcHHHHHHHHHHHHhcC-CCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhh----HHHHHH------
Q 023915            5 FCRGGCFEEAKQLAGDFEAKY-DKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNT----FHILIK------   73 (275)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~g-~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t----~~~li~------   73 (275)
                      .+-.++...|.+.+-.+.... +.-|+.....+-..+...|+.++|+..|++...  +.|+..+    |..|+.      
T Consensus       206 q~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~--~dpy~i~~MD~Ya~LL~~eg~~e  283 (564)
T KOG1174|consen  206 QMFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLC--ANPDNVEAMDLYAVLLGQEGGCE  283 (564)
T ss_pred             HHHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhh--CChhhhhhHHHHHHHHHhccCHh
Confidence            344455555555555444433 333556677777778888888888877777655  3343322    222221      


Q ss_pred             -------------------------HHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHh
Q 023915           74 -------------------------YFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRY  128 (275)
Q Consensus        74 -------------------------~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  128 (275)
                                               .....++++.|+.+-+..++.. +.+...|-.=-.++...|++++|.--|+....
T Consensus       284 ~~~~L~~~Lf~~~~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~-~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~  362 (564)
T KOG1174|consen  284 QDSALMDYLFAKVKYTASHWFVHAQLLYDEKKFERALNFVEKCIDSE-PRNHEALILKGRLLIALERHTQAVIAFRTAQM  362 (564)
T ss_pred             hHHHHHHHHHhhhhcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccC-cccchHHHhccHHHHhccchHHHHHHHHHHHh
Confidence                                     1112234444444444444321 12223333333445566777777777776543


Q ss_pred             ccccccHHhHHHHHHHHHhccchHHHHHHHH
Q 023915          129 SKRSMCKALHEKILHILISGKLLKDAYVVVK  159 (275)
Q Consensus       129 ~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~  159 (275)
                      - .+.....|.-++.+|...|++.+|..+-+
T Consensus       363 L-ap~rL~~Y~GL~hsYLA~~~~kEA~~~An  392 (564)
T KOG1174|consen  363 L-APYRLEIYRGLFHSYLAQKRFKEANALAN  392 (564)
T ss_pred             c-chhhHHHHHHHHHHHHhhchHHHHHHHHH
Confidence            2 12344567778888887777777654443

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

Probab=97.54  E-value=0.0073  Score=48.10  Aligned_cols=127  Identities=13%  Similarity=0.094  Sum_probs=53.6

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHHcC-CCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHH
Q 023915           67 TFHILIKYFCKEKMYILAYRTMVDMHRKG-HQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHIL  145 (275)
Q Consensus        67 t~~~li~~~~~~~~~~~a~~~~~~m~~~g-~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~  145 (275)
                      +|..+++..-+.+..+.|..+|.+.++.+ ...++....++|..++ .++.+.|.++|+...+. ...+...|..-++.+
T Consensus         3 v~i~~m~~~~r~~g~~~aR~vF~~a~~~~~~~~~vy~~~A~~E~~~-~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~l   80 (280)
T PF05843_consen    3 VWIQYMRFMRRTEGIEAARKVFKRARKDKRCTYHVYVAYALMEYYC-NKDPKRARKIFERGLKK-FPSDPDFWLEYLDFL   80 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCCCCS-THHHHHHHHHHHHT-CS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCChHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHh-CCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHH
Confidence            34444444444444555555555554322 1122222222222211 23344455555544422 222333444444555


Q ss_pred             HhccchHHHHHHHHHhhcCC-----ChhHHHHHHHHHHhcCChhHHHHHHHHHHH
Q 023915          146 ISGKLLKDAYVVVKDNSESI-----SHPAIKKFASAFVRLGNINLVNDVMKAIHA  195 (275)
Q Consensus       146 ~~~~~~~~a~~~~~~~~~~~-----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  195 (275)
                      ...++.+.|..+|+......     ....|..++..=.+.|+++.+..+.+.+.+
T Consensus        81 ~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~  135 (280)
T PF05843_consen   81 IKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEE  135 (280)
T ss_dssp             HHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHH
T ss_pred             HHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            55555555555555443321     122455555555555555555555555554

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.

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

Probab=97.54  E-value=0.031  Score=51.13  Aligned_cols=176  Identities=10%  Similarity=0.060  Sum_probs=110.2

Q ss_pred             hhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHH
Q 023915            5 FCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILA   84 (275)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a   84 (275)
                      +....++..+..+.+.|...+-  +...+-.+-.+|-+.|+.++|..+|+++.+.. +-|....|.+...|+.. ++++|
T Consensus        93 ~~~~~~~~~ve~~~~~i~~~~~--~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA  168 (906)
T PRK14720         93 FSQNLKWAIVEHICDKILLYGE--NKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKA  168 (906)
T ss_pred             cccccchhHHHHHHHHHHhhhh--hhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHH
Confidence            3344455444444555554322  44577888889999999999999999999866 45677889999999999 99999


Q ss_pred             HHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhcC
Q 023915           85 YRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSES  164 (275)
Q Consensus        85 ~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  164 (275)
                      .+++.+....               |...+++..+.++|..+....+.--. .+..+++.....            ....
T Consensus       169 ~~m~~KAV~~---------------~i~~kq~~~~~e~W~k~~~~~~~d~d-~f~~i~~ki~~~------------~~~~  220 (906)
T PRK14720        169 ITYLKKAIYR---------------FIKKKQYVGIEEIWSKLVHYNSDDFD-FFLRIERKVLGH------------REFT  220 (906)
T ss_pred             HHHHHHHHHH---------------HHhhhcchHHHHHHHHHHhcCcccch-HHHHHHHHHHhh------------hccc
Confidence            9999987765               66667888888888887754322111 111111111111            0111


Q ss_pred             CChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHH
Q 023915          165 ISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYI  213 (275)
Q Consensus       165 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~  213 (275)
                      ....++-.+-..|....+|+++..+++.+.+.. +-|.....-++..|.
T Consensus       221 ~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~~-~~n~~a~~~l~~~y~  268 (906)
T PRK14720        221 RLVGLLEDLYEPYKALEDWDEVIYILKKILEHD-NKNNKAREELIRFYK  268 (906)
T ss_pred             hhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcC-CcchhhHHHHHHHHH
Confidence            112233444556666667777777777766643 124445555665553

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

Probab=97.54  E-value=0.0041  Score=49.54  Aligned_cols=131  Identities=14%  Similarity=0.088  Sum_probs=80.8

Q ss_pred             HhHHHHHHHHHccCCHHHHHHHHHHHhhcC-CCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHH
Q 023915           31 VLLNSMLCAYCRTGDMESVMHVMRKLDELA-ISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFH  109 (275)
Q Consensus        31 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g-~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~  109 (275)
                      .+|..+|...-+.+..+.|..+|.+.++.+ +...+....+++. +...++.+.|..+|+...+. +..+...|...++.
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 LVWIQYMRFMRRTEGIEAARKVFKRARKDKRCTYHVYVAYALME-YYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCS-THHHHHHHHHH-HHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCCCCCHHHHHHHHHHH-HHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHH
Confidence            356777777777777777888887777432 2233323233332 22345666678888777654 45556667777777


Q ss_pred             HhccCCHHHHHHHHHHHHhc-cccc-cHHhHHHHHHHHHhccchHHHHHHHHHhhc
Q 023915          110 LGKMRAHSEALSVYNMLRYS-KRSM-CKALHEKILHILISGKLLKDAYVVVKDNSE  163 (275)
Q Consensus       110 ~~~~g~~~~a~~~~~~m~~~-~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  163 (275)
                      +.+.|+.+.|..+|+..... .... ....|...++-=.+.|+++.+.++.+++.+
T Consensus        80 l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~  135 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEE  135 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            77778888888888776644 1122 234777777777777777777777776655

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.

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=97.54  E-value=0.0071  Score=53.09  Aligned_cols=108  Identities=10%  Similarity=0.038  Sum_probs=57.2

Q ss_pred             HHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhcCCChhHHHHHHHHHHhcCChhHHH
Q 023915          108 FHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSESISHPAIKKFASAFVRLGNINLVN  187 (275)
Q Consensus       108 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~  187 (275)
                      .+-.....+.+|+.+++.++..+...  .-|-.+-+-|+..|+++.|.++|.+.      ..++-.|..|.+.|+|++|.
T Consensus       740 eaai~akew~kai~ildniqdqk~~s--~yy~~iadhyan~~dfe~ae~lf~e~------~~~~dai~my~k~~kw~da~  811 (1636)
T KOG3616|consen  740 EAAIGAKEWKKAISILDNIQDQKTAS--GYYGEIADHYANKGDFEIAEELFTEA------DLFKDAIDMYGKAGKWEDAF  811 (1636)
T ss_pred             HHHhhhhhhhhhHhHHHHhhhhcccc--ccchHHHHHhccchhHHHHHHHHHhc------chhHHHHHHHhccccHHHHH
Confidence            34445566666666666655433222  23555666667777777777766652      23455666777777777776


Q ss_pred             HHHHHHHHcCCCCChhhHHHHHHHHHHhchhHHHHHHHH
Q 023915          188 DVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLL  226 (275)
Q Consensus       188 ~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~~a~~l~  226 (275)
                      ++-.+.  .|-......|-+-..-+ ...|++.+|.++|
T Consensus       812 kla~e~--~~~e~t~~~yiakaedl-dehgkf~eaeqly  847 (1636)
T KOG3616|consen  812 KLAEEC--HGPEATISLYIAKAEDL-DEHGKFAEAEQLY  847 (1636)
T ss_pred             HHHHHh--cCchhHHHHHHHhHHhH-Hhhcchhhhhhee
Confidence            665332  23222333343333332 2345555555554

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=97.53  E-value=0.014  Score=51.98  Aligned_cols=83  Identities=8%  Similarity=0.024  Sum_probs=56.6

Q ss_pred             hhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhc-C--------CCCChhhHHHHHHH
Q 023915            4 AFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDEL-A--------ISPDYNTFHILIKY   74 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-g--------~~p~~~t~~~li~~   74 (275)
                      .|...|+.+.|.+-.+.++      +...|..+-+.|.+..+.|-|.-.+..|... |        -.|+ .+=..+.-.
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            4667899999998887776      6678999999999999988888777777542 2        1232 222222233


Q ss_pred             HHccCCHHHHHHHHHHHHH
Q 023915           75 FCKEKMYILAYRTMVDMHR   93 (275)
Q Consensus        75 ~~~~~~~~~a~~~~~~m~~   93 (275)
                      ....|.+++|+.+|.+.++
T Consensus       810 AieLgMlEeA~~lYr~ckR  828 (1416)
T KOG3617|consen  810 AIELGMLEEALILYRQCKR  828 (1416)
T ss_pred             HHHHhhHHHHHHHHHHHHH
Confidence            4566777777777776654

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

Probab=97.52  E-value=0.042  Score=46.01  Aligned_cols=187  Identities=13%  Similarity=0.061  Sum_probs=85.6

Q ss_pred             cCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHH
Q 023915           43 TGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSV  122 (275)
Q Consensus        43 ~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~  122 (275)
                      .|++..|.++|+...+  ..|+...|++.|+.=.+-+.++.|..+++...-.  .|++.+|-.....=.++|....+.++
T Consensus       154 LgNi~gaRqiferW~~--w~P~eqaW~sfI~fElRykeieraR~IYerfV~~--HP~v~~wikyarFE~k~g~~~~aR~V  229 (677)
T KOG1915|consen  154 LGNIAGARQIFERWME--WEPDEQAWLSFIKFELRYKEIERARSIYERFVLV--HPKVSNWIKYARFEEKHGNVALARSV  229 (677)
T ss_pred             hcccHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhee--cccHHHHHHHHHHHHhcCcHHHHHHH
Confidence            4555555555555444  4466666666666656666666666666655432  35555555555555555655555555


Q ss_pred             HHHHHhc--cccccHHhHHHHHHHHHhccchHHHHHHHHHhhcCCCh----hHHHHHHHHHHhcCChhHHHHHH------
Q 023915          123 YNMLRYS--KRSMCKALHEKILHILISGKLLKDAYVVVKDNSESISH----PAIKKFASAFVRLGNINLVNDVM------  190 (275)
Q Consensus       123 ~~~m~~~--~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~----~~~~~li~~~~~~~~~~~a~~~~------  190 (275)
                      |......  .-......|.+.-.-=..++.++.|.-+|+-..+..+.    ..|..+...=-+-|+....+.+.      
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            5544322  11111222222222222344455555555543332211    12333332222333333222221      


Q ss_pred             --HHHHHcCCCCChhhHHHHHHHHHHhchhHHHHHHHHHHHhhCCCCC
Q 023915          191 --KAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTGQGYVV  236 (275)
Q Consensus       191 --~~m~~~g~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~~~~p  236 (275)
                        +.+... -+-|-.+|--.++.- ...|+.+...++|++... +++|
T Consensus       310 qYE~~v~~-np~nYDsWfdylrL~-e~~g~~~~Ire~yErAIa-nvpp  354 (677)
T KOG1915|consen  310 QYEKEVSK-NPYNYDSWFDYLRLE-ESVGDKDRIRETYERAIA-NVPP  354 (677)
T ss_pred             HHHHHHHh-CCCCchHHHHHHHHH-HhcCCHHHHHHHHHHHHc-cCCc
Confidence              111111 123444555455432 345666777777777654 3444

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

Probab=97.51  E-value=0.029  Score=47.54  Aligned_cols=165  Identities=10%  Similarity=0.068  Sum_probs=122.2

Q ss_pred             HHHHHHHHHHHHHcC-CCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccc-cHHhHHHHHHHHHhccchHHHHHHH
Q 023915           81 YILAYRTMVDMHRKG-HQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSM-CKALHEKILHILISGKLLKDAYVVV  158 (275)
Q Consensus        81 ~~~a~~~~~~m~~~g-~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~  158 (275)
                      .+.....++++...- ..|+ .+|..+|+.-.|..-+..|..+|.+....+..+ ...++++++.-+| .++.+-|.++|
T Consensus       347 ~~~~~~~~~~ll~~~~~~~t-Lv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~c-skD~~~AfrIF  424 (656)
T KOG1914|consen  347 EKKVHEIYNKLLKIEDIDLT-LVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYC-SKDKETAFRIF  424 (656)
T ss_pred             hhhhHHHHHHHHhhhccCCc-eehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHh-cCChhHHHHHH
Confidence            445555666665433 3444 578889999999999999999999999988887 5556666776665 56778899999


Q ss_pred             HH-hhcCCChhHH-HHHHHHHHhcCChhHHHHHHHHHHHcCCCCCh--hhHHHHHHHHHHhchhHHHHHHHHHHHhhC--
Q 023915          159 KD-NSESISHPAI-KKFASAFVRLGNINLVNDVMKAIHATGYRIDQ--GIFHIAIARYIAEREKKELLLKLLEWMTGQ--  232 (275)
Q Consensus       159 ~~-~~~~~~~~~~-~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~--~~y~~li~~~~~~~~~~~~a~~l~~~m~~~--  232 (275)
                      +- +..-++.|.| ...+..+...++-..+..+|+.....++.||.  ..|..+|.- =..-|+...+.++-+++...  
T Consensus       425 eLGLkkf~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~y-ES~vGdL~si~~lekR~~~af~  503 (656)
T KOG1914|consen  425 ELGLKKFGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEY-ESNVGDLNSILKLEKRRFTAFP  503 (656)
T ss_pred             HHHHHhcCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHH-HHhcccHHHHHHHHHHHHHhcc
Confidence            97 4456666655 78899999999999999999999998777665  589999964 45789999888888877542  


Q ss_pred             -CCCCChhhHHHHHHHH
Q 023915          233 -GYVVDSSTRNLILKNS  248 (275)
Q Consensus       233 -~~~p~~~t~~~li~~~  248 (275)
                       ...|...+-..+++-|
T Consensus       504 ~~qe~~~~~~~~~v~RY  520 (656)
T KOG1914|consen  504 ADQEYEGNETALFVDRY  520 (656)
T ss_pred             hhhcCCCChHHHHHHHH
Confidence             1333334445555554

>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=97.49  E-value=0.0017  Score=44.68  Aligned_cols=98  Identities=17%  Similarity=0.216  Sum_probs=55.5

Q ss_pred             cHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHH
Q 023915           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIF  108 (275)
Q Consensus        29 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~  108 (275)
                      |..++.++|.++++.|+.+....+++..-  |+.++...         ..+.         .-......|+..+..+++.
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~W--gI~~~~~~---------~~~~---------~~~~spl~Pt~~lL~AIv~   60 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSVW--GIDVNGKK---------KEGD---------YPPSSPLYPTSRLLIAIVH   60 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHhc--CCCCCCcc---------ccCc---------cCCCCCCCCCHHHHHHHHH
Confidence            34566666666666666666666654332  22222110         0000         0112334567777777777


Q ss_pred             HHhccCCHHHHHHHHHHHHhc-cccccHHhHHHHHHHHH
Q 023915          109 HLGKMRAHSEALSVYNMLRYS-KRSMCKALHEKILHILI  146 (275)
Q Consensus       109 ~~~~~g~~~~a~~~~~~m~~~-~~~~~~~~~~~li~~~~  146 (275)
                      +|+..|++..|+++.+.+... +++.+..+|..|++-..
T Consensus        61 sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~   99 (126)
T PF12921_consen   61 SFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWAY   99 (126)
T ss_pred             HHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            777777777777777766653 56666667776666544

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

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.47  E-value=0.015  Score=42.64  Aligned_cols=92  Identities=7%  Similarity=-0.023  Sum_probs=66.5

Q ss_pred             cHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCC--hhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHH
Q 023915           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD--YNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSL  106 (275)
Q Consensus        29 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~--~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~l  106 (275)
                      ....|..+...+...|++++|...|++..+.+-.|.  ...+..+...+.+.|+++.|...+++..+.. +-+...+..+
T Consensus        34 ~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l  112 (172)
T PRK02603         34 EAFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELN-PKQPSALNNI  112 (172)
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHH
Confidence            345677888888889999999999998876443222  3567888888999999999999999888642 2234566666


Q ss_pred             HHHHhccCCHHHHHH
Q 023915          107 IFHLGKMRAHSEALS  121 (275)
Q Consensus       107 i~~~~~~g~~~~a~~  121 (275)
                      ...+...|+...+..
T Consensus       113 g~~~~~~g~~~~a~~  127 (172)
T PRK02603        113 AVIYHKRGEKAEEAG  127 (172)
T ss_pred             HHHHHHcCChHhHhh
Confidence            777777776544443

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.47  E-value=0.0082  Score=43.83  Aligned_cols=65  Identities=15%  Similarity=0.001  Sum_probs=45.0

Q ss_pred             hhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCC--CHHhHHHHHHHHhccCCHHHHHHHHHHHHhc
Q 023915           65 YNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQP--EEELCSSLIFHLGKMRAHSEALSVYNMLRYS  129 (275)
Q Consensus        65 ~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  129 (275)
                      ...|..+...+...|+++.|+..|+........|  ...++..+-..+...|++++|...++.....
T Consensus        35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~  101 (168)
T CHL00033         35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALER  101 (168)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            4456666677777788888888888877553222  1246777777778888888888888776644

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.45  E-value=0.031  Score=42.83  Aligned_cols=185  Identities=13%  Similarity=0.098  Sum_probs=124.4

Q ss_pred             cCCHHHHHHHHHHHhh---cC-CCCChhh-HHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHH-hHHHHHHHHhccCCH
Q 023915           43 TGDMESVMHVMRKLDE---LA-ISPDYNT-FHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEE-LCSSLIFHLGKMRAH  116 (275)
Q Consensus        43 ~g~~~~a~~~~~~m~~---~g-~~p~~~t-~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~-~~~~li~~~~~~g~~  116 (275)
                      ..+.++.++++.++..   .| ..|+..+ |..++-+....|+.+.|..+++++.+.-  |... +-..----+-..|++
T Consensus        25 ~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~f--p~S~RV~~lkam~lEa~~~~  102 (289)
T KOG3060|consen   25 VRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRF--PGSKRVGKLKAMLLEATGNY  102 (289)
T ss_pred             ccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhC--CCChhHHHHHHHHHHHhhch
Confidence            4567888888888763   34 6677765 5577777788888999999999988763  4332 211111123346888


Q ss_pred             HHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhc--CCChhHHHHHHHHHHhcCChhHHHHHHHHHH
Q 023915          117 SEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSE--SISHPAIKKFASAFVRLGNINLVNDVMKAIH  194 (275)
Q Consensus       117 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  194 (275)
                      ++|.++++.+.... +.+..++-.-+-..-..|+--+|++-+.+-.+  ..++..|.-+...|...|++++|.-.++++.
T Consensus       103 ~~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  103 KEAIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDKFMNDQEAWHELAEIYLSEGDFEKAAFCLEELL  181 (289)
T ss_pred             hhHHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHH
Confidence            99999999888765 33445666666666666776677777776555  4566688889999999999999999999887


Q ss_pred             HcCCCCChhh-HHHHHHHHHHh--chhHHHHHHHHHHHhhC
Q 023915          195 ATGYRIDQGI-FHIAIARYIAE--REKKELLLKLLEWMTGQ  232 (275)
Q Consensus       195 ~~g~~p~~~~-y~~li~~~~~~--~~~~~~a~~l~~~m~~~  232 (275)
                      -.  .|.... +..+-..+...  ..+.+-+.++|.+-.+.
T Consensus       182 l~--~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl  220 (289)
T KOG3060|consen  182 LI--QPFNPLYFQRLAEVLYTQGGAENLELARKYYERALKL  220 (289)
T ss_pred             Hc--CCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHh
Confidence            74  465443 33444433323  23455677777776553

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

Probab=97.44  E-value=0.066  Score=46.51  Aligned_cols=191  Identities=13%  Similarity=0.124  Sum_probs=108.3

Q ss_pred             hhhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHh--hcCCCCC-------hhhHHHHH
Q 023915            2 ISAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLD--ELAISPD-------YNTFHILI   72 (275)
Q Consensus         2 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~--~~g~~p~-------~~t~~~li   72 (275)
                      -+.|.+.|.++.|.++|++....  ..++.-|+.+.++|++-..-.-+..+ + +.  +.|-.-+       ..+|..++
T Consensus       255 AdYYIr~g~~ekarDvyeeai~~--v~tvrDFt~ifd~Ya~FEE~~~~~~m-e-~a~~~~~n~ed~~dl~~~~a~~e~lm  330 (835)
T KOG2047|consen  255 ADYYIRSGLFEKARDVYEEAIQT--VMTVRDFTQIFDAYAQFEESCVAAKM-E-LADEESGNEEDDVDLELHMARFESLM  330 (835)
T ss_pred             HHHHHHhhhhHHHHHHHHHHHHh--heehhhHHHHHHHHHHHHHHHHHHHH-h-hhhhcccChhhhhhHHHHHHHHHHHH
Confidence            35678888888888888887764  44666777777777653322111111 0 10  0010001       11122222


Q ss_pred             HH------------------------HHccCCHHHHHHHHHHHHHcCCCCCH------HhHHHHHHHHhccCCHHHHHHH
Q 023915           73 KY------------------------FCKEKMYILAYRTMVDMHRKGHQPEE------ELCSSLIFHLGKMRAHSEALSV  122 (275)
Q Consensus        73 ~~------------------------~~~~~~~~~a~~~~~~m~~~g~~~~~------~~~~~li~~~~~~g~~~~a~~~  122 (275)
                      +.                        -...|+..+...++.+..+. +.|..      ..|..+-+.|-..|+++.|..+
T Consensus       331 ~rr~~~lNsVlLRQn~~nV~eW~kRV~l~e~~~~~~i~tyteAv~~-vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvi  409 (835)
T KOG2047|consen  331 NRRPLLLNSVLLRQNPHNVEEWHKRVKLYEGNAAEQINTYTEAVKT-VDPKKAVGSPGTLWVEFAKLYENNGDLDDARVI  409 (835)
T ss_pred             hccchHHHHHHHhcCCccHHHHHhhhhhhcCChHHHHHHHHHHHHc-cCcccCCCChhhHHHHHHHHHHhcCcHHHHHHH
Confidence            11                        11235566666677776543 33321      3567778888889999999999


Q ss_pred             HHHHHhcccccc---HHhHHHHHHHHHhccchHHHHHHHHHhhcCCChh--------------------HHHHHHHHHHh
Q 023915          123 YNMLRYSKRSMC---KALHEKILHILISGKLLKDAYVVVKDNSESISHP--------------------AIKKFASAFVR  179 (275)
Q Consensus       123 ~~~m~~~~~~~~---~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~--------------------~~~~li~~~~~  179 (275)
                      |+.....+.+.-   ..+|..--..=.+..+++.|+++++.....|.++                    .|..++..--.
T Consensus       410 feka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs  489 (835)
T KOG2047|consen  410 FEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEES  489 (835)
T ss_pred             HHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHH
Confidence            988765543332   3455555555566778888888888754432221                    23334455556


Q ss_pred             cCChhHHHHHHHHHHHcC
Q 023915          180 LGNINLVNDVMKAIHATG  197 (275)
Q Consensus       180 ~~~~~~a~~~~~~m~~~g  197 (275)
                      .|-++....+++.+.+..
T Consensus       490 ~gtfestk~vYdriidLr  507 (835)
T KOG2047|consen  490 LGTFESTKAVYDRIIDLR  507 (835)
T ss_pred             hccHHHHHHHHHHHHHHh
Confidence            677777777777666543

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

Probab=97.44  E-value=0.054  Score=45.38  Aligned_cols=81  Identities=14%  Similarity=0.066  Sum_probs=62.4

Q ss_pred             hcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHH
Q 023915            7 RGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYR   86 (275)
Q Consensus         7 ~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~   86 (275)
                      ..|++..|.++|+.-.+  ..|+...|++.|.-=.+-..++.|..+|+...-  +-|++.+|---...=-+.|....|.+
T Consensus       153 ~LgNi~gaRqiferW~~--w~P~eqaW~sfI~fElRykeieraR~IYerfV~--~HP~v~~wikyarFE~k~g~~~~aR~  228 (677)
T KOG1915|consen  153 MLGNIAGARQIFERWME--WEPDEQAWLSFIKFELRYKEIERARSIYERFVL--VHPKVSNWIKYARFEEKHGNVALARS  228 (677)
T ss_pred             HhcccHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhe--ecccHHHHHHHHHHHHhcCcHHHHHH
Confidence            35888899999988775  489999999999999999999999999999876  44888877655555555555555555


Q ss_pred             HHHHH
Q 023915           87 TMVDM   91 (275)
Q Consensus        87 ~~~~m   91 (275)
                      +|+..
T Consensus       229 VyerA  233 (677)
T KOG1915|consen  229 VYERA  233 (677)
T ss_pred             HHHHH
Confidence            55444

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.43  E-value=0.021  Score=52.06  Aligned_cols=101  Identities=17%  Similarity=0.191  Sum_probs=70.4

Q ss_pred             cCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHH
Q 023915            8 GGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRT   87 (275)
Q Consensus         8 ~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~   87 (275)
                      -+++++|.+.-+...      ....|+.+-.+-.+.|.+.+|++-|-+.      -|...|.-+++...+.|.+++-.+.
T Consensus      1088 i~~ldRA~efAe~~n------~p~vWsqlakAQL~~~~v~dAieSyika------dDps~y~eVi~~a~~~~~~edLv~y 1155 (1666)
T KOG0985|consen 1088 IGSLDRAYEFAERCN------EPAVWSQLAKAQLQGGLVKDAIESYIKA------DDPSNYLEVIDVASRTGKYEDLVKY 1155 (1666)
T ss_pred             hhhHHHHHHHHHhhC------ChHHHHHHHHHHHhcCchHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHHHHHHH
Confidence            356677776654432      4567888888888888888887776443      3455677888888888888888777


Q ss_pred             HHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHH
Q 023915           88 MVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSV  122 (275)
Q Consensus        88 ~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~  122 (275)
                      +...++..-+|.+.  +.||-+|++.+++.+..++
T Consensus      1156 L~MaRkk~~E~~id--~eLi~AyAkt~rl~elE~f 1188 (1666)
T KOG0985|consen 1156 LLMARKKVREPYID--SELIFAYAKTNRLTELEEF 1188 (1666)
T ss_pred             HHHHHHhhcCccch--HHHHHHHHHhchHHHHHHH
Confidence            77777666666543  4677888887777665554

>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=97.42  E-value=0.0038  Score=43.01  Aligned_cols=93  Identities=13%  Similarity=0.058  Sum_probs=67.2

Q ss_pred             ChhhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCC
Q 023915            1 MISAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKM   80 (275)
Q Consensus         1 li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~   80 (275)
                      +|.++++.|+++....+++..-  |+.++...         ..+.         .-......|+..+..+++.+|+..++
T Consensus         8 ii~al~r~g~~~~i~~~i~~~W--gI~~~~~~---------~~~~---------~~~~spl~Pt~~lL~AIv~sf~~n~~   67 (126)
T PF12921_consen    8 IIYALGRSGQLDSIKSYIKSVW--GIDVNGKK---------KEGD---------YPPSSPLYPTSRLLIAIVHSFGYNGD   67 (126)
T ss_pred             HHHHHhhcCCHHHHHHHHHHhc--CCCCCCcc---------ccCc---------cCCCCCCCCCHHHHHHHHHHHHhccc
Confidence            4678999999999999987654  44333200         0011         22345688999999999999999999


Q ss_pred             HHHHHHHHHHHH-HcCCCCCHHhHHHHHHHHhcc
Q 023915           81 YILAYRTMVDMH-RKGHQPEEELCSSLIFHLGKM  113 (275)
Q Consensus        81 ~~~a~~~~~~m~-~~g~~~~~~~~~~li~~~~~~  113 (275)
                      +..|+++.+... ..+++.+..+|..|+.-....
T Consensus        68 i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~v~  101 (126)
T PF12921_consen   68 IFSALKLVDFFSRKYPIPIPKEFWRRLLEWAYVL  101 (126)
T ss_pred             HHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHh
Confidence            999999999876 467777788888888765443

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

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

Probab=97.40  E-value=0.00097  Score=40.07  Aligned_cols=54  Identities=11%  Similarity=0.062  Sum_probs=33.4

Q ss_pred             hhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhh
Q 023915            4 AFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDE   58 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~   58 (275)
                      .+.+.|++++|.+.|+.+.+..+. +...+..+-.++...|++++|...|++..+
T Consensus         6 ~~~~~g~~~~A~~~~~~~l~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~   59 (65)
T PF13432_consen    6 ALYQQGDYDEAIAAFEQALKQDPD-NPEAWYLLGRILYQQGRYDEALAYYERALE   59 (65)
T ss_dssp             HHHHCTHHHHHHHHHHHHHCCSTT-HHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            455666666666666666665433 555666666666666666666666666654

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.39  E-value=0.016  Score=42.54  Aligned_cols=87  Identities=10%  Similarity=-0.016  Sum_probs=62.3

Q ss_pred             hhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCC--HHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHH
Q 023915           66 NTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPE--EELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILH  143 (275)
Q Consensus        66 ~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~  143 (275)
                      ..+..+...+...|++++|...|++..+....+.  ...+..+...+.+.|++++|...++........ ....+..+..
T Consensus        36 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~  114 (172)
T PRK02603         36 FVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPK-QPSALNNIAV  114 (172)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc-cHHHHHHHHH
Confidence            3567777888899999999999999886543332  357888888899999999999999887764332 2334555555


Q ss_pred             HHHhccchHH
Q 023915          144 ILISGKLLKD  153 (275)
Q Consensus       144 ~~~~~~~~~~  153 (275)
                      .+...|+...
T Consensus       115 ~~~~~g~~~~  124 (172)
T PRK02603        115 IYHKRGEKAE  124 (172)
T ss_pred             HHHHcCChHh
Confidence            6666555433

>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=97.37  E-value=0.011  Score=42.01  Aligned_cols=69  Identities=20%  Similarity=0.125  Sum_probs=46.0

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHh-----ccccccHHh
Q 023915           68 FHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRY-----SKRSMCKAL  137 (275)
Q Consensus        68 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~~~~~~~~~  137 (275)
                      ...++..+...|+++.|..+.+.+.... +.|...|..+|.+|...|+...|.++|+.+..     -|+.|++.+
T Consensus        65 ~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~  138 (146)
T PF03704_consen   65 LERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPET  138 (146)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHH
T ss_pred             HHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHH
Confidence            3455566667888888888888887653 55677888888888888888888888887753     266666543

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

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.36  E-value=0.0053  Score=43.63  Aligned_cols=96  Identities=6%  Similarity=-0.133  Sum_probs=71.4

Q ss_pred             HhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhh-HHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHH
Q 023915           31 VLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNT-FHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFH  109 (275)
Q Consensus        31 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t-~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~  109 (275)
                      ...-.+-..+...|++++|..+|+-+..  +.|.... |-.|--.+-..|++++|+..|....... +-|+..+-.+-.+
T Consensus        36 ~~lY~~A~~ly~~G~l~~A~~~f~~L~~--~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~-~ddp~~~~~ag~c  112 (157)
T PRK15363         36 NTLYRYAMQLMEVKEFAGAARLFQLLTI--YDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK-IDAPQAPWAAAEC  112 (157)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHH
Confidence            3344455556678899999999988877  4465554 4466666677789999999999888765 3456778888888


Q ss_pred             HhccCCHHHHHHHHHHHHhc
Q 023915          110 LGKMRAHSEALSVYNMLRYS  129 (275)
Q Consensus       110 ~~~~g~~~~a~~~~~~m~~~  129 (275)
                      +...|+.+.|.+.|+.....
T Consensus       113 ~L~lG~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        113 YLACDNVCYAIKALKAVVRI  132 (157)
T ss_pred             HHHcCCHHHHHHHHHHHHHH
Confidence            88999999999988866543

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=97.33  E-value=0.0062  Score=47.31  Aligned_cols=87  Identities=11%  Similarity=0.237  Sum_probs=68.5

Q ss_pred             CChhHHHHHHHHHHh-----cCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHh----------------chhHHHHH
Q 023915          165 ISHPAIKKFASAFVR-----LGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAE----------------REKKELLL  223 (275)
Q Consensus       165 ~~~~~~~~li~~~~~-----~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~----------------~~~~~~a~  223 (275)
                      .+..+|-+.+..+..     .++++-....++.|.+.|+.-|..+|+.||..+= +                ..+-+-+.
T Consensus        65 RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfP-KgkfiP~nvfQ~~F~HYP~QQ~C~I  143 (406)
T KOG3941|consen   65 RDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFP-KGKFIPQNVFQKVFLHYPQQQNCAI  143 (406)
T ss_pred             ccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCc-ccccccHHHHHHHHhhCchhhhHHH
Confidence            344456555555543     3677888888888999999999999999988752 2                22345588


Q ss_pred             HHHHHHhhCCCCCChhhHHHHHHHHHHhh
Q 023915          224 KLLEWMTGQGYVVDSSTRNLILKNSHLFG  252 (275)
Q Consensus       224 ~l~~~m~~~~~~p~~~t~~~li~~~~~~g  252 (275)
                      +++++|+..|+.||..+-..|+.++.+.+
T Consensus       144 ~vLeqME~hGVmPdkE~e~~lvn~FGr~~  172 (406)
T KOG3941|consen  144 KVLEQMEWHGVMPDKEIEDILVNAFGRWN  172 (406)
T ss_pred             HHHHHHHHcCCCCchHHHHHHHHHhcccc
Confidence            99999999999999999999999999988

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

Probab=97.31  E-value=0.089  Score=45.19  Aligned_cols=127  Identities=12%  Similarity=0.029  Sum_probs=71.5

Q ss_pred             HHHHHHHhccchHHHHHHHH--------HhhcCC-ChhHHHHHHHHHHhcCChhHHHHHHHHHHHc--CCCCChhhHHHH
Q 023915          140 KILHILISGKLLKDAYVVVK--------DNSESI-SHPAIKKFASAFVRLGNINLVNDVMKAIHAT--GYRIDQGIFHIA  208 (275)
Q Consensus       140 ~li~~~~~~~~~~~a~~~~~--------~~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~--g~~p~~~~y~~l  208 (275)
                      ..+......|+++.|.+++.        .+.+.. .|.+..++...+.+.++-+.|..+++.....  .-.+......++
T Consensus       381 ~~aQl~is~gn~~~A~~il~~~~~~~~ss~~~~~~~P~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~  460 (652)
T KOG2376|consen  381 LRAQLKISQGNPEVALEILSLFLESWKSSILEAKHLPGTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSL  460 (652)
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHhhhhhhhhhhhccChhHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhH
Confidence            34444455666666666666        333322 2235555566666666665555555543331  111122222222


Q ss_pred             HH---HHHHhchhHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHHhhHHHHHHHHhccCCCCC
Q 023915          209 IA---RYIAEREKKELLLKLLEWMTGQGYVVDSSTRNLILKNSHLFGRQLIADILSKQHMKSK  268 (275)
Q Consensus       209 i~---~~~~~~~~~~~a~~l~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~~~~~~~~~~~~~  268 (275)
                      +.   .|=-+.|+.++|..+++++.+. -++|..+...++.+|++...+. ++.+.+.+.|.+
T Consensus       461 ~~~aa~f~lr~G~~~ea~s~leel~k~-n~~d~~~l~~lV~a~~~~d~ek-a~~l~k~L~p~~  521 (652)
T KOG2376|consen  461 MREAAEFKLRHGNEEEASSLLEELVKF-NPNDTDLLVQLVTAYARLDPEK-AESLSKKLPPLK  521 (652)
T ss_pred             HHHHhHHHHhcCchHHHHHHHHHHHHh-CCchHHHHHHHHHHHHhcCHHH-HHHHhhcCCCcc
Confidence            22   2212458889999999999874 3688899999999998877433 444555555543

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

Probab=97.31  E-value=0.059  Score=43.04  Aligned_cols=179  Identities=8%  Similarity=0.011  Sum_probs=94.3

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHhhc----CCCC-ChhhHHHHHHHHHccCCHHHHHHHHHHHHH----cCCCCCH--
Q 023915           32 LLNSMLCAYCRTGDMESVMHVMRKLDEL----AISP-DYNTFHILIKYFCKEKMYILAYRTMVDMHR----KGHQPEE--  100 (275)
Q Consensus        32 ~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p-~~~t~~~li~~~~~~~~~~~a~~~~~~m~~----~g~~~~~--  100 (275)
                      .|+..-..|-..+++++|.+.|....+.    +-.. -...|......|.+. +++.|...+++..+    .| .|+.  
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            3555555666677777777777665432    1111 112344444444443 77777777776653    23 2322  


Q ss_pred             HhHHHHHHHHhcc-CCHHHHHHHHHHHHhc----c-ccccHHhHHHHHHHHHhccchHHHHHHHHHhhcCC-----Chh-
Q 023915          101 ELCSSLIFHLGKM-RAHSEALSVYNMLRYS----K-RSMCKALHEKILHILISGKLLKDAYVVVKDNSESI-----SHP-  168 (275)
Q Consensus       101 ~~~~~li~~~~~~-g~~~~a~~~~~~m~~~----~-~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~-----~~~-  168 (275)
                      ..+..+-..|-.. |+++.|.+.|++...-    + .......+..+...+++.|++++|.++|++.....     ... 
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            3556666677776 7788877777765431    2 11123355566667777778888888777754421     111 


Q ss_pred             ---HHHHHHHHHHhcCChhHHHHHHHHHHHc--CCCCC--hhhHHHHHHHH
Q 023915          169 ---AIKKFASAFVRLGNINLVNDVMKAIHAT--GYRID--QGIFHIAIARY  212 (275)
Q Consensus       169 ---~~~~li~~~~~~~~~~~a~~~~~~m~~~--g~~p~--~~~y~~li~~~  212 (275)
                         .+-..+-.+...|+...|.+.++.....  ++..+  ......||.++
T Consensus       195 ~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~  245 (282)
T PF14938_consen  195 AKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAY  245 (282)
T ss_dssp             HHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHH
Confidence               1222233445567777777777776653  22222  23455566664

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.30  E-value=0.14  Score=47.13  Aligned_cols=160  Identities=11%  Similarity=0.117  Sum_probs=99.5

Q ss_pred             hhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHH
Q 023915            6 CRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAY   85 (275)
Q Consensus         6 ~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~   85 (275)
                      ...+-+++|+.+|+...     .+....+.||.-   -+..+.|.++-+...+    |  ..|..+..+-.+.|.+.+|.
T Consensus      1059 i~~~LyEEAF~ifkkf~-----~n~~A~~VLie~---i~~ldRA~efAe~~n~----p--~vWsqlakAQL~~~~v~dAi 1124 (1666)
T KOG0985|consen 1059 IENQLYEEAFAIFKKFD-----MNVSAIQVLIEN---IGSLDRAYEFAERCNE----P--AVWSQLAKAQLQGGLVKDAI 1124 (1666)
T ss_pred             hhhhHHHHHHHHHHHhc-----ccHHHHHHHHHH---hhhHHHHHHHHHhhCC----h--HHHHHHHHHHHhcCchHHHH
Confidence            34455666666666543     244555555543   3455666666555433    2  35777777777777777766


Q ss_pred             HHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhcCC
Q 023915           86 RTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSESI  165 (275)
Q Consensus        86 ~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~  165 (275)
                      .-|-.      .-|+..|..+++...+.|.+++..+.+...+++...|..  -+.+|-+|++.+++.+.++++.    .+
T Consensus      1125 eSyik------adDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~i--d~eLi~AyAkt~rl~elE~fi~----gp 1192 (1666)
T KOG0985|consen 1125 ESYIK------ADDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYI--DSELIFAYAKTNRLTELEEFIA----GP 1192 (1666)
T ss_pred             HHHHh------cCCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccc--hHHHHHHHHHhchHHHHHHHhc----CC
Confidence            55433      234567888888888889998888888877776666643  4578888888888877665543    33


Q ss_pred             ChhHHHHHHHHHHhcCChhHHHHHHH
Q 023915          166 SHPAIKKFASAFVRLGNINLVNDVMK  191 (275)
Q Consensus       166 ~~~~~~~li~~~~~~~~~~~a~~~~~  191 (275)
                      +......+-+-|...+.++.|.-+|.
T Consensus      1193 N~A~i~~vGdrcf~~~~y~aAkl~y~ 1218 (1666)
T KOG0985|consen 1193 NVANIQQVGDRCFEEKMYEAAKLLYS 1218 (1666)
T ss_pred             CchhHHHHhHHHhhhhhhHHHHHHHH
Confidence            33344444455555555555554443

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

Probab=97.30  E-value=0.099  Score=45.40  Aligned_cols=101  Identities=11%  Similarity=0.007  Sum_probs=70.1

Q ss_pred             cccHHhHH--HHHHHHHhccchHHHHHHHHHhhcCC-Chh-HHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHH
Q 023915          132 SMCKALHE--KILHILISGKLLKDAYVVVKDNSESI-SHP-AIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHI  207 (275)
Q Consensus       132 ~~~~~~~~--~li~~~~~~~~~~~a~~~~~~~~~~~-~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~  207 (275)
                      +|+...|.  -+...+-..|+++.|...++.....- +.+ .|-.=.+.+...|.++.|..++++.++.. .||...=.-
T Consensus       366 ~PttllWt~y~laqh~D~~g~~~~A~~yId~AIdHTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD-~aDR~INsK  444 (700)
T KOG1156|consen  366 PPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAIDHTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELD-TADRAINSK  444 (700)
T ss_pred             CchHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhcc-chhHHHHHH
Confidence            44544444  47778888999999999998766532 222 34444578888999999999999888754 344433323


Q ss_pred             HHHHHHHhchhHHHHHHHHHHHhhCCC
Q 023915          208 AIARYIAEREKKELLLKLLEWMTGQGY  234 (275)
Q Consensus       208 li~~~~~~~~~~~~a~~l~~~m~~~~~  234 (275)
                      -..-.+ +.++.++|.++.....+.|.
T Consensus       445 cAKYmL-rAn~i~eA~~~~skFTr~~~  470 (700)
T KOG1156|consen  445 CAKYML-RANEIEEAEEVLSKFTREGF  470 (700)
T ss_pred             HHHHHH-HccccHHHHHHHHHhhhccc
Confidence            444333 66888899999988888876

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=97.29  E-value=0.003  Score=49.00  Aligned_cols=101  Identities=16%  Similarity=0.269  Sum_probs=78.3

Q ss_pred             CCcHHhHHHHHHHHHcc-----CCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCC----------------HHHHH
Q 023915           27 KYDVVLLNSMLCAYCRT-----GDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKM----------------YILAY   85 (275)
Q Consensus        27 ~p~~~~~~~li~~~~~~-----g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~----------------~~~a~   85 (275)
                      +.|..+|-+.+..+...     +.++-....+..|++-|+.-|..+|+.||+.+-+-.-                -+=+.
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            45777888888777654     5566677778889999999999999999998765432                22378


Q ss_pred             HHHHHHHHcCCCCCHHhHHHHHHHHhccCCHH-HHHHHHHHHH
Q 023915           86 RTMVDMHRKGHQPEEELCSSLIFHLGKMRAHS-EALSVYNMLR  127 (275)
Q Consensus        86 ~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~-~a~~~~~~m~  127 (275)
                      .++++|...|+.||..+-..|+++|++.+-.- +..++.-.|.
T Consensus       144 ~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p~~K~~Rm~yWmP  186 (406)
T KOG3941|consen  144 KVLEQMEWHGVMPDKEIEDILVNAFGRWNFPTKKVKRMLYWMP  186 (406)
T ss_pred             HHHHHHHHcCCCCchHHHHHHHHHhccccccHHHHHHHHHhhh
Confidence            89999999999999999999999999987643 3444444443

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.24  E-value=0.045  Score=44.34  Aligned_cols=124  Identities=10%  Similarity=0.025  Sum_probs=94.7

Q ss_pred             hhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHH
Q 023915           65 YNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHI  144 (275)
Q Consensus        65 ~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~  144 (275)
                      ..+.+..|.-+...|+...|.++-.+..    .|+..-|...+.+++..++|++..++-..    ..  ++..|..++.+
T Consensus       177 ~~Sl~~Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s----kK--sPIGyepFv~~  246 (319)
T PF04840_consen  177 GLSLNDTIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS----KK--SPIGYEPFVEA  246 (319)
T ss_pred             cCCHHHHHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC----CC--CCCChHHHHHH
Confidence            3456667778888899888888876664    68989999999999999999987765432    22  34579999999


Q ss_pred             HHhccchHHHHHHHHHhhcCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHH
Q 023915          145 LISGKLLKDAYVVVKDNSESISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIAR  211 (275)
Q Consensus       145 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~  211 (275)
                      |.+.|+..+|..++..+       ++..-+..|.++|++.+|.+.-.+.      -|......+...
T Consensus       247 ~~~~~~~~eA~~yI~k~-------~~~~rv~~y~~~~~~~~A~~~A~~~------kd~~~L~~i~~~  300 (319)
T PF04840_consen  247 CLKYGNKKEASKYIPKI-------PDEERVEMYLKCGDYKEAAQEAFKE------KDIDLLKQILKR  300 (319)
T ss_pred             HHHCCCHHHHHHHHHhC-------ChHHHHHHHHHCCCHHHHHHHHHHc------CCHHHHHHHHHH
Confidence            99999999999998872       2266788999999999998875432      355556555554

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

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

Probab=97.21  E-value=0.016  Score=49.23  Aligned_cols=93  Identities=14%  Similarity=0.103  Sum_probs=45.0

Q ss_pred             CcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCC-hhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHH-hHHH
Q 023915           28 YDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEE-LCSS  105 (275)
Q Consensus        28 p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~-~~~~  105 (275)
                      +|..+++.|--.|--.|++++|.+.|+...+  ++|+ ..+||-|-..++...+..+|+..|++.++.  +|+.+ +...
T Consensus       428 ~DpdvQ~~LGVLy~ls~efdraiDcf~~AL~--v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqL--qP~yVR~RyN  503 (579)
T KOG1125|consen  428 IDPDVQSGLGVLYNLSGEFDRAVDCFEAALQ--VKPNDYLLWNRLGATLANGNRSEEAISAYNRALQL--QPGYVRVRYN  503 (579)
T ss_pred             CChhHHhhhHHHHhcchHHHHHHHHHHHHHh--cCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhc--CCCeeeeehh
Confidence            4444455555555555555555555555544  3343 234555555555555555555555555442  34322 3333


Q ss_pred             HHHHHhccCCHHHHHHHHH
Q 023915          106 LIFHLGKMRAHSEALSVYN  124 (275)
Q Consensus       106 li~~~~~~g~~~~a~~~~~  124 (275)
                      |--+|...|.+.+|.+.|-
T Consensus       504 lgIS~mNlG~ykEA~~hlL  522 (579)
T KOG1125|consen  504 LGISCMNLGAYKEAVKHLL  522 (579)
T ss_pred             hhhhhhhhhhHHHHHHHHH
Confidence            4444555555555544443

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.19  E-value=0.034  Score=37.98  Aligned_cols=85  Identities=18%  Similarity=0.081  Sum_probs=46.0

Q ss_pred             HHHccCCHHHHHHHHHHHhhcCCCCC--hhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCC----HHhHHHHHHHHhc
Q 023915           39 AYCRTGDMESVMHVMRKLDELAISPD--YNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPE----EELCSSLIFHLGK  112 (275)
Q Consensus        39 ~~~~~g~~~~a~~~~~~m~~~g~~p~--~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~----~~~~~~li~~~~~  112 (275)
                      ++-..|+.++|+.+|++....|...+  ...+-.+-+.+...|++++|+.++++.....  |+    ......+-.++..
T Consensus        10 a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~--p~~~~~~~l~~f~Al~L~~   87 (120)
T PF12688_consen   10 AHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEF--PDDELNAALRVFLALALYN   87 (120)
T ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCccccHHHHHHHHHHHHH
Confidence            34455666666666666666665443  2234455556666666666666666665431  22    1111222334555


Q ss_pred             cCCHHHHHHHHHH
Q 023915          113 MRAHSEALSVYNM  125 (275)
Q Consensus       113 ~g~~~~a~~~~~~  125 (275)
                      .|+.++|++.+-.
T Consensus        88 ~gr~~eAl~~~l~  100 (120)
T PF12688_consen   88 LGRPKEALEWLLE  100 (120)
T ss_pred             CCCHHHHHHHHHH
Confidence            6666666665544

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

Probab=97.18  E-value=0.1  Score=43.08  Aligned_cols=196  Identities=12%  Similarity=0.075  Sum_probs=118.4

Q ss_pred             CCcHHhHHHHHHHHHc--cCCHHHHHHHHHHHhhcC-CCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHH-h
Q 023915           27 KYDVVLLNSMLCAYCR--TGDMESVMHVMRKLDELA-ISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEE-L  102 (275)
Q Consensus        27 ~p~~~~~~~li~~~~~--~g~~~~a~~~~~~m~~~g-~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~-~  102 (275)
                      .|+..+....|.+++.  .++...|...+-.+.... ++-|......+.+.+...|+.+.|...|++.+..  .|+.. .
T Consensus       191 ~~~~dwls~wika~Aq~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~--dpy~i~~  268 (564)
T KOG1174|consen  191 PDHFDWLSKWIKALAQMFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCA--NPDNVEA  268 (564)
T ss_pred             CCCccHHHHHHHHHHHHHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhC--Chhhhhh
Confidence            3444445555665554  455566666665555443 5556677889999999999999999999998754  34332 2


Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhcCC--ChhHHHHHHHHHHhc
Q 023915          103 CSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSESI--SHPAIKKFASAFVRL  180 (275)
Q Consensus       103 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~li~~~~~~  180 (275)
                      ....--.+.+.|+.++...+...+-... .-+...|-.-...+-..++++.|+.+-++.....  +.+.|-.=-+.+...
T Consensus       269 MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~~r~~~alilKG~lL~~~  347 (564)
T KOG1174|consen  269 MDLYAVLLGQEGGCEQDSALMDYLFAKV-KYTASHWFVHAQLLYDEKKFERALNFVEKCIDSEPRNHEALILKGRLLIAL  347 (564)
T ss_pred             HHHHHHHHHhccCHhhHHHHHHHHHhhh-hcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccCcccchHHHhccHHHHhc
Confidence            2222333456788888777777665332 1112223233333445667777777777655422  222333333556677


Q ss_pred             CChhHHHHHHHHHHHcCCCC-ChhhHHHHHHHHHHhchhHHHHHHHHHH
Q 023915          181 GNINLVNDVMKAIHATGYRI-DQGIFHIAIARYIAEREKKELLLKLLEW  228 (275)
Q Consensus       181 ~~~~~a~~~~~~m~~~g~~p-~~~~y~~li~~~~~~~~~~~~a~~l~~~  228 (275)
                      ++.+.|.--|+..+..  .| +..+|.-|++.|. ..|++.+|.-+-++
T Consensus       348 ~R~~~A~IaFR~Aq~L--ap~rL~~Y~GL~hsYL-A~~~~kEA~~~An~  393 (564)
T KOG1174|consen  348 ERHTQAVIAFRTAQML--APYRLEIYRGLFHSYL-AQKRFKEANALANW  393 (564)
T ss_pred             cchHHHHHHHHHHHhc--chhhHHHHHHHHHHHH-hhchHHHHHHHHHH
Confidence            7888888777776653  33 5568888888887 44777766654443

>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=97.15  E-value=0.0018  Score=46.14  Aligned_cols=73  Identities=18%  Similarity=0.264  Sum_probs=52.7

Q ss_pred             HHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHH-----HcCCCCCHHhH
Q 023915           30 VVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMH-----RKGHQPEEELC  103 (275)
Q Consensus        30 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~-----~~g~~~~~~~~  103 (275)
                      ..+...++..+...|+++.|.++.+.+.... +-|...|..+|.++...|+...|.++|+.+.     +.|+.|+..+-
T Consensus        62 ~~~~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~  139 (146)
T PF03704_consen   62 LDALERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETR  139 (146)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHH
T ss_pred             HHHHHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHH
Confidence            3456777888888999999999999988732 2356688899999999999999999999885     46899987654

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

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

Probab=97.11  E-value=0.019  Score=47.43  Aligned_cols=91  Identities=8%  Similarity=-0.104  Sum_probs=73.8

Q ss_pred             HHHHHccCCHHHHHHHHHHHhhcCCCCC-hhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCC
Q 023915           37 LCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRA  115 (275)
Q Consensus        37 i~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~  115 (275)
                      -..+...|++++|++.|++..+.  .|+ ...|..+..+|.+.|+++.|+..+++..+.. +.+...|..+-.+|...|+
T Consensus         9 a~~a~~~~~~~~Ai~~~~~Al~~--~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~   85 (356)
T PLN03088          9 AKEAFVDDDFALAVDLYTQAIDL--DPNNAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEE   85 (356)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCC
Confidence            34566789999999999999874  343 5567788888999999999999999998763 3356688888889999999


Q ss_pred             HHHHHHHHHHHHhcc
Q 023915          116 HSEALSVYNMLRYSK  130 (275)
Q Consensus       116 ~~~a~~~~~~m~~~~  130 (275)
                      ++.|...|+......
T Consensus        86 ~~eA~~~~~~al~l~  100 (356)
T PLN03088         86 YQTAKAALEKGASLA  100 (356)
T ss_pred             HHHHHHHHHHHHHhC
Confidence            999999999877543

>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=97.09  E-value=0.0028  Score=38.37  Aligned_cols=48  Identities=8%  Similarity=0.164  Sum_probs=19.8

Q ss_pred             ccchHHHHHHHHHhhc-CC-ChhHHHHHHHHHHhcCChhHHHHHHHHHHH
Q 023915          148 GKLLKDAYVVVKDNSE-SI-SHPAIKKFASAFVRLGNINLVNDVMKAIHA  195 (275)
Q Consensus       148 ~~~~~~a~~~~~~~~~-~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  195 (275)
                      .|++++|+.+|++... .+ ++.....+...|.+.|++++|..+++.+..
T Consensus         4 ~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~   53 (68)
T PF14559_consen    4 QGDYDEAIELLEKALQRNPDNPEARLLLAQCYLKQGQYDEAEELLERLLK   53 (68)
T ss_dssp             TTHHHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHG
T ss_pred             ccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3444444444444332 11 222333444444444444444444444443

...

>PLN02789 farnesyltranstransferase

Probab=97.08  E-value=0.12  Score=42.11  Aligned_cols=211  Identities=6%  Similarity=-0.033  Sum_probs=135.8

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChh-hHHHHHHHHHccC-CHHHHHHHHHHHHHcCCCCCHHhHHHHHHH
Q 023915           32 LLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYN-TFHILIKYFCKEK-MYILAYRTMVDMHRKGHQPEEELCSSLIFH  109 (275)
Q Consensus        32 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~-t~~~li~~~~~~~-~~~~a~~~~~~m~~~g~~~~~~~~~~li~~  109 (275)
                      +++.+-..+...++.++|+.+.++..+  +.|+.. .|+.--..+...| ++++++..++++.+.. +-+..+|+.--..
T Consensus        39 a~~~~ra~l~~~e~serAL~lt~~aI~--lnP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~n-pknyqaW~~R~~~  115 (320)
T PLN02789         39 AMDYFRAVYASDERSPRALDLTADVIR--LNPGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDN-PKNYQIWHHRRWL  115 (320)
T ss_pred             HHHHHHHHHHcCCCCHHHHHHHHHHHH--HCchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHC-CcchHHhHHHHHH
Confidence            345555556677889999999999987  457654 3554444555666 6799999999998764 3344567655444


Q ss_pred             HhccCCH--HHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhcC--CChhHHHHHHHHHHhc---CC
Q 023915          110 LGKMRAH--SEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSES--ISHPAIKKFASAFVRL---GN  182 (275)
Q Consensus       110 ~~~~g~~--~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~li~~~~~~---~~  182 (275)
                      +.+.|+.  ++++.+++.+...... +-..|+..-..+...|+++++++.+.++.+.  .+...|+.....+.+.   |.
T Consensus       116 l~~l~~~~~~~el~~~~kal~~dpk-Ny~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~N~sAW~~R~~vl~~~~~l~~  194 (320)
T PLN02789        116 AEKLGPDAANKELEFTRKILSLDAK-NYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVRNNSAWNQRYFVITRSPLLGG  194 (320)
T ss_pred             HHHcCchhhHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCchhHHHHHHHHHHhcccccc
Confidence            5555653  6778888777755443 3447777778888889999999999998762  3333555443333333   22


Q ss_pred             h----hHHHHHHHHHHHcCCCC-ChhhHHHHHHHHHHhc----hhHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHH
Q 023915          183 I----NLVNDVMKAIHATGYRI-DQGIFHIAIARYIAER----EKKELLLKLLEWMTGQGYVVDSSTRNLILKNSHL  250 (275)
Q Consensus       183 ~----~~a~~~~~~m~~~g~~p-~~~~y~~li~~~~~~~----~~~~~a~~l~~~m~~~~~~p~~~t~~~li~~~~~  250 (275)
                      .    +............  .| |...|+-+-..+. ..    ++..+|.+.+.+....+ +.+......|++.|+.
T Consensus       195 ~~~~~e~el~y~~~aI~~--~P~N~SaW~Yl~~ll~-~~~~~l~~~~~~~~~~~~~~~~~-~~s~~al~~l~d~~~~  267 (320)
T PLN02789        195 LEAMRDSELKYTIDAILA--NPRNESPWRYLRGLFK-DDKEALVSDPEVSSVCLEVLSKD-SNHVFALSDLLDLLCE  267 (320)
T ss_pred             ccccHHHHHHHHHHHHHh--CCCCcCHHHHHHHHHh-cCCcccccchhHHHHHHHhhccc-CCcHHHHHHHHHHHHh
Confidence            2    3555555555553  34 4556776666554 31    23445888887766533 3456677778888865

>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=97.08  E-value=0.061  Score=38.89  Aligned_cols=134  Identities=16%  Similarity=0.237  Sum_probs=85.2

Q ss_pred             HHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccC--CHHHHHHHHHHHH
Q 023915           50 MHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMR--AHSEALSVYNMLR  127 (275)
Q Consensus        50 ~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g--~~~~a~~~~~~m~  127 (275)
                      .+.++.+.+.|+.|+...|..+|+.+.+.|.+..    +.++...++-+|.......+-.+....  -..-|+.++.++.
T Consensus        14 lEYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~----L~qllq~~Vi~DSk~lA~~LLs~~~~~~~~~Ql~lDMLkRL~   89 (167)
T PF07035_consen   14 LEYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQ----LHQLLQYHVIPDSKPLACQLLSLGNQYPPAYQLGLDMLKRLG   89 (167)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHH----HHHHHhhcccCCcHHHHHHHHHhHccChHHHHHHHHHHHHhh
Confidence            4566677778888888888888888888887554    566667777777766665554443321  1233444444432


Q ss_pred             hccccccHHhHHHHHHHHHhccchHHHHHHHHHhhcCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHc
Q 023915          128 YSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSESISHPAIKKFASAFVRLGNINLVNDVMKAIHAT  196 (275)
Q Consensus       128 ~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  196 (275)
                              ..+..+++.+...|++-+|..+.+...... ......++.+-...++...-..+++-..+.
T Consensus        90 --------~~~~~iievLL~~g~vl~ALr~ar~~~~~~-~~~~~~fLeAA~~~~D~~lf~~V~~ff~~~  149 (167)
T PF07035_consen   90 --------TAYEEIIEVLLSKGQVLEALRYARQYHKVD-SVPARKFLEAAANSNDDQLFYAVFRFFEER  149 (167)
T ss_pred             --------hhHHHHHHHHHhCCCHHHHHHHHHHcCCcc-cCCHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence                    135667777888888888888887643321 223345667777777766666666665553

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.08  E-value=0.075  Score=40.17  Aligned_cols=53  Identities=19%  Similarity=0.211  Sum_probs=30.1

Q ss_pred             HHccCCHHHHHHHHHHHhhcCCCCC----hhhHHHHHHHHHccCCHHHHHHHHHHHHHc
Q 023915           40 YCRTGDMESVMHVMRKLDELAISPD----YNTFHILIKYFCKEKMYILAYRTMVDMHRK   94 (275)
Q Consensus        40 ~~~~g~~~~a~~~~~~m~~~g~~p~----~~t~~~li~~~~~~~~~~~a~~~~~~m~~~   94 (275)
                      +...|++++|.+.|+.+...-  |+    ....-.+..++.+.|+++.|...+++..+.
T Consensus        15 ~~~~g~y~~Ai~~f~~l~~~~--P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~   71 (203)
T PF13525_consen   15 ALQQGDYEEAIKLFEKLIDRY--PNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKL   71 (203)
T ss_dssp             HHHCT-HHHHHHHHHHHHHH---TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHC--CCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            345677777777777776531  21    112335556666777777777777776653

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=97.06  E-value=0.051  Score=38.27  Aligned_cols=126  Identities=11%  Similarity=0.053  Sum_probs=73.3

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhc
Q 023915           33 LNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGK  112 (275)
Q Consensus        33 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~  112 (275)
                      ...+|..+.+.+.+.....+++.+...+ ..+...++.++..|++.+. +.....+..      ..+......++..|.+
T Consensus        10 ~~~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~~~-~~ll~~l~~------~~~~yd~~~~~~~c~~   81 (140)
T smart00299       10 VSEVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKYDP-QKEIERLDN------KSNHYDIEKVGKLCEK   81 (140)
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHHCH-HHHHHHHHh------ccccCCHHHHHHHHHH
Confidence            3456666666667777777777776665 2555567777777776532 333333332      1233444557777777


Q ss_pred             cCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhc-cchHHHHHHHHHhhcCCChhHHHHHHHHHH
Q 023915          113 MRAHSEALSVYNMLRYSKRSMCKALHEKILHILISG-KLLKDAYVVVKDNSESISHPAIKKFASAFV  178 (275)
Q Consensus       113 ~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~li~~~~  178 (275)
                      .+.++.+..++..+.         -+...+..+... ++.+.|.+.+.+   ..++..|..++..+.
T Consensus        82 ~~l~~~~~~l~~k~~---------~~~~Al~~~l~~~~d~~~a~~~~~~---~~~~~lw~~~~~~~l  136 (140)
T smart00299       82 AKLYEEAVELYKKDG---------NFKDAIVTLIEHLGNYEKAIEYFVK---QNNPELWAEVLKALL  136 (140)
T ss_pred             cCcHHHHHHHHHhhc---------CHHHHHHHHHHcccCHHHHHHHHHh---CCCHHHHHHHHHHHH
Confidence            777777777776653         233344444444 667777777665   234446666665554

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.03  E-value=0.051  Score=37.12  Aligned_cols=88  Identities=14%  Similarity=-0.081  Sum_probs=53.7

Q ss_pred             HHHHccCCHHHHHHHHHHHHHcCCCCC--HHhHHHHHHHHhccCCHHHHHHHHHHHHhcccc--ccHHhHHHHHHHHHhc
Q 023915           73 KYFCKEKMYILAYRTMVDMHRKGHQPE--EELCSSLIFHLGKMRAHSEALSVYNMLRYSKRS--MCKALHEKILHILISG  148 (275)
Q Consensus        73 ~~~~~~~~~~~a~~~~~~m~~~g~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~--~~~~~~~~li~~~~~~  148 (275)
                      .++-..|+.++|+.+|++....|....  ...+-.+-..+...|++++|..+++......+.  .+......+-.++...
T Consensus         9 ~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L~~~   88 (120)
T PF12688_consen    9 WAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALALYNL   88 (120)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHHC
Confidence            455667888888888888887776554  234555666777778888888888776654221  1111222223355566


Q ss_pred             cchHHHHHHHHH
Q 023915          149 KLLKDAYVVVKD  160 (275)
Q Consensus       149 ~~~~~a~~~~~~  160 (275)
                      |+.++|+..+-.
T Consensus        89 gr~~eAl~~~l~  100 (120)
T PF12688_consen   89 GRPKEALEWLLE  100 (120)
T ss_pred             CCHHHHHHHHHH
Confidence            777777666654

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=97.02  E-value=0.22  Score=44.23  Aligned_cols=53  Identities=8%  Similarity=0.000  Sum_probs=35.1

Q ss_pred             hhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHh
Q 023915            5 FCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLD   57 (275)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~   57 (275)
                      |+..++++.|.+...+..+.+..-+...|..|.-.+...+++.+|+.+.+...
T Consensus       488 ~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al  540 (799)
T KOG4162|consen  488 YAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAAL  540 (799)
T ss_pred             HHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHH
Confidence            44556677777777776666555566777777777777777777777665544

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

Probab=96.98  E-value=0.13  Score=41.04  Aligned_cols=190  Identities=15%  Similarity=0.088  Sum_probs=104.3

Q ss_pred             CHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHc----CCCCC-HHhHHHHHHHHhccCCHHHH
Q 023915           45 DMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRK----GHQPE-EELCSSLIFHLGKMRAHSEA  119 (275)
Q Consensus        45 ~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~----g~~~~-~~~~~~li~~~~~~g~~~~a  119 (275)
                      ++++|.++|.+.               ...|-..+++++|...|....+.    +-+.+ ...|......|.+. ++++|
T Consensus        30 ~~e~Aa~~y~~A---------------a~~fk~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~Aa~~~k~~-~~~~A   93 (282)
T PF14938_consen   30 DYEEAADLYEKA---------------ANCFKLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEEAANCYKKG-DPDEA   93 (282)
T ss_dssp             HHHHHHHHHHHH---------------HHHHHHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHT-THHHH
T ss_pred             CHHHHHHHHHHH---------------HHHHHHHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhh-CHHHH
Confidence            566666666554               33445556666665555554321    11111 12333333344333 66666


Q ss_pred             HHHHHHHHh----ccc-cccHHhHHHHHHHHHhc-cchHHHHHHHHHhhc----CCChh----HHHHHHHHHHhcCChhH
Q 023915          120 LSVYNMLRY----SKR-SMCKALHEKILHILISG-KLLKDAYVVVKDNSE----SISHP----AIKKFASAFVRLGNINL  185 (275)
Q Consensus       120 ~~~~~~m~~----~~~-~~~~~~~~~li~~~~~~-~~~~~a~~~~~~~~~----~~~~~----~~~~li~~~~~~~~~~~  185 (275)
                      ...++....    .|. ..-...+..+-..|-.. |+++.|.+.|++..+    ...+.    .+..+...+.+.|++++
T Consensus        94 i~~~~~A~~~y~~~G~~~~aA~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~  173 (282)
T PF14938_consen   94 IECYEKAIEIYREAGRFSQAAKCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEE  173 (282)
T ss_dssp             HHHHHHHHHHHHHCT-HHHHHHHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHH
T ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHH
Confidence            666655432    121 11223445555666666 889999998887554    22222    45667888999999999


Q ss_pred             HHHHHHHHHHcCCC-----CChh--hHHHHHHHHHHhchhHHHHHHHHHHHhhC--CCCCC--hhhHHHHHHHHHHhh
Q 023915          186 VNDVMKAIHATGYR-----IDQG--IFHIAIARYIAEREKKELLLKLLEWMTGQ--GYVVD--SSTRNLILKNSHLFG  252 (275)
Q Consensus       186 a~~~~~~m~~~g~~-----p~~~--~y~~li~~~~~~~~~~~~a~~l~~~m~~~--~~~p~--~~t~~~li~~~~~~g  252 (275)
                      |.++|++....-..     ++..  .+..+|-. + ..|+.-.|.+.+++....  ++..+  ......||+++-...
T Consensus       174 A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~-L-~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~~~~D  249 (282)
T PF14938_consen  174 AIEIYEEVAKKCLENNLLKYSAKEYFLKAILCH-L-AMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAYEEGD  249 (282)
T ss_dssp             HHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHH-H-HTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHHHTT-
T ss_pred             HHHHHHHHHHHhhcccccchhHHHHHHHHHHHH-H-HcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHhCC
Confidence            99999998764322     2222  23444433 3 346777799999998654  34333  566677777775544

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=96.96  E-value=0.12  Score=40.23  Aligned_cols=161  Identities=14%  Similarity=0.041  Sum_probs=96.6

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhH----HHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHH
Q 023915           32 LLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTF----HILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLI  107 (275)
Q Consensus        32 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~----~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li  107 (275)
                      .|.. ...+.+.|++++|.+.|+++...  -|+...-    -.+..++.+.++++.|...+++..+.--.-...-|...+
T Consensus        35 ~Y~~-A~~~~~~g~y~~Ai~~f~~l~~~--yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y~  111 (243)
T PRK10866         35 IYAT-AQQKLQDGNWKQAITQLEALDNR--YPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLYM  111 (243)
T ss_pred             HHHH-HHHHHHCCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHHH
Confidence            3443 34445688899999999888773  3443221    245577788899999999998887653222222344444


Q ss_pred             HHHhc--c---------------CC---HHHHHHHHHHHHhccccc----cHHh------------HHHHHHHHHhccch
Q 023915          108 FHLGK--M---------------RA---HSEALSVYNMLRYSKRSM----CKAL------------HEKILHILISGKLL  151 (275)
Q Consensus       108 ~~~~~--~---------------g~---~~~a~~~~~~m~~~~~~~----~~~~------------~~~li~~~~~~~~~  151 (275)
                      .+.+.  .               .+   ...|+..|+.+...-+..    ....            --.+-+-|.+.|.+
T Consensus       112 ~g~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~yP~S~ya~~A~~rl~~l~~~la~~e~~ia~~Y~~~~~y  191 (243)
T PRK10866        112 RGLTNMALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRGYPNSQYTTDATKRLVFLKDRLAKYELSVAEYYTKRGAY  191 (243)
T ss_pred             HHHhhhhcchhhhhhccCCCccccCHHHHHHHHHHHHHHHHHCcCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCch
Confidence            44321  1               12   234556666665432111    1110            01233346678888


Q ss_pred             HHHHHHHHHhhcC-CCh----hHHHHHHHHHHhcCChhHHHHHHHHHHH
Q 023915          152 KDAYVVVKDNSES-ISH----PAIKKFASAFVRLGNINLVNDVMKAIHA  195 (275)
Q Consensus       152 ~~a~~~~~~~~~~-~~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~  195 (275)
                      ..|..-++.+.+. +..    .....++.+|...|..+.|..+...+..
T Consensus       192 ~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~~  240 (243)
T PRK10866        192 VAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIAA  240 (243)
T ss_pred             HHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHhc
Confidence            8888888887762 222    2456778999999999999888776543

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=96.93  E-value=0.13  Score=44.85  Aligned_cols=69  Identities=12%  Similarity=0.136  Sum_probs=39.3

Q ss_pred             HHhHHHHHHHHHhccchHHHHHHHHHhhc-CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhH
Q 023915          135 KALHEKILHILISGKLLKDAYVVVKDNSE-SISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIF  205 (275)
Q Consensus       135 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y  205 (275)
                      +..|.++--.....|++++|...+++... .++...|..+...+...|+.++|.+.+......  .|...+|
T Consensus       420 ~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L--~P~~pt~  489 (517)
T PRK10153        420 PRIYEILAVQALVKGKTDEAYQAINKAIDLEMSWLNYVLLGKVYELKGDNRLAADAYSTAFNL--RPGENTL  489 (517)
T ss_pred             hHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCCchH
Confidence            34455444444455666666666666544 333345666666677777777777776665543  3444444

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

Probab=96.92  E-value=0.025  Score=44.35  Aligned_cols=82  Identities=13%  Similarity=0.103  Sum_probs=43.0

Q ss_pred             HccCCHHHHHHHHHHHhhcCCCCCh-hhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCH-HhHHHHHHHHhccCCHHH
Q 023915           41 CRTGDMESVMHVMRKLDELAISPDY-NTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEE-ELCSSLIFHLGKMRAHSE  118 (275)
Q Consensus        41 ~~~g~~~~a~~~~~~m~~~g~~p~~-~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~-~~~~~li~~~~~~g~~~~  118 (275)
                      .+.+++.+|+..|.+..+  +.|+- +-|..=..+|++.|.++.|.+=-+..+.  +.|.. .+|..|-.+|...|++++
T Consensus        92 m~~~~Y~eAv~kY~~AI~--l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~--iDp~yskay~RLG~A~~~~gk~~~  167 (304)
T KOG0553|consen   92 MKNKDYQEAVDKYTEAIE--LDPTNAVYYCNRAAAYSKLGEYEDAVKDCESALS--IDPHYSKAYGRLGLAYLALGKYEE  167 (304)
T ss_pred             HHhhhHHHHHHHHHHHHh--cCCCcchHHHHHHHHHHHhcchHHHHHHHHHHHh--cChHHHHHHHHHHHHHHccCcHHH
Confidence            445566666666666555  33433 2334555556666666555554444433  23332 356666666666666666


Q ss_pred             HHHHHHHH
Q 023915          119 ALSVYNML  126 (275)
Q Consensus       119 a~~~~~~m  126 (275)
                      |.+.|+..
T Consensus       168 A~~aykKa  175 (304)
T KOG0553|consen  168 AIEAYKKA  175 (304)
T ss_pred             HHHHHHhh
Confidence            66655543

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=96.86  E-value=0.088  Score=37.06  Aligned_cols=125  Identities=12%  Similarity=0.125  Sum_probs=72.7

Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhc
Q 023915           69 HILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISG  148 (275)
Q Consensus        69 ~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~  148 (275)
                      ..++..+.+.+.......+++.+...+ ..+....+.++..|++.+ .++..+.+..   .   .+......+++.|.+.
T Consensus        11 ~~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~~-~~~ll~~l~~---~---~~~yd~~~~~~~c~~~   82 (140)
T smart00299       11 SEVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKYD-PQKEIERLDN---K---SNHYDIEKVGKLCEKA   82 (140)
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHHC-HHHHHHHHHh---c---cccCCHHHHHHHHHHc
Confidence            456666666677777777777777665 356667777777777653 3344444432   1   1222334477777777


Q ss_pred             cchHHHHHHHHHhhcCCChhHHHHHHHHHHhc-CChhHHHHHHHHHHHcCCCCChhhHHHHHHHHH
Q 023915          149 KLLKDAYVVVKDNSESISHPAIKKFASAFVRL-GNINLVNDVMKAIHATGYRIDQGIFHIAIARYI  213 (275)
Q Consensus       149 ~~~~~a~~~~~~~~~~~~~~~~~~li~~~~~~-~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~  213 (275)
                      +.++++..++.++..      +...+..+... ++.+.|.+.+..      .-+...|..++..+.
T Consensus        83 ~l~~~~~~l~~k~~~------~~~Al~~~l~~~~d~~~a~~~~~~------~~~~~lw~~~~~~~l  136 (140)
T smart00299       83 KLYEEAVELYKKDGN------FKDAIVTLIEHLGNYEKAIEYFVK------QNNPELWAEVLKALL  136 (140)
T ss_pred             CcHHHHHHHHHhhcC------HHHHHHHHHHcccCHHHHHHHHHh------CCCHHHHHHHHHHHH
Confidence            777777777776533      22233333333 667777776553      124556666665543

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

Probab=96.81  E-value=0.0098  Score=35.57  Aligned_cols=53  Identities=13%  Similarity=0.186  Sum_probs=27.0

Q ss_pred             HHHccCCHHHHHHHHHHHhhcCCCC-ChhhHHHHHHHHHccCCHHHHHHHHHHHHH
Q 023915           39 AYCRTGDMESVMHVMRKLDELAISP-DYNTFHILIKYFCKEKMYILAYRTMVDMHR   93 (275)
Q Consensus        39 ~~~~~g~~~~a~~~~~~m~~~g~~p-~~~t~~~li~~~~~~~~~~~a~~~~~~m~~   93 (275)
                      .+.+.|++++|.+.|++..+..  | +...+..+...+.+.|++++|...|++..+
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            3445555555555555555533  3 333444555555555555555555555543

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.80  E-value=0.014  Score=35.83  Aligned_cols=55  Identities=15%  Similarity=0.087  Sum_probs=31.2

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhh
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDE   58 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~   58 (275)
                      ..|.+.++++.|.++++.+...++. +...|...-.++.+.|++++|.+.|+...+
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~   57 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELDPD-DPELWLQRARCLFQLGRYEEALEDLERALE   57 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCcc-cchhhHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            3455566666666666666555333 444555555555566666666666665554

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=96.80  E-value=0.086  Score=43.94  Aligned_cols=144  Identities=13%  Similarity=0.171  Sum_probs=108.3

Q ss_pred             hhHHHHHHHHHccCCHHHHHHHHHHHHHcC-CCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHH
Q 023915           66 NTFHILIKYFCKEKMYILAYRTMVDMHRKG-HQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHI  144 (275)
Q Consensus        66 ~t~~~li~~~~~~~~~~~a~~~~~~m~~~g-~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~  144 (275)
                      ..|...|++..+..-++.|..+|-+.++.| +.+++..++++|..++. |+...|.++|+.-...- +-+..--+..+.-
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-GDRATAYNIFELGLLKF-PDSTLYKEKYLLF  475 (660)
T ss_pred             hHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHhc-CCcchHHHHHHHHHHhC-CCchHHHHHHHHH
Confidence            457778888888888999999999999999 68899999999998875 78888999998544332 2222234567778


Q ss_pred             HHhccchHHHHHHHHHhhc----CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHH
Q 023915          145 LISGKLLKDAYVVVKDNSE----SISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYI  213 (275)
Q Consensus       145 ~~~~~~~~~a~~~~~~~~~----~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~  213 (275)
                      +...++-+.|..+|+....    ..-.+.|..+|.-=..-|++..+..+=+.|.+.  .|-..+-....+.|.
T Consensus       476 Li~inde~naraLFetsv~r~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~--~pQen~~evF~Sry~  546 (660)
T COG5107         476 LIRINDEENARALFETSVERLEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFREL--VPQENLIEVFTSRYA  546 (660)
T ss_pred             HHHhCcHHHHHHHHHHhHHHHHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHH--cCcHhHHHHHHHHHh
Confidence            8889999999999995433    334568999999888999998888887777763  455555555554443

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=96.79  E-value=0.18  Score=40.49  Aligned_cols=40  Identities=15%  Similarity=0.237  Sum_probs=20.2

Q ss_pred             HhHHHHHHHHHc--cCCHHHHHHHHHHHhhcCCCCChhhHHH
Q 023915           31 VLLNSMLCAYCR--TGDMESVMHVMRKLDELAISPDYNTFHI   70 (275)
Q Consensus        31 ~~~~~li~~~~~--~g~~~~a~~~~~~m~~~g~~p~~~t~~~   70 (275)
                      .++.+++..-..  ...+++.+++++.|.+.|++-+..+|-+
T Consensus        61 ~~la~~l~~~~~~p~~~~~~~~~~y~~L~~~gFk~~~y~~la  102 (297)
T PF13170_consen   61 FILAALLDISFEDPEEAFKEVLDIYEKLKEAGFKRSEYLYLA  102 (297)
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhccCccChHHHH
Confidence            344444444444  1235555555566665555555555443

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=96.78  E-value=0.084  Score=37.66  Aligned_cols=94  Identities=12%  Similarity=-0.095  Sum_probs=70.2

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCC-HHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHH
Q 023915           67 TFHILIKYFCKEKMYILAYRTMVDMHRKGHQPE-EELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHIL  145 (275)
Q Consensus        67 t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~  145 (275)
                      ..-.+-.-+...|+++.|..+|+-+...  .|. ..-|-.|-.++-..|++++|+..|.....-.+ -++..+-.+-.++
T Consensus        37 ~lY~~A~~ly~~G~l~~A~~~f~~L~~~--Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~-ddp~~~~~ag~c~  113 (157)
T PRK15363         37 TLYRYAMQLMEVKEFAGAARLFQLLTIY--DAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKI-DAPQAPWAAAECY  113 (157)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCchHHHHHHHHH
Confidence            3445555567889999999999988765  444 44556677777788999999999998776553 3445666777788


Q ss_pred             HhccchHHHHHHHHHhhc
Q 023915          146 ISGKLLKDAYVVVKDNSE  163 (275)
Q Consensus       146 ~~~~~~~~a~~~~~~~~~  163 (275)
                      ...|+.+.|.+-|+....
T Consensus       114 L~lG~~~~A~~aF~~Ai~  131 (157)
T PRK15363        114 LACDNVCYAIKALKAVVR  131 (157)
T ss_pred             HHcCCHHHHHHHHHHHHH
Confidence            899999999999987655

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=96.76  E-value=0.22  Score=40.40  Aligned_cols=83  Identities=11%  Similarity=-0.025  Sum_probs=39.4

Q ss_pred             HHHHHHHHHhccchHHHHHHHHHhhcCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhch
Q 023915          138 HEKILHILISGKLLKDAYVVVKDNSESISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAERE  217 (275)
Q Consensus       138 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~  217 (275)
                      .+..|..+...|+...|.++-++. +-++...|..-+.+++..++|++...+...      +-.+..|..++..+. ..|
T Consensus       180 l~~Ti~~li~~~~~k~A~kl~k~F-kv~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~-~~~  251 (319)
T PF04840_consen  180 LNDTIRKLIEMGQEKQAEKLKKEF-KVPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACL-KYG  251 (319)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHc-CCcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHH-HCC
Confidence            334444555555555555554443 122333455555555555555555444221      112345555555544 345


Q ss_pred             hHHHHHHHHHH
Q 023915          218 KKELLLKLLEW  228 (275)
Q Consensus       218 ~~~~a~~l~~~  228 (275)
                      +.++|..++..
T Consensus       252 ~~~eA~~yI~k  262 (319)
T PF04840_consen  252 NKKEASKYIPK  262 (319)
T ss_pred             CHHHHHHHHHh
Confidence            55555555554

Vps16 is essential for vacuolar protein sorting, which is essential for viability in plants, but not yeast []. The Class C Vps complex is required for SNARE-mediated membrane fusion at the lysosome-like yeast vacuole. It is thought to play essential roles in membrane docking and fusion at the Golgi-to-endosome and endosome-to-vacuole stages of transport []. The role of VPS16 in this complex is not known.; GO: 0006886 intracellular protein transport, 0005737 cytoplasm

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.76  E-value=0.059  Score=42.42  Aligned_cols=94  Identities=11%  Similarity=-0.057  Sum_probs=41.4

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCH----HhHHHHHHHHhccCCHHHHHHHHHHHHhccc--cccHHhHHHH
Q 023915           68 FHILIKYFCKEKMYILAYRTMVDMHRKGHQPEE----ELCSSLIFHLGKMRAHSEALSVYNMLRYSKR--SMCKALHEKI  141 (275)
Q Consensus        68 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~----~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~--~~~~~~~~~l  141 (275)
                      |...+..+.+.|++++|...|+.+.+.-  |+.    .++..+-.+|...|++++|...|+.+....+  +.....+-.+
T Consensus       146 Y~~A~~l~~~~~~y~~Ai~af~~fl~~y--P~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~kl  223 (263)
T PRK10803        146 YNAAIALVQDKSRQDDAIVAFQNFVKKY--PDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKV  223 (263)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHC--cCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHH
Confidence            3343333344455555555555554431  221    2344455555555555555555555543211  1112222233


Q ss_pred             HHHHHhccchHHHHHHHHHhhc
Q 023915          142 LHILISGKLLKDAYVVVKDNSE  163 (275)
Q Consensus       142 i~~~~~~~~~~~a~~~~~~~~~  163 (275)
                      ...+...|+.+.|...+++...
T Consensus       224 g~~~~~~g~~~~A~~~~~~vi~  245 (263)
T PRK10803        224 GVIMQDKGDTAKAKAVYQQVIK  245 (263)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHH
Confidence            3344455555555555555443

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=96.76  E-value=0.0073  Score=37.68  Aligned_cols=62  Identities=18%  Similarity=0.183  Sum_probs=40.8

Q ss_pred             HhHHHHHHHHHccCCHHHHHHHHHHHhhc----C-CCCC-hhhHHHHHHHHHccCCHHHHHHHHHHHH
Q 023915           31 VLLNSMLCAYCRTGDMESVMHVMRKLDEL----A-ISPD-YNTFHILIKYFCKEKMYILAYRTMVDMH   92 (275)
Q Consensus        31 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g-~~p~-~~t~~~li~~~~~~~~~~~a~~~~~~m~   92 (275)
                      .+|+.+-..|...|++++|++.|++..+.    | -.|+ ..+++.+...+...|+++.|++.+++..
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al   73 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKAL   73 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            46777777777888888888777776642    1 1122 4456677777777777777777777654

...

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=96.71  E-value=0.18  Score=45.43  Aligned_cols=53  Identities=11%  Similarity=0.046  Sum_probs=28.9

Q ss_pred             HHHHHHHHHhccchHHHHHHHHHhhcCCChhHHHHHHHHHHhcCChhHHHHHHHHH
Q 023915          138 HEKILHILISGKLLKDAYVVVKDNSESISHPAIKKFASAFVRLGNINLVNDVMKAI  193 (275)
Q Consensus       138 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  193 (275)
                      |-++++..|-.|+.++|-.+-++   .++....-.+.+.|-..|++.+|...|...
T Consensus       941 ~fs~VrI~C~qGk~~kAa~iA~e---sgd~AAcYhlaR~YEn~g~v~~Av~FfTrA  993 (1416)
T KOG3617|consen  941 YFSMVRIKCIQGKTDKAARIAEE---SGDKAACYHLARMYENDGDVVKAVKFFTRA  993 (1416)
T ss_pred             hhhheeeEeeccCchHHHHHHHh---cccHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            33444444555555555554443   333334445666677777777777666543

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=96.69  E-value=0.1  Score=45.32  Aligned_cols=143  Identities=7%  Similarity=-0.125  Sum_probs=95.8

Q ss_pred             cCCCCcHHhHHHHHHHHH-----ccCCHHHHHHHHHHHhhcCCCCChh-hHHHHHHHHHcc--------CCHHHHHHHHH
Q 023915           24 KYDKYDVVLLNSMLCAYC-----RTGDMESVMHVMRKLDELAISPDYN-TFHILIKYFCKE--------KMYILAYRTMV   89 (275)
Q Consensus        24 ~g~~p~~~~~~~li~~~~-----~~g~~~~a~~~~~~m~~~g~~p~~~-t~~~li~~~~~~--------~~~~~a~~~~~   89 (275)
                      .+...|...|...+++..     ..+..+.|.++|++..+  ..|+-. .|..+..++...        .++..+.+...
T Consensus       331 ~~~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~--ldP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~  408 (517)
T PRK10153        331 QGLPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILK--SEPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELD  408 (517)
T ss_pred             ccCCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH--hCCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHH
Confidence            455668888888888754     35888899999999887  457742 333322222211        12344555555


Q ss_pred             HHHHc-CCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhc-CCCh
Q 023915           90 DMHRK-GHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSE-SISH  167 (275)
Q Consensus        90 ~m~~~-g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~-~~~~  167 (275)
                      +.... ....+...|..+-......|++++|...+++......  +...|..+-..+...|+.++|.+.+++... .+..
T Consensus       409 ~a~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~p--s~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~P~~  486 (517)
T PRK10153        409 NIVALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLEM--SWLNYVLLGKVYELKGDNRLAADAYSTAFNLRPGE  486 (517)
T ss_pred             HhhhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCC
Confidence            44432 2334556777765666667999999999998876663  566888888899999999999999988654 5555


Q ss_pred             hHH
Q 023915          168 PAI  170 (275)
Q Consensus       168 ~~~  170 (275)
                      |+|
T Consensus       487 pt~  489 (517)
T PRK10153        487 NTL  489 (517)
T ss_pred             chH
Confidence            654

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.66  E-value=0.2  Score=38.55  Aligned_cols=186  Identities=14%  Similarity=0.080  Sum_probs=132.4

Q ss_pred             hcCcHHHHHHHHHHHHh---cC-CCCcHH-hHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHH-HHccCC
Q 023915            7 RGGCFEEAKQLAGDFEA---KY-DKYDVV-LLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKY-FCKEKM   80 (275)
Q Consensus         7 ~~g~~~~a~~~~~~m~~---~g-~~p~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~-~~~~~~   80 (275)
                      ...+.++..+++.++..   .| ..++.. .|..++-+....|+.+.|...++.+...-  |...--..+=.. +-..|.
T Consensus        24 ~~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~f--p~S~RV~~lkam~lEa~~~  101 (289)
T KOG3060|consen   24 TVRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRF--PGSKRVGKLKAMLLEATGN  101 (289)
T ss_pred             cccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhC--CCChhHHHHHHHHHHHhhc
Confidence            45678889999988875   34 555664 46777778888899999999999988753  544322222111 334688


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHH
Q 023915           81 YILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKD  160 (275)
Q Consensus        81 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  160 (275)
                      +++|.++++.+.+.. +.|..++-.=+...-..|+.-.|++-+..... ....|...|.-+-..|...|+++.|.-.+++
T Consensus       102 ~~~A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~-~F~~D~EAW~eLaeiY~~~~~f~kA~fClEE  179 (289)
T KOG3060|consen  102 YKEAIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLD-KFMNDQEAWHELAEIYLSEGDFEKAAFCLEE  179 (289)
T ss_pred             hhhHHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHH-HhcCcHHHHHHHHHHHHhHhHHHHHHHHHHH
Confidence            999999999999775 56677777666666667777787777776653 3455777999999999999999999999999


Q ss_pred             hhc-CCChhH-HHHHHHHHHhcC---ChhHHHHHHHHHHHc
Q 023915          161 NSE-SISHPA-IKKFASAFVRLG---NINLVNDVMKAIHAT  196 (275)
Q Consensus       161 ~~~-~~~~~~-~~~li~~~~~~~---~~~~a~~~~~~m~~~  196 (275)
                      +.- .|..|. +..+...+.-.|   +.+.+...|..-.+.
T Consensus       180 ~ll~~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl  220 (289)
T KOG3060|consen  180 LLLIQPFNPLYFQRLAEVLYTQGGAENLELARKYYERALKL  220 (289)
T ss_pred             HHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHh
Confidence            764 555553 344555444443   666777777766553

>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=96.64  E-value=0.014  Score=35.35  Aligned_cols=61  Identities=20%  Similarity=0.174  Sum_probs=30.3

Q ss_pred             HHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCC-ChhhHHHHHHHHHccC-CHHHHHHHHHHHH
Q 023915           30 VVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP-DYNTFHILIKYFCKEK-MYILAYRTMVDMH   92 (275)
Q Consensus        30 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~t~~~li~~~~~~~-~~~~a~~~~~~m~   92 (275)
                      +.+|..+-..+.+.|++++|+..|++..+.  .| +...|..+-.++.+.| ++++|++.+++..
T Consensus         3 a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~--~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al   65 (69)
T PF13414_consen    3 AEAWYNLGQIYFQQGDYEEAIEYFEKAIEL--DPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKAL   65 (69)
T ss_dssp             HHHHHHHHHHHHHTTHHHHHHHHHHHHHHH--STTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHH
Confidence            344555555555555555555555555542  23 2334444445555555 4555555555444

...

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.64  E-value=0.11  Score=40.86  Aligned_cols=102  Identities=8%  Similarity=-0.018  Sum_probs=76.6

Q ss_pred             HHhHHHHHHHHhccCCHHHHHHHHHHHHhccccc--cHHhHHHHHHHHHhccchHHHHHHHHHhhcC-CCh----hHHHH
Q 023915          100 EELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSM--CKALHEKILHILISGKLLKDAYVVVKDNSES-ISH----PAIKK  172 (275)
Q Consensus       100 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~--~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-~~~----~~~~~  172 (275)
                      ...|...+..+.+.|++++|...|+.+....+..  .+..+-.+-..|...|++++|...|+..... +..    ..+-.
T Consensus       143 ~~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~k  222 (263)
T PRK10803        143 NTDYNAAIALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFK  222 (263)
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHH
Confidence            3467777766677899999999999998764332  2346677888999999999999999998752 222    24445


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHcCCCCChh
Q 023915          173 FASAFVRLGNINLVNDVMKAIHATGYRIDQG  203 (275)
Q Consensus       173 li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~  203 (275)
                      +...+...|+.+.|..+|+.+.+.  -|+..
T Consensus       223 lg~~~~~~g~~~~A~~~~~~vi~~--yP~s~  251 (263)
T PRK10803        223 VGVIMQDKGDTAKAKAVYQQVIKK--YPGTD  251 (263)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHH--CcCCH
Confidence            566788899999999999998875  35544

>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=96.58  E-value=0.018  Score=34.85  Aligned_cols=64  Identities=13%  Similarity=0.043  Sum_probs=46.3

Q ss_pred             ChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccC-CHHHHHHHHHHHHh
Q 023915           64 DYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMR-AHSEALSVYNMLRY  128 (275)
Q Consensus        64 ~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g-~~~~a~~~~~~m~~  128 (275)
                      +..+|..+-..+.+.|+++.|+..|++..+.. +-+...|..+-.+|.+.| ++++|++.++...+
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~-p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~   66 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELD-PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALK   66 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHS-TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            34567777777888888888888888877753 334557777777788887 68888887776543

...

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

Probab=96.50  E-value=0.52  Score=41.34  Aligned_cols=19  Identities=11%  Similarity=0.258  Sum_probs=10.1

Q ss_pred             hhhcCcHHHHHHHHHHHHh
Q 023915            5 FCRGGCFEEAKQLAGDFEA   23 (275)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~   23 (275)
                      |-..|+++.|..+|+...+
T Consensus       397 Ye~~~~l~~aRvifeka~~  415 (835)
T KOG2047|consen  397 YENNGDLDDARVIFEKATK  415 (835)
T ss_pred             HHhcCcHHHHHHHHHHhhc
Confidence            4445555555555555544

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.44  E-value=0.13  Score=43.14  Aligned_cols=64  Identities=8%  Similarity=-0.002  Sum_probs=56.2

Q ss_pred             cHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChh----hHHHHHHHHHccCCHHHHHHHHHHHHHc
Q 023915           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYN----TFHILIKYFCKEKMYILAYRTMVDMHRK   94 (275)
Q Consensus        29 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~----t~~~li~~~~~~~~~~~a~~~~~~m~~~   94 (275)
                      +...++.+-.+|.+.|++++|+..|++..+  +.|+..    +|..+..+|.+.|+.++|+..+++..+.
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALe--L~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALE--LNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--hCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            567899999999999999999999999887  557754    5899999999999999999999998875

>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=96.42  E-value=0.17  Score=34.86  Aligned_cols=58  Identities=24%  Similarity=0.328  Sum_probs=24.6

Q ss_pred             HHHHHHHhccchHHHHHHHHHhh--cCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcC
Q 023915          140 KILHILISGKLLKDAYVVVKDNS--ESISHPAIKKFASAFVRLGNINLVNDVMKAIHATG  197 (275)
Q Consensus       140 ~li~~~~~~~~~~~a~~~~~~~~--~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g  197 (275)
                      ..+..++..|+-+.-.++..++.  +..+|+..-.+..+|.+.|+..++.+++.+..+.|
T Consensus        91 ~ALd~lv~~~kkDqLdki~~~l~kn~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG  150 (161)
T PF09205_consen   91 LALDILVKQGKKDQLDKIYNELKKNEEINPEFLVKIANAYKKLGNTREANELLKEACEKG  150 (161)
T ss_dssp             HHHHHHHHTT-HHHHHHHHHHH-----S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhccHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhc
Confidence            34444444444444444444443  12333344444455555555555555555544444

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=96.37  E-value=0.66  Score=42.79  Aligned_cols=159  Identities=11%  Similarity=0.038  Sum_probs=103.3

Q ss_pred             hhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHH--HH
Q 023915           66 NTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKI--LH  143 (275)
Q Consensus        66 ~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l--i~  143 (275)
                      ..|..|-..|+...|...|.+.|+...+.. ..+......+.+.|++..+++.|..+.-..-+.. +.-...++..  --
T Consensus       493 paf~~LG~iYrd~~Dm~RA~kCf~KAFeLD-atdaeaaaa~adtyae~~~we~a~~I~l~~~qka-~a~~~k~nW~~rG~  570 (1238)
T KOG1127|consen  493 PAFAFLGQIYRDSDDMKRAKKCFDKAFELD-ATDAEAAAASADTYAEESTWEEAFEICLRAAQKA-PAFACKENWVQRGP  570 (1238)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhcCC-chhhhhHHHHHHHhhccccHHHHHHHHHHHhhhc-hHHHHHhhhhhccc
Confidence            367788888888888888888888877543 3455677889999999999999998833222211 1111122222  22


Q ss_pred             HHHhccchHHHHHHHHHhhc--CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhh--HHHHHHHHHHhchhH
Q 023915          144 ILISGKLLKDAYVVVKDNSE--SISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGI--FHIAIARYIAEREKK  219 (275)
Q Consensus       144 ~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~--y~~li~~~~~~~~~~  219 (275)
                      .|.+.++..+|..-|+....  ..+...+..+..+|.++|+...|.++|.....  +.|+...  |-.-+.- | ..|.+
T Consensus       571 yyLea~n~h~aV~~fQsALR~dPkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~--LrP~s~y~~fk~A~~e-c-d~GkY  646 (1238)
T KOG1127|consen  571 YYLEAHNLHGAVCEFQSALRTDPKDYNLWLGLGEAYPESGRYSHALKVFTKASL--LRPLSKYGRFKEAVME-C-DNGKY  646 (1238)
T ss_pred             cccCccchhhHHHHHHHHhcCCchhHHHHHHHHHHHHhcCceehHHHhhhhhHh--cCcHhHHHHHHHHHHH-H-HhhhH
Confidence            34567788888888877554  22333567788999999999999999987766  3465431  2211111 2 45777


Q ss_pred             HHHHHHHHHHh
Q 023915          220 ELLLKLLEWMT  230 (275)
Q Consensus       220 ~~a~~l~~~m~  230 (275)
                      .++...+....
T Consensus       647 keald~l~~ii  657 (1238)
T KOG1127|consen  647 KEALDALGLII  657 (1238)
T ss_pred             HHHHHHHHHHH
Confidence            77777777654

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.34  E-value=0.35  Score=37.60  Aligned_cols=142  Identities=10%  Similarity=0.038  Sum_probs=93.6

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHH----
Q 023915           68 FHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILH----  143 (275)
Q Consensus        68 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~----  143 (275)
                      .+.++..+.-.|.+.-...++.+.++..-+.++...+.|...-.+.|+.+.|...|+..++.....+...++.++.    
T Consensus       180 my~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a  259 (366)
T KOG2796|consen  180 MYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSA  259 (366)
T ss_pred             HHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhh
Confidence            3556666666778888888888888876667777888888888889999999999998877655555555555443    


Q ss_pred             -HHHhccchHHHHHHHHHhhcC-CChh-HHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHH
Q 023915          144 -ILISGKLLKDAYVVVKDNSES-ISHP-AIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIAR  211 (275)
Q Consensus       144 -~~~~~~~~~~a~~~~~~~~~~-~~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~  211 (275)
                       .+.-.+++..|...+.+.... +..+ ..|.=.-...-.|+..+|.+.+..|.+.  .|...+-++++--
T Consensus       260 ~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~--~P~~~l~es~~~n  328 (366)
T KOG2796|consen  260 FLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYLGKLKDALKQLEAMVQQ--DPRHYLHESVLFN  328 (366)
T ss_pred             hheecccchHHHHHHHhhccccCCCchhhhchHHHHHHHHHHHHHHHHHHHHHhcc--CCccchhhhHHHH
Confidence             333456777777777766552 2222 2232222223357788888888888774  4555555544433

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.28  E-value=0.38  Score=37.41  Aligned_cols=136  Identities=9%  Similarity=-0.032  Sum_probs=98.1

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHH---
Q 023915           32 LLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIF---  108 (275)
Q Consensus        32 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~---  108 (275)
                      +.+.++..+.-.|.+.-.+.++.+..+..-+.+......|.+.-.+.||.+.|...|++..+..-..|..+++.++.   
T Consensus       179 Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~  258 (366)
T KOG2796|consen  179 VMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNS  258 (366)
T ss_pred             HHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhh
Confidence            34667777777788888999999998876667777788888999999999999999998887655666666665544   


Q ss_pred             --HHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhcCCChh
Q 023915          109 --HLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSESISHP  168 (275)
Q Consensus       109 --~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~  168 (275)
                        .|.-.+++-.|...+.++...... +....|.---+..-.|+..+|++.++.+....+.+
T Consensus       259 a~i~lg~nn~a~a~r~~~~i~~~D~~-~~~a~NnKALcllYlg~l~DAiK~~e~~~~~~P~~  319 (366)
T KOG2796|consen  259 AFLHLGQNNFAEAHRFFTEILRMDPR-NAVANNNKALCLLYLGKLKDALKQLEAMVQQDPRH  319 (366)
T ss_pred             hhheecccchHHHHHHHhhccccCCC-chhhhchHHHHHHHHHHHHHHHHHHHHHhccCCcc
Confidence              344466777788888776654322 12223333333445789999999999998865555

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

Probab=96.17  E-value=0.48  Score=37.47  Aligned_cols=98  Identities=16%  Similarity=0.072  Sum_probs=55.5

Q ss_pred             cHHhHHHHHHHHHccCCHHHHHHHHHHHhh-cCCCCChhhHHHHHHHHH---ccCCHHHHHHHHHHHHHcCCCCCHHhHH
Q 023915           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDE-LAISPDYNTFHILIKYFC---KEKMYILAYRTMVDMHRKGHQPEEELCS  104 (275)
Q Consensus        29 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-~g~~p~~~t~~~li~~~~---~~~~~~~a~~~~~~m~~~g~~~~~~~~~  104 (275)
                      |...|-.|-.+|...|+++.|..-|....+ .|-.|+.  +..+..++.   ...+..++..+|+++.... +-|+.+..
T Consensus       155 d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~n~~~--~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D-~~~iral~  231 (287)
T COG4235         155 DAEGWDLLGRAYMALGRASDALLAYRNALRLAGDNPEI--LLGLAEALYYQAGQQMTAKARALLRQALALD-PANIRALS  231 (287)
T ss_pred             CchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCCCHHH--HHHHHHHHHHhcCCcccHHHHHHHHHHHhcC-CccHHHHH
Confidence            666677777777777777777777766655 2322222  222222222   2234455666676666542 23444555


Q ss_pred             HHHHHHhccCCHHHHHHHHHHHHhc
Q 023915          105 SLIFHLGKMRAHSEALSVYNMLRYS  129 (275)
Q Consensus       105 ~li~~~~~~g~~~~a~~~~~~m~~~  129 (275)
                      .|-..+...|++.+|...|+.|...
T Consensus       232 lLA~~afe~g~~~~A~~~Wq~lL~~  256 (287)
T COG4235         232 LLAFAAFEQGDYAEAAAAWQMLLDL  256 (287)
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHhc
Confidence            5666666677777777777766654

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=96.11  E-value=0.58  Score=37.89  Aligned_cols=220  Identities=12%  Similarity=0.040  Sum_probs=139.0

Q ss_pred             hhhhcCcHHHHHHHHHHHHhcCCCC--cHHhH------------HHHHHHHHccCCHHHHHHHHHHHhhcCCCC-ChhhH
Q 023915            4 AFCRGGCFEEAKQLAGDFEAKYDKY--DVVLL------------NSMLCAYCRTGDMESVMHVMRKLDELAISP-DYNTF   68 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~g~~p--~~~~~------------~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~t~   68 (275)
                      .+.+.|.+++|..=|+........-  +...+            -..+..+...|+...|+++...+.+  +.| |...|
T Consensus       115 vllK~Gele~A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llE--i~~Wda~l~  192 (504)
T KOG0624|consen  115 VLLKQGELEQAEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLE--IQPWDASLR  192 (504)
T ss_pred             hhhhcccHHHHHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHh--cCcchhHHH
Confidence            4678999999999999998764321  11111            2233456677899999999999887  445 55667


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhcccccc--HHhHHH---HH-
Q 023915           69 HILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMC--KALHEK---IL-  142 (275)
Q Consensus        69 ~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~--~~~~~~---li-  142 (275)
                      ..-..+|...|++..|+.=+....+.. .-+..++..+-..+-..|+.+.++...++-..-.+.-.  -..|-.   ++ 
T Consensus       193 ~~Rakc~i~~~e~k~AI~Dlk~askLs-~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKldpdHK~Cf~~YKklkKv~K  271 (504)
T KOG0624|consen  193 QARAKCYIAEGEPKKAIHDLKQASKLS-QDNTEGHYKISQLLYTVGDAENSLKEIRECLKLDPDHKLCFPFYKKLKKVVK  271 (504)
T ss_pred             HHHHHHHHhcCcHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHhhhhHHHHHHHHHHHHccCcchhhHHHHHHHHHHHHH
Confidence            777889999999999887776665543 34455677777788888999998888887664321110  012221   11 


Q ss_pred             -----HHHHhccchHHHHHHHHHhhc-CCChh--HH---HHHHHHHHhcCChhHHHHHHHHHHHcCCCCC-hhhHHHHHH
Q 023915          143 -----HILISGKLLKDAYVVVKDNSE-SISHP--AI---KKFASAFVRLGNINLVNDVMKAIHATGYRID-QGIFHIAIA  210 (275)
Q Consensus       143 -----~~~~~~~~~~~a~~~~~~~~~-~~~~~--~~---~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~y~~li~  210 (275)
                           ......++|.++++-.+...+ .+..+  .|   ..+-..+...+++.+|++.-.+..+  +.|| ..++---..
T Consensus       272 ~les~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~--~d~~dv~~l~dRAe  349 (504)
T KOG0624|consen  272 SLESAEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLD--IDPDDVQVLCDRAE  349 (504)
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHHHHHHHHh--cCchHHHHHHHHHH
Confidence                 123345667777766665443 34322  23   3445566667889999988887766  3465 555555555


Q ss_pred             HHHHhchhHHHHHHHHHHH
Q 023915          211 RYIAEREKKELLLKLLEWM  229 (275)
Q Consensus       211 ~~~~~~~~~~~a~~l~~~m  229 (275)
                      +|. -...+|.|..=|+..
T Consensus       350 A~l-~dE~YD~AI~dye~A  367 (504)
T KOG0624|consen  350 AYL-GDEMYDDAIHDYEKA  367 (504)
T ss_pred             HHh-hhHHHHHHHHHHHHH
Confidence            554 334455555544444

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.04  E-value=0.046  Score=33.43  Aligned_cols=53  Identities=19%  Similarity=0.243  Sum_probs=24.2

Q ss_pred             HHHccCCHHHHHHHHHHHhhcCCCCC-hhhHHHHHHHHHccCCHHHHHHHHHHHHH
Q 023915           39 AYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYILAYRTMVDMHR   93 (275)
Q Consensus        39 ~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~~a~~~~~~m~~   93 (275)
                      .|.+.+++++|.++++.+...  .|+ ...+...-..+.+.|+++.|...|+...+
T Consensus         4 ~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~   57 (73)
T PF13371_consen    4 IYLQQEDYEEALEVLERALEL--DPDDPELWLQRARCLFQLGRYEEALEDLERALE   57 (73)
T ss_pred             HHHhCCCHHHHHHHHHHHHHh--CcccchhhHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            344445555555555555442  122 22333444444455555555555555443

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=96.01  E-value=0.99  Score=39.76  Aligned_cols=204  Identities=11%  Similarity=0.049  Sum_probs=106.0

Q ss_pred             HHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcC----CCCChhhHHHHHHHHHccCCHHHHHHHH
Q 023915           13 EAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA----ISPDYNTFHILIKYFCKEKMYILAYRTM   88 (275)
Q Consensus        13 ~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g----~~p~~~t~~~li~~~~~~~~~~~a~~~~   88 (275)
                      +...-++++++.|-.|+.....   ..|+-.|++.+|-++|.+--..+    .-.|...|. ..+-+...|+.++-..+.
T Consensus       618 ~li~EL~~~k~rge~P~~iLlA---~~~Ay~gKF~EAAklFk~~G~enRAlEmyTDlRMFD-~aQE~~~~g~~~eKKmL~  693 (1081)
T KOG1538|consen  618 ELISELEERKKRGETPNDLLLA---DVFAYQGKFHEAAKLFKRSGHENRALEMYTDLRMFD-YAQEFLGSGDPKEKKMLI  693 (1081)
T ss_pred             HHHHHHHHHHhcCCCchHHHHH---HHHHhhhhHHHHHHHHHHcCchhhHHHHHHHHHHHH-HHHHHhhcCChHHHHHHH
Confidence            3444456777788888875432   34455677777777765532211    001111111 223344445544433333


Q ss_pred             HHHHH--cCC-CCCHHhHHHHHHHHhccCCHHHHHHHHHH-----HH-hcccccc---HHhHHHHHHHHHhccchHHHHH
Q 023915           89 VDMHR--KGH-QPEEELCSSLIFHLGKMRAHSEALSVYNM-----LR-YSKRSMC---KALHEKILHILISGKLLKDAYV  156 (275)
Q Consensus        89 ~~m~~--~g~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~-----m~-~~~~~~~---~~~~~~li~~~~~~~~~~~a~~  156 (275)
                      +.--+  ..+ +|.     +....+...|+.++|..+.-+     |. .-+...+   ..+...+-.-+.+...+..|-+
T Consensus       694 RKRA~WAr~~kePk-----aAAEmLiSaGe~~KAi~i~~d~gW~d~lidI~rkld~~ere~l~~~a~ylk~l~~~gLAae  768 (1081)
T KOG1538|consen  694 RKRADWARNIKEPK-----AAAEMLISAGEHVKAIEICGDHGWVDMLIDIARKLDKAEREPLLLCATYLKKLDSPGLAAE  768 (1081)
T ss_pred             HHHHHHhhhcCCcH-----HHHHHhhcccchhhhhhhhhcccHHHHHHHHHhhcchhhhhHHHHHHHHHhhccccchHHH
Confidence            32211  111 222     233444556777777655321     11 1112222   2233333344445666777888


Q ss_pred             HHHHhhcCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChh-----------hHHHHHHHHHHhchhHHHHHHH
Q 023915          157 VVKDNSESISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQG-----------IFHIAIARYIAEREKKELLLKL  225 (275)
Q Consensus       157 ~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~-----------~y~~li~~~~~~~~~~~~a~~l  225 (275)
                      +|.+|.+.      .+++..+...++|++|..+-+...+  +.||..           -|.-.-.+|- +.|+..+|..+
T Consensus       769 IF~k~gD~------ksiVqlHve~~~W~eAFalAe~hPe--~~~dVy~pyaqwLAE~DrFeEAqkAfh-kAGr~~EA~~v  839 (1081)
T KOG1538|consen  769 IFLKMGDL------KSLVQLHVETQRWDEAFALAEKHPE--FKDDVYMPYAQWLAENDRFEEAQKAFH-KAGRQREAVQV  839 (1081)
T ss_pred             HHHHhccH------HHHhhheeecccchHhHhhhhhCcc--ccccccchHHHHhhhhhhHHHHHHHHH-HhcchHHHHHH
Confidence            88776542      3566777888899998888776554  345543           2333444554 56777778888


Q ss_pred             HHHHhhCCC
Q 023915          226 LEWMTGQGY  234 (275)
Q Consensus       226 ~~~m~~~~~  234 (275)
                      ++++....+
T Consensus       840 LeQLtnnav  848 (1081)
T KOG1538|consen  840 LEQLTNNAV  848 (1081)
T ss_pred             HHHhhhhhh
Confidence            888765543

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.98  E-value=0.48  Score=42.66  Aligned_cols=177  Identities=10%  Similarity=0.078  Sum_probs=106.3

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHH----HHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHH
Q 023915           33 LNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILI----KYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIF  108 (275)
Q Consensus        33 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li----~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~  108 (275)
                      ...-|+.+++...++.|+.+-.   ..+..|+  +-..+.    +.+.+.|++++|..-|-+-... +.|     ..+|.
T Consensus       337 le~kL~iL~kK~ly~~Ai~LAk---~~~~d~d--~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~-----s~Vi~  405 (933)
T KOG2114|consen  337 LETKLDILFKKNLYKVAINLAK---SQHLDED--TLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEP-----SEVIK  405 (933)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHH---hcCCCHH--HHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CCh-----HHHHH
Confidence            4455666666667777776633   3333333  333333    3345678888887766665422 233     23666


Q ss_pred             HHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhcCCChhHHHHHHHHHHhcCChhHHHH
Q 023915          109 HLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSESISHPAIKKFASAFVRLGNINLVND  188 (275)
Q Consensus       109 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~  188 (275)
                      -|....+...-..+++.+-..|.... ..-..|+.+|.+.++.+.-.++.+........-.....+..+.+.+-.+.|..
T Consensus       406 kfLdaq~IknLt~YLe~L~~~gla~~-dhttlLLncYiKlkd~~kL~efI~~~~~g~~~fd~e~al~Ilr~snyl~~a~~  484 (933)
T KOG2114|consen  406 KFLDAQRIKNLTSYLEALHKKGLANS-DHTTLLLNCYIKLKDVEKLTEFISKCDKGEWFFDVETALEILRKSNYLDEAEL  484 (933)
T ss_pred             HhcCHHHHHHHHHHHHHHHHcccccc-hhHHHHHHHHHHhcchHHHHHHHhcCCCcceeeeHHHHHHHHHHhChHHHHHH
Confidence            66666777777777777776666543 34567888888888888877777765532222245667777777777777776


Q ss_pred             HHHHHHHcCCCCChhhHHHHHHHHHHhchhHHHHHHHHHHHh
Q 023915          189 VMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMT  230 (275)
Q Consensus       189 ~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~m~  230 (275)
                      +-.....     +......++.    ..+++++|.+.+..|.
T Consensus       485 LA~k~~~-----he~vl~ille----~~~ny~eAl~yi~slp  517 (933)
T KOG2114|consen  485 LATKFKK-----HEWVLDILLE----DLHNYEEALRYISSLP  517 (933)
T ss_pred             HHHHhcc-----CHHHHHHHHH----HhcCHHHHHHHHhcCC
Confidence            6543322     3334444443    3466777777776654

>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=95.96  E-value=0.019  Score=35.81  Aligned_cols=61  Identities=18%  Similarity=0.176  Sum_probs=38.3

Q ss_pred             hhHHHHHHHHHccCCHHHHHHHHHHHHHc----CC-CCC-HHhHHHHHHHHhccCCHHHHHHHHHHH
Q 023915           66 NTFHILIKYFCKEKMYILAYRTMVDMHRK----GH-QPE-EELCSSLIFHLGKMRAHSEALSVYNML  126 (275)
Q Consensus        66 ~t~~~li~~~~~~~~~~~a~~~~~~m~~~----g~-~~~-~~~~~~li~~~~~~g~~~~a~~~~~~m  126 (275)
                      .+|+.+-..|...|++++|+..|++..+.    |- .|+ ..++..+-..|...|++++|++.+++.
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            35667777777777777777777776632    11 122 345666666777777777777776654

...

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=95.80  E-value=1.1  Score=38.41  Aligned_cols=214  Identities=14%  Similarity=0.082  Sum_probs=113.3

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCC--Ch----hhHHHHHHHHH
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP--DY----NTFHILIKYFC   76 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p--~~----~t~~~li~~~~   76 (275)
                      ++.-+..++..|.+-++...+..  -+..-++..-.+|...|...++...-+.-.+.|-..  |.    ..+..+-.+|.
T Consensus       232 naaykkk~f~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre~rad~klIak~~~r~g~a~~  309 (539)
T KOG0548|consen  232 NAAYKKKDFETAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRELRADYKLIAKALARLGNAYT  309 (539)
T ss_pred             HHHHHhhhHHHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHHHHHHHHHHHHHHHHhhhhhh
Confidence            34456677888888888777654  355566777778888888877777766655554211  11    11222334666


Q ss_pred             ccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHH
Q 023915           77 KEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYV  156 (275)
Q Consensus        77 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~  156 (275)
                      +.++++.+...|.+....-..|+..         .+....+++++........+......... --..+.+.|++..|..
T Consensus       310 k~~~~~~ai~~~~kaLte~Rt~~~l---------s~lk~~Ek~~k~~e~~a~~~pe~A~e~r~-kGne~Fk~gdy~~Av~  379 (539)
T KOG0548|consen  310 KREDYEGAIKYYQKALTEHRTPDLL---------SKLKEAEKALKEAERKAYINPEKAEEERE-KGNEAFKKGDYPEAVK  379 (539)
T ss_pred             hHHhHHHHHHHHHHHhhhhcCHHHH---------HHHHHHHHHHHHHHHHHhhChhHHHHHHH-HHHHHHhccCHHHHHH
Confidence            7788888888888866544444431         12223333333333332222222111111 1334455666667766


Q ss_pred             HHHHhhcC-C-ChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCh-hhHHHHHHHHHHhchhHHHHHHHHHHHhh
Q 023915          157 VVKDNSES-I-SHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQ-GIFHIAIARYIAEREKKELLLKLLEWMTG  231 (275)
Q Consensus       157 ~~~~~~~~-~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~-~~y~~li~~~~~~~~~~~~a~~l~~~m~~  231 (275)
                      .+.++... + +...|..-.-+|.+.|.+..|..=-+...+.  .|+. ..|.-=..++ ....+++.|.+.|++-.+
T Consensus       380 ~YteAIkr~P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL--~p~~~kgy~RKg~al-~~mk~ydkAleay~eale  454 (539)
T KOG0548|consen  380 HYTEAIKRDPEDARLYSNRAACYLKLGEYPEALKDAKKCIEL--DPNFIKAYLRKGAAL-RAMKEYDKALEAYQEALE  454 (539)
T ss_pred             HHHHHHhcCCchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhc--CchHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHh
Confidence            66665442 2 2225666666666666666666655554443  2322 1222111122 133556666666665544

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=95.80  E-value=0.91  Score=38.20  Aligned_cols=148  Identities=15%  Similarity=0.201  Sum_probs=109.3

Q ss_pred             HHhHHHHHHHHHccCCHHHHHHHHHHHhhcC-CCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhH-HHHH
Q 023915           30 VVLLNSMLCAYCRTGDMESVMHVMRKLDELA-ISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELC-SSLI  107 (275)
Q Consensus        30 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g-~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~-~~li  107 (275)
                      ..+|...|....+..-.+.|..+|-+.++.| +.+++..+++.|..++. |+...|..+|+-=...  -||...| +..+
T Consensus       397 t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~~-~d~~ta~~ifelGl~~--f~d~~~y~~kyl  473 (660)
T COG5107         397 TFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYAT-GDRATAYNIFELGLLK--FPDSTLYKEKYL  473 (660)
T ss_pred             hhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHhc-CCcchHHHHHHHHHHh--CCCchHHHHHHH
Confidence            4568889999989999999999999999999 77999999999988775 5677788888763332  3555544 4577


Q ss_pred             HHHhccCCHHHHHHHHHHHHhc-cccccHHhHHHHHHHHHhccchHHHHHHHHHhhcCCCh-hHHHHHHHHHHhc
Q 023915          108 FHLGKMRAHSEALSVYNMLRYS-KRSMCKALHEKILHILISGKLLKDAYVVVKDNSESISH-PAIKKFASAFVRL  180 (275)
Q Consensus       108 ~~~~~~g~~~~a~~~~~~m~~~-~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~li~~~~~~  180 (275)
                      ..+.+.++-+.|..+|+.-... ...--...|..+|+-=..-|++..+..+=+.+....+. .+...+.+.|...
T Consensus       474 ~fLi~inde~naraLFetsv~r~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~~pQen~~evF~Sry~ik  548 (660)
T COG5107         474 LFLIRINDEENARALFETSVERLEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRELVPQENLIEVFTSRYAIK  548 (660)
T ss_pred             HHHHHhCcHHHHHHHHHHhHHHHHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHHcCcHhHHHHHHHHHhhh
Confidence            7888899999999999944322 11112348999999999999999888887777664333 3444555555443

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=95.78  E-value=1.1  Score=38.61  Aligned_cols=159  Identities=8%  Similarity=-0.043  Sum_probs=97.3

Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHcCCCCCH------HhHHHHHHHHhc----cCCHHHHHHHHHHHHhccccccHHhH
Q 023915           69 HILIKYFCKEKMYILAYRTMVDMHRKGHQPEE------ELCSSLIFHLGK----MRAHSEALSVYNMLRYSKRSMCKALH  138 (275)
Q Consensus        69 ~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~------~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~~~~~~~  138 (275)
                      ..+++..+-.||-+.+++.+.+-.+.+-.-.+      ..|..++..++.    ..+.+.|.++++.+...  .|+...|
T Consensus       192 ~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~--yP~s~lf  269 (468)
T PF10300_consen  192 LKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR--YPNSALF  269 (468)
T ss_pred             HHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh--CCCcHHH
Confidence            34455556678888888888876653322221      244555554443    35677788888888754  3344344


Q ss_pred             HH-HHHHHHhccchHHHHHHHHHhhc-CCChh-----HHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHH
Q 023915          139 EK-ILHILISGKLLKDAYVVVKDNSE-SISHP-----AIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIAR  211 (275)
Q Consensus       139 ~~-li~~~~~~~~~~~a~~~~~~~~~-~~~~~-----~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~  211 (275)
                      .. --+.+...|++++|++.|++... ...-+     .+--+.-.+...++|++|.+.|..+.+.+ ..+..+|.-+..+
T Consensus       270 l~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s-~WSka~Y~Y~~a~  348 (468)
T PF10300_consen  270 LFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKES-KWSKAFYAYLAAA  348 (468)
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcc-ccHHHHHHHHHHH
Confidence            33 22344567889999999986543 11111     22234556777889999999998888754 3345566666555


Q ss_pred             HHHhchhH-------HHHHHHHHHHh
Q 023915          212 YIAEREKK-------ELLLKLLEWMT  230 (275)
Q Consensus       212 ~~~~~~~~-------~~a~~l~~~m~  230 (275)
                      +....++.       ++|.++|.+..
T Consensus       349 c~~~l~~~~~~~~~~~~a~~l~~~vp  374 (468)
T PF10300_consen  349 CLLMLGREEEAKEHKKEAEELFRKVP  374 (468)
T ss_pred             HHHhhccchhhhhhHHHHHHHHHHHH
Confidence            54455655       77777777653

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.

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

Probab=95.76  E-value=0.26  Score=38.92  Aligned_cols=96  Identities=10%  Similarity=0.003  Sum_probs=71.3

Q ss_pred             HHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHH
Q 023915           75 FCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDA  154 (275)
Q Consensus        75 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a  154 (275)
                      ..+.+++.+|+..|.+.++.. +-|.+-|..=-.+|++.|.++.|.+=-+....-.... ...|..|=.+|...|++++|
T Consensus        91 ~m~~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~y-skay~RLG~A~~~~gk~~~A  168 (304)
T KOG0553|consen   91 LMKNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPHY-SKAYGRLGLAYLALGKYEEA  168 (304)
T ss_pred             HHHhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChHH-HHHHHHHHHHHHccCcHHHH
Confidence            567789999999999988752 3455666778889999999998887766555433332 34788888899999999999


Q ss_pred             HHHHHHhhc-CCChhHHHH
Q 023915          155 YVVVKDNSE-SISHPAIKK  172 (275)
Q Consensus       155 ~~~~~~~~~-~~~~~~~~~  172 (275)
                      ++-|++..+ .++..+|-.
T Consensus       169 ~~aykKaLeldP~Ne~~K~  187 (304)
T KOG0553|consen  169 IEAYKKALELDPDNESYKS  187 (304)
T ss_pred             HHHHHhhhccCCCcHHHHH
Confidence            999888666 555555543

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=95.76  E-value=1.1  Score=38.62  Aligned_cols=159  Identities=11%  Similarity=-0.013  Sum_probs=102.3

Q ss_pred             hhhhhhcCcHHHHHHHHHHHHhc-CCCC-----cHHhHHHHHHHHHcc----CCHHHHHHHHHHHhhcCCCCChhhHHHH
Q 023915            2 ISAFCRGGCFEEAKQLAGDFEAK-YDKY-----DVVLLNSMLCAYCRT----GDMESVMHVMRKLDELAISPDYNTFHIL   71 (275)
Q Consensus         2 i~~~~~~g~~~~a~~~~~~m~~~-g~~p-----~~~~~~~li~~~~~~----g~~~~a~~~~~~m~~~g~~p~~~t~~~l   71 (275)
                      ++..+=.||-+.+++++.+-.+. |+.-     -.-.|+.++..++..    .+.+.|.++++.+.+  --|+...|...
T Consensus       195 l~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~--~yP~s~lfl~~  272 (468)
T PF10300_consen  195 LSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLK--RYPNSALFLFF  272 (468)
T ss_pred             HhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHH--hCCCcHHHHHH
Confidence            45566678888888888876653 2321     123466666655543    467788899988877  34887777643


Q ss_pred             H-HHHHccCCHHHHHHHHHHHHHcC--C-CCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHH-H
Q 023915           72 I-KYFCKEKMYILAYRTMVDMHRKG--H-QPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHIL-I  146 (275)
Q Consensus        72 i-~~~~~~~~~~~a~~~~~~m~~~g--~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~-~  146 (275)
                      - +.+...|+++.|.+.|+......  . +.....+-.+...+.-.+++++|.+.|..+.+... -+..+|.-+..+| .
T Consensus       273 ~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s~-WSka~Y~Y~~a~c~~  351 (468)
T PF10300_consen  273 EGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKESK-WSKAFYAYLAAACLL  351 (468)
T ss_pred             HHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhccc-cHHHHHHHHHHHHHH
Confidence            3 45667799999999999765321  1 22334566677778888999999999998876422 1333444333332 2


Q ss_pred             hccch-------HHHHHHHHHhhc
Q 023915          147 SGKLL-------KDAYVVVKDNSE  163 (275)
Q Consensus       147 ~~~~~-------~~a~~~~~~~~~  163 (275)
                      ..++.       ++|.++|++...
T Consensus       352 ~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  352 MLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             hhccchhhhhhHHHHHHHHHHHHH
Confidence            45555       777888877543

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.

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=95.65  E-value=0.56  Score=40.00  Aligned_cols=104  Identities=10%  Similarity=0.020  Sum_probs=50.1

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHh
Q 023915           68 FHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILIS  147 (275)
Q Consensus        68 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~  147 (275)
                      .+.++..+-+.|..+.|+++-.+-..            -.+...+.|+++.|.++-++..      ++..|..|-+....
T Consensus       298 ~~~i~~fL~~~G~~e~AL~~~~D~~~------------rFeLAl~lg~L~~A~~~a~~~~------~~~~W~~Lg~~AL~  359 (443)
T PF04053_consen  298 GQSIARFLEKKGYPELALQFVTDPDH------------RFELALQLGNLDIALEIAKELD------DPEKWKQLGDEALR  359 (443)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHSS-HHH------------HHHHHHHCT-HHHHHHHCCCCS------THHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHhhcCChHH------------HhHHHHhcCCHHHHHHHHHhcC------cHHHHHHHHHHHHH
Confidence            45555555555655555554433211            1222334555555555433321      33455555555556


Q ss_pred             ccchHHHHHHHHHhhcCCChhHHHHHHHHHHhcCChhHHHHHHHHHHH
Q 023915          148 GKLLKDAYVVVKDNSESISHPAIKKFASAFVRLGNINLVNDVMKAIHA  195 (275)
Q Consensus       148 ~~~~~~a~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  195 (275)
                      .|+++-|.+.+.+..      .+..|+-.|...|+.+...++.+....
T Consensus       360 ~g~~~lAe~c~~k~~------d~~~L~lLy~~~g~~~~L~kl~~~a~~  401 (443)
T PF04053_consen  360 QGNIELAEECYQKAK------DFSGLLLLYSSTGDREKLSKLAKIAEE  401 (443)
T ss_dssp             TTBHHHHHHHHHHCT-------HHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHhhc------CccccHHHHHHhCCHHHHHHHHHHHHH
Confidence            666666665555522      345555555556665555555554444

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.

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=95.59  E-value=1.3  Score=37.92  Aligned_cols=89  Identities=20%  Similarity=0.171  Sum_probs=71.8

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCh-hhHHHHHHHHHccCCH
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDY-NTFHILIKYFCKEKMY   81 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-~t~~~li~~~~~~~~~   81 (275)
                      ++.+..|+++.|...|.+.....+. |.+.|+.=..+|++.|++++|++=-.+-++  +.|+- ..|+-.-.++.-.|++
T Consensus        10 naa~s~~d~~~ai~~~t~ai~l~p~-nhvlySnrsaa~a~~~~~~~al~da~k~~~--l~p~w~kgy~r~Gaa~~~lg~~   86 (539)
T KOG0548|consen   10 NAAFSSGDFETAIRLFTEAIMLSPT-NHVLYSNRSAAYASLGSYEKALKDATKTRR--LNPDWAKGYSRKGAALFGLGDY   86 (539)
T ss_pred             HhhcccccHHHHHHHHHHHHccCCC-ccchhcchHHHHHHHhhHHHHHHHHHHHHh--cCCchhhHHHHhHHHHHhcccH
Confidence            3567889999999999999876555 888999999999999999999876555554  66774 4688888888888999


Q ss_pred             HHHHHHHHHHHHc
Q 023915           82 ILAYRTMVDMHRK   94 (275)
Q Consensus        82 ~~a~~~~~~m~~~   94 (275)
                      +.|+..|.+=++.
T Consensus        87 ~eA~~ay~~GL~~   99 (539)
T KOG0548|consen   87 EEAILAYSEGLEK   99 (539)
T ss_pred             HHHHHHHHHHhhc
Confidence            9998888775543

>PRK15331 chaperone protein SicA; Provisional

Probab=95.45  E-value=0.26  Score=35.45  Aligned_cols=88  Identities=10%  Similarity=-0.064  Sum_probs=62.3

Q ss_pred             HHHccCCHHHHHHHHHHHhhcCCCCChhh-HHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHH
Q 023915           39 AYCRTGDMESVMHVMRKLDELAISPDYNT-FHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHS  117 (275)
Q Consensus        39 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~t-~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~  117 (275)
                      .+-..|++++|..+|.-+.--+  |...- |..|-..+-..+++++|..+|...-..+. -|+..+-..-.+|...|+.+
T Consensus        46 ~~y~~Gk~~eA~~~F~~L~~~d--~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~-~dp~p~f~agqC~l~l~~~~  122 (165)
T PRK15331         46 EFYNQGRLDEAETFFRFLCIYD--FYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLK-NDYRPVFFTGQCQLLMRKAA  122 (165)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhC--cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc-CCCCccchHHHHHHHhCCHH
Confidence            3457789999999988887633  33333 34555556666889999998888766542 34445666778888889999


Q ss_pred             HHHHHHHHHHhc
Q 023915          118 EALSVYNMLRYS  129 (275)
Q Consensus       118 ~a~~~~~~m~~~  129 (275)
                      .|...|......
T Consensus       123 ~A~~~f~~a~~~  134 (165)
T PRK15331        123 KARQCFELVNER  134 (165)
T ss_pred             HHHHHHHHHHhC
Confidence            999988887763

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=95.39  E-value=1.1  Score=35.99  Aligned_cols=149  Identities=9%  Similarity=0.081  Sum_probs=86.6

Q ss_pred             HHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhc--cC----CHHHHHHHHHHHHhcccccc---HHhHHHHHHHHHhccc-
Q 023915           81 YILAYRTMVDMHRKGHQPEEELCSSLIFHLGK--MR----AHSEALSVYNMLRYSKRSMC---KALHEKILHILISGKL-  150 (275)
Q Consensus        81 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~--~g----~~~~a~~~~~~m~~~~~~~~---~~~~~~li~~~~~~~~-  150 (275)
                      ++..+.+++.|.+.|+.-+..+|-+.......  ..    ...+|..+|+.|.+.++-.+   ...+..++..  ...+ 
T Consensus        78 ~~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~~  155 (297)
T PF13170_consen   78 FKEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSEDV  155 (297)
T ss_pred             HHHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--ccccH
Confidence            44567899999999999988777663333322  22    35679999999998765433   2344445433  2222 


Q ss_pred             ---hHHHHHHHHHhhcCC----ChhHH-HHHHHHHHhcC--ChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhchh--
Q 023915          151 ---LKDAYVVVKDNSESI----SHPAI-KKFASAFVRLG--NINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREK--  218 (275)
Q Consensus       151 ---~~~a~~~~~~~~~~~----~~~~~-~~li~~~~~~~--~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~--  218 (275)
                         .+.++.+++.+.+.+    +.-.+ ..++..+....  ...++.++++.+.+.|+++....|..+--.-....+.  
T Consensus       156 e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lGlLall~~~~~~  235 (297)
T PF13170_consen  156 EELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLGLLALLEDPEEK  235 (297)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHHHHHhcCCchHH
Confidence               345566666666522    22122 22222222222  2458889999999999998888777543221112222  


Q ss_pred             -HHHHHHHHHHHhh
Q 023915          219 -KELLLKLLEWMTG  231 (275)
Q Consensus       219 -~~~a~~l~~~m~~  231 (275)
                       .+...++.+.+.+
T Consensus       236 ~~~~i~ev~~~L~~  249 (297)
T PF13170_consen  236 IVEEIKEVIDELKE  249 (297)
T ss_pred             HHHHHHHHHHHHhh
Confidence             4455566666644

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=95.21  E-value=2.6  Score=39.16  Aligned_cols=179  Identities=11%  Similarity=-0.048  Sum_probs=105.1

Q ss_pred             HHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCC-ChhhHHHHHHHHHccCCHHHHHHHHH
Q 023915           11 FEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP-DYNTFHILIKYFCKEKMYILAYRTMV   89 (275)
Q Consensus        11 ~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~t~~~li~~~~~~~~~~~a~~~~~   89 (275)
                      ...|+..|-...+.... =...|..|-..|+...+...|...|+...+  +.| |......+.+.|++..+++.|....-
T Consensus       474 ~~~al~ali~alrld~~-~apaf~~LG~iYrd~~Dm~RA~kCf~KAFe--LDatdaeaaaa~adtyae~~~we~a~~I~l  550 (1238)
T KOG1127|consen  474 SALALHALIRALRLDVS-LAPAFAFLGQIYRDSDDMKRAKKCFDKAFE--LDATDAEAAAASADTYAEESTWEEAFEICL  550 (1238)
T ss_pred             HHHHHHHHHHHHhcccc-hhHHHHHHHHHHHHHHHHHHHHHHHHHHhc--CCchhhhhHHHHHHHhhccccHHHHHHHHH
Confidence            44455554444433221 235678888888777777788888888766  333 34456778888888888888887722


Q ss_pred             HHHHcCCCCCH---HhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhcCCC
Q 023915           90 DMHRKGHQPEE---ELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSESIS  166 (275)
Q Consensus        90 ~m~~~g~~~~~---~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~  166 (275)
                      ..  ....|-.   ..|-..--.|...++...+..-|+......+. +-..|..+.++|...|++..|.++|.+...-.+
T Consensus       551 ~~--~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~dPk-D~n~W~gLGeAY~~sGry~~AlKvF~kAs~LrP  627 (1238)
T KOG1127|consen  551 RA--AQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTDPK-DYNLWLGLGEAYPESGRYSHALKVFTKASLLRP  627 (1238)
T ss_pred             HH--hhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcCCch-hHHHHHHHHHHHHhcCceehHHHhhhhhHhcCc
Confidence            22  1111211   11222333455667777777766665433222 344667777788888888888888777655444


Q ss_pred             hhHHHHHHH--HHHhcCChhHHHHHHHHHHH
Q 023915          167 HPAIKKFAS--AFVRLGNINLVNDVMKAIHA  195 (275)
Q Consensus       167 ~~~~~~li~--~~~~~~~~~~a~~~~~~m~~  195 (275)
                      ...|..+-.  ..+..|.+.++...+.....
T Consensus       628 ~s~y~~fk~A~~ecd~GkYkeald~l~~ii~  658 (1238)
T KOG1127|consen  628 LSKYGRFKEAVMECDNGKYKEALDALGLIIY  658 (1238)
T ss_pred             HhHHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            445544332  23455666666666655443

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=95.04  E-value=0.99  Score=33.32  Aligned_cols=101  Identities=14%  Similarity=0.028  Sum_probs=69.6

Q ss_pred             CCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhcC----CChhHHH
Q 023915           96 HQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSES----ISHPAIK  171 (275)
Q Consensus        96 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~  171 (275)
                      .-|++..--.|-.+....|+..+|...|++-......-+......+-++....++...|...++++.+.    .+|++--
T Consensus        85 ~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~L  164 (251)
T COG4700          85 IAPTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGHL  164 (251)
T ss_pred             hchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCchH
Confidence            456666666677777777777777777777766555556666666667777777777777777776552    2333455


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHc
Q 023915          172 KFASAFVRLGNINLVNDVMKAIHAT  196 (275)
Q Consensus       172 ~li~~~~~~~~~~~a~~~~~~m~~~  196 (275)
                      .+.+.|...|+..+|+.-|+.....
T Consensus       165 l~aR~laa~g~~a~Aesafe~a~~~  189 (251)
T COG4700         165 LFARTLAAQGKYADAESAFEVAISY  189 (251)
T ss_pred             HHHHHHHhcCCchhHHHHHHHHHHh
Confidence            6667788888888888888777664

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=94.93  E-value=1.2  Score=33.67  Aligned_cols=168  Identities=10%  Similarity=0.009  Sum_probs=94.1

Q ss_pred             HHHHHccCCHHHHHHHHHHHHHcCCC--CCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhcc
Q 023915           72 IKYFCKEKMYILAYRTMVDMHRKGHQ--PEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGK  149 (275)
Q Consensus        72 i~~~~~~~~~~~a~~~~~~m~~~g~~--~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~  149 (275)
                      ...+...|+++.|...|+.+...--.  .-....-.+..++.+.|+++.|...++.+....+.-...-+...+.+.+...
T Consensus        12 a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~A~Y~~g~~~~~   91 (203)
T PF13525_consen   12 ALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALYMLGLSYYK   91 (203)
T ss_dssp             HHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHHH
Confidence            34467789999999999999875321  2234566788899999999999999999887544333333444444433222


Q ss_pred             ch-------------HHHHHHHHHhhcCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhc
Q 023915          150 LL-------------KDAYVVVKDNSESISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAER  216 (275)
Q Consensus       150 ~~-------------~~a~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~  216 (275)
                      ..             .+|..            .+..++.-|-.+....+|...+..+.+.   .-..-+. +..-|. +.
T Consensus        92 ~~~~~~~~~~D~~~~~~A~~------------~~~~li~~yP~S~y~~~A~~~l~~l~~~---la~~e~~-ia~~Y~-~~  154 (203)
T PF13525_consen   92 QIPGILRSDRDQTSTRKAIE------------EFEELIKRYPNSEYAEEAKKRLAELRNR---LAEHELY-IARFYY-KR  154 (203)
T ss_dssp             HHHHHH-TT---HHHHHHHH------------HHHHHHHH-TTSTTHHHHHHHHHHHHHH---HHHHHHH-HHHHHH-CT
T ss_pred             hCccchhcccChHHHHHHHH------------HHHHHHHHCcCchHHHHHHHHHHHHHHH---HHHHHHH-HHHHHH-Hc
Confidence            21             22222            3445555555556666666655555441   1112222 233344 56


Q ss_pred             hhHHHHHHHHHHHhhC--CCCCChhhHHHHHHHHHHhhHHHH
Q 023915          217 EKKELLLKLLEWMTGQ--GYVVDSSTRNLILKNSHLFGRQLI  256 (275)
Q Consensus       217 ~~~~~a~~l~~~m~~~--~~~p~~~t~~~li~~~~~~g~~~~  256 (275)
                      |.+..|..-++.+.+.  +.+-.....-.+++++.+.|....
T Consensus       155 ~~y~aA~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~  196 (203)
T PF13525_consen  155 GKYKAAIIRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQA  196 (203)
T ss_dssp             T-HHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHH
T ss_pred             ccHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHH
Confidence            7777787777777664  111123455667777777775443

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=94.86  E-value=0.79  Score=38.68  Aligned_cols=64  Identities=6%  Similarity=-0.155  Sum_probs=51.6

Q ss_pred             ChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCH----HhHHHHHHHHhccCCHHHHHHHHHHHHhc
Q 023915           64 DYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEE----ELCSSLIFHLGKMRAHSEALSVYNMLRYS  129 (275)
Q Consensus        64 ~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~----~~~~~li~~~~~~g~~~~a~~~~~~m~~~  129 (275)
                      +...++.+-.+|.+.|++++|+..|++.++.  .|+.    .+|..+-.+|.+.|+.++|...++.....
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALeL--~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALEL--NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            3457888888999999999999999987765  4653    35888888999999999999998887653

>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=94.83  E-value=0.4  Score=40.85  Aligned_cols=156  Identities=14%  Similarity=0.007  Sum_probs=98.1

Q ss_pred             hhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHH
Q 023915            5 FCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILA   84 (275)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a   84 (275)
                      ..-.|+++.+.+....=.-- ...+..-.+.+++-+-+.|..+.|+++-.+-.            .-.....+.|+++.|
T Consensus       271 av~~~d~~~v~~~i~~~~ll-~~i~~~~~~~i~~fL~~~G~~e~AL~~~~D~~------------~rFeLAl~lg~L~~A  337 (443)
T PF04053_consen  271 AVLRGDFEEVLRMIAASNLL-PNIPKDQGQSIARFLEKKGYPELALQFVTDPD------------HRFELALQLGNLDIA  337 (443)
T ss_dssp             HHHTT-HHH-----HHHHTG-GG--HHHHHHHHHHHHHTT-HHHHHHHSS-HH------------HHHHHHHHCT-HHHH
T ss_pred             HHHcCChhhhhhhhhhhhhc-ccCChhHHHHHHHHHHHCCCHHHHHhhcCChH------------HHhHHHHhcCCHHHH
Confidence            45578888877776411111 11235568999999999999999998864422            223445678888887


Q ss_pred             HHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhcC
Q 023915           85 YRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSES  164 (275)
Q Consensus        85 ~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  164 (275)
                      .+..++      ..+...|..|-+...+.|+++-|.+.|+...         -|..++--|...|+.+.-.++.+.....
T Consensus       338 ~~~a~~------~~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~---------d~~~L~lLy~~~g~~~~L~kl~~~a~~~  402 (443)
T PF04053_consen  338 LEIAKE------LDDPEKWKQLGDEALRQGNIELAEECYQKAK---------DFSGLLLLYSSTGDREKLSKLAKIAEER  402 (443)
T ss_dssp             HHHCCC------CSTHHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHT
T ss_pred             HHHHHh------cCcHHHHHHHHHHHHHcCCHHHHHHHHHhhc---------CccccHHHHHHhCCHHHHHHHHHHHHHc
Confidence            765544      3466788999999999999999998888754         4677777788888877766666655444


Q ss_pred             CChhHHHHHHHHHHhcCChhHHHHHHH
Q 023915          165 ISHPAIKKFASAFVRLGNINLVNDVMK  191 (275)
Q Consensus       165 ~~~~~~~~li~~~~~~~~~~~a~~~~~  191 (275)
                      +.   +|....++.-.|+.++..+++.
T Consensus       403 ~~---~n~af~~~~~lgd~~~cv~lL~  426 (443)
T PF04053_consen  403 GD---INIAFQAALLLGDVEECVDLLI  426 (443)
T ss_dssp             T----HHHHHHHHHHHT-HHHHHHHHH
T ss_pred             cC---HHHHHHHHHHcCCHHHHHHHHH
Confidence            33   5555666666788887777754

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.

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.83  E-value=0.48  Score=37.82  Aligned_cols=104  Identities=14%  Similarity=0.083  Sum_probs=78.7

Q ss_pred             cCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhc---CCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCH
Q 023915           24 KYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDEL---AISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEE  100 (275)
Q Consensus        24 ~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~---g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~  100 (275)
                      .|...+..+-..++..-....+++++...+-.++..   ...|+... .++++-+.+ -+++.++.++..=.+.|+-||.
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            355667778888888888888999999988777754   13333322 233333333 4677899999999999999999


Q ss_pred             HhHHHHHHHHhccCCHHHHHHHHHHHHhc
Q 023915          101 ELCSSLIFHLGKMRAHSEALSVYNMLRYS  129 (275)
Q Consensus       101 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~  129 (275)
                      .+++.+|+.+.+.++...|.++.-.|...
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            99999999999999999998887766543

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=94.81  E-value=2.9  Score=37.59  Aligned_cols=68  Identities=12%  Similarity=0.025  Sum_probs=38.7

Q ss_pred             CCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHh
Q 023915           60 AISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRY  128 (275)
Q Consensus        60 g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  128 (275)
                      .+.-|...|..+--+..+.|+++.+-+.|++.... ..-....|..+-..|..+|....|..+++.-..
T Consensus       318 ~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~-~~~~~e~w~~~als~saag~~s~Av~ll~~~~~  385 (799)
T KOG4162|consen  318 KFQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPF-SFGEHERWYQLALSYSAAGSDSKAVNLLRESLK  385 (799)
T ss_pred             hhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHh-hhhhHHHHHHHHHHHHHhccchHHHHHHHhhcc
Confidence            34445556666666666666666666666665432 223334555666666666666666666665443

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=94.73  E-value=0.91  Score=31.42  Aligned_cols=138  Identities=7%  Similarity=0.050  Sum_probs=80.5

Q ss_pred             ccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhc-cccccHHhHHHHHHHHHhccchHHHH
Q 023915           77 KEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYS-KRSMCKALHEKILHILISGKLLKDAY  155 (275)
Q Consensus        77 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~~~~~~~~~li~~~~~~~~~~~a~  155 (275)
                      -.|..++..++..+....   .+..-||.+|--....-+.+-..++++.+-.. .+.+.. -.-.++..|+..+      
T Consensus        14 ldG~V~qGveii~k~v~S---sni~E~NWvICNiiDaa~C~yvv~~LdsIGkiFDis~C~-NlKrVi~C~~~~n------   83 (161)
T PF09205_consen   14 LDGDVKQGVEIIEKTVNS---SNIKEYNWVICNIIDAADCDYVVETLDSIGKIFDISKCG-NLKRVIECYAKRN------   83 (161)
T ss_dssp             HTT-HHHHHHHHHHHHHH---S-HHHHTHHHHHHHHH--HHHHHHHHHHHGGGS-GGG-S--THHHHHHHHHTT------
T ss_pred             HhchHHHHHHHHHHHcCc---CCccccceeeeecchhhchhHHHHHHHHHhhhcCchhhc-chHHHHHHHHHhc------
Confidence            346666667777776643   34455666666666666666666666665322 111110 1122333333332      


Q ss_pred             HHHHHhhcCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhchhHHHHHHHHHHHhhCCCC
Q 023915          156 VVVKDNSESISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTGQGYV  235 (275)
Q Consensus       156 ~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~~~~  235 (275)
                               .....++..+..+...|+-+...++++++.. +-.|++...-.+-.+|- +.|...++.+++.+.-+.|++
T Consensus        84 ---------~~se~vD~ALd~lv~~~kkDqLdki~~~l~k-n~~~~p~~L~kia~Ay~-klg~~r~~~ell~~ACekG~k  152 (161)
T PF09205_consen   84 ---------KLSEYVDLALDILVKQGKKDQLDKIYNELKK-NEEINPEFLVKIANAYK-KLGNTREANELLKEACEKGLK  152 (161)
T ss_dssp             ------------HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHH-HTT-HHHHHHHHHHHHHTT-H
T ss_pred             ---------chHHHHHHHHHHHHHhccHHHHHHHHHHHhh-ccCCCHHHHHHHHHHHH-HhcchhhHHHHHHHHHHhchH
Confidence                     2233556778889999999999999999875 33677777788888885 889999999999999998874

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=94.68  E-value=1.3  Score=32.80  Aligned_cols=153  Identities=16%  Similarity=0.039  Sum_probs=105.3

Q ss_pred             HHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCH
Q 023915           37 LCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAH  116 (275)
Q Consensus        37 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~  116 (275)
                      ..+..+.-+++...+-..+-  -...|+...--.|..+....|+..+|...|++....-+--|....-.+.++....+++
T Consensus        63 ~~a~~q~ldP~R~~Rea~~~--~~~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~  140 (251)
T COG4700          63 LMALQQKLDPERHLREATEE--LAIAPTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEF  140 (251)
T ss_pred             HHHHHHhcChhHHHHHHHHH--HhhchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccH
Confidence            33344444444443322222  2356888777788999999999999999999988654566777788888888889999


Q ss_pred             HHHHHHHHHHHhcc---ccccHHhHHHHHHHHHhccchHHHHHHHHHhhcCC-ChhHHHHHHHHHHhcCChhHHHHHHHH
Q 023915          117 SEALSVYNMLRYSK---RSMCKALHEKILHILISGKLLKDAYVVVKDNSESI-SHPAIKKFASAFVRLGNINLVNDVMKA  192 (275)
Q Consensus       117 ~~a~~~~~~m~~~~---~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~  192 (275)
                      -.|...++.+.+.+   ..|+  +...+-+.+...|...+|..-|+.....- .+..-.-.-..+.+.|+.+++..-+..
T Consensus       141 A~a~~tLe~l~e~~pa~r~pd--~~Ll~aR~laa~g~~a~Aesafe~a~~~ypg~~ar~~Y~e~La~qgr~~ea~aq~~~  218 (251)
T COG4700         141 AAAQQTLEDLMEYNPAFRSPD--GHLLFARTLAAQGKYADAESAFEVAISYYPGPQARIYYAEMLAKQGRLREANAQYVA  218 (251)
T ss_pred             HHHHHHHHHHhhcCCccCCCC--chHHHHHHHHhcCCchhHHHHHHHHHHhCCCHHHHHHHHHHHHHhcchhHHHHHHHH
Confidence            99999999877653   3333  45667788889999999999998877633 333333334556677766665554444


Q ss_pred             H
Q 023915          193 I  193 (275)
Q Consensus       193 m  193 (275)
                      +
T Consensus       219 v  219 (251)
T COG4700         219 V  219 (251)
T ss_pred             H
Confidence            3

>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=94.62  E-value=0.8  Score=33.74  Aligned_cols=60  Identities=13%  Similarity=0.104  Sum_probs=30.4

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCH--HhHHHHHHHHhccCCHHHHHHHHHHH
Q 023915           67 TFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEE--ELCSSLIFHLGKMRAHSEALSVYNML  126 (275)
Q Consensus        67 t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~--~~~~~li~~~~~~g~~~~a~~~~~~m  126 (275)
                      .+..+...|.+.|+.+.|++.|.++++....|..  ..+-.+|....-.+++..+.......
T Consensus        38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka   99 (177)
T PF10602_consen   38 ALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKA   99 (177)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            3445555555555555555555555554333322  23444555555555555555554443

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.

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=94.42  E-value=0.37  Score=38.11  Aligned_cols=83  Identities=19%  Similarity=0.199  Sum_probs=67.5

Q ss_pred             cHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHH-----cCCCCCHHhH
Q 023915           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHR-----KGHQPEEELC  103 (275)
Q Consensus        29 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~-----~g~~~~~~~~  103 (275)
                      -..++..++..+...|+++.+.+.++++.... +-|...|..+|.+|.+.|+...|+..|+++.+     .|+.|...+.
T Consensus       152 ~~~~l~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~  230 (280)
T COG3629         152 FIKALTKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELR  230 (280)
T ss_pred             HHHHHHHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHH
Confidence            34578889999999999999999999988742 24667899999999999999999999988864     6899988887


Q ss_pred             HHHHHHHhc
Q 023915          104 SSLIFHLGK  112 (275)
Q Consensus       104 ~~li~~~~~  112 (275)
                      ........+
T Consensus       231 ~~y~~~~~~  239 (280)
T COG3629         231 ALYEEILRQ  239 (280)
T ss_pred             HHHHHHhcc
Confidence            777776443

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=94.35  E-value=2.3  Score=35.25  Aligned_cols=121  Identities=17%  Similarity=0.062  Sum_probs=78.3

Q ss_pred             HHhccCCHHHHHHHHHHHHhc--------------cccccHHhHHHHHHHHHhccchHHHHHHHHHhhcCCChh--HHHH
Q 023915          109 HLGKMRAHSEALSVYNMLRYS--------------KRSMCKALHEKILHILISGKLLKDAYVVVKDNSESISHP--AIKK  172 (275)
Q Consensus       109 ~~~~~g~~~~a~~~~~~m~~~--------------~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~  172 (275)
                      .|.+.|++..|..-|+.....              -..+-..+++.+.-++.+.+++..|+..........+..  ..--
T Consensus       217 ~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~N~KALyR  296 (397)
T KOG0543|consen  217 VLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELDPNNVKALYR  296 (397)
T ss_pred             HHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcCCCchhHHHH
Confidence            455666666666666553321              111223367778888889999999988888766532222  2223


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhc-hhHHHHHHHHHHHhh
Q 023915          173 FASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAER-EKKELLLKLLEWMTG  231 (275)
Q Consensus       173 li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~-~~~~~a~~l~~~m~~  231 (275)
                      =-.+|...|+++.|...|+.+++  +.|+....+.=|..+..+. ...+...++|..|-.
T Consensus       297 rG~A~l~~~e~~~A~~df~ka~k--~~P~Nka~~~el~~l~~k~~~~~~kekk~y~~mF~  354 (397)
T KOG0543|consen  297 RGQALLALGEYDLARDDFQKALK--LEPSNKAARAELIKLKQKIREYEEKEKKMYANMFA  354 (397)
T ss_pred             HHHHHHhhccHHHHHHHHHHHHH--hCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            34678888999999999999988  4687776666555544332 334445778888854

>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=94.32  E-value=0.0016  Score=46.13  Aligned_cols=52  Identities=10%  Similarity=0.042  Sum_probs=21.4

Q ss_pred             HHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHH
Q 023915           73 KYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYN  124 (275)
Q Consensus        73 ~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~  124 (275)
                      +.+.+.+.++....+++.+...+...+....+.++..|++.++.++..++++
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            3333444444444444444443333334444444444444444444444433

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.

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=94.31  E-value=2.6  Score=34.96  Aligned_cols=162  Identities=9%  Similarity=-0.042  Sum_probs=99.7

Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHcC---CCCCHHhHHHHHHHHhc---cCCHHHHHHHHHHHHhccccccHHhHHHHH
Q 023915           69 HILIKYFCKEKMYILAYRTMVDMHRKG---HQPEEELCSSLIFHLGK---MRAHSEALSVYNMLRYSKRSMCKALHEKIL  142 (275)
Q Consensus        69 ~~li~~~~~~~~~~~a~~~~~~m~~~g---~~~~~~~~~~li~~~~~---~g~~~~a~~~~~~m~~~~~~~~~~~~~~li  142 (275)
                      ..++-+|....+++...++.+.+...-   +.-....-.....|+.+   .|+.++|+.++..+......+++.+|..+-
T Consensus       145 ~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL~G  224 (374)
T PF13281_consen  145 INLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGLLG  224 (374)
T ss_pred             HHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHHHH
Confidence            355557889999999999999998641   11122233345556667   899999999999977777777777887766


Q ss_pred             HHHHh---------ccchHHHHHHHHHhhcCCChhHH---HHHHHHHHhcCChh---HHHHHH---H-HHHHcCCC---C
Q 023915          143 HILIS---------GKLLKDAYVVVKDNSESISHPAI---KKFASAFVRLGNIN---LVNDVM---K-AIHATGYR---I  200 (275)
Q Consensus       143 ~~~~~---------~~~~~~a~~~~~~~~~~~~~~~~---~~li~~~~~~~~~~---~a~~~~---~-~m~~~g~~---p  200 (275)
                      ..|-.         ...++.|+..|++--... +..|   |...-......+++   +..++-   . .+.+.|..   .
T Consensus       225 RIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~~-~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~~~~  303 (374)
T PF13281_consen  225 RIYKDLFLESNFTDRESLDKAIEWYRKGFEIE-PDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLEKMQ  303 (374)
T ss_pred             HHHHHHHHHcCccchHHHHHHHHHHHHHHcCC-ccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhccccccc
Confidence            65542         224777888888754422 3322   22222222222222   222222   1 12223332   3


Q ss_pred             ChhhHHHHHHHHHHhchhHHHHHHHHHHHhhC
Q 023915          201 DQGIFHIAIARYIAEREKKELLLKLLEWMTGQ  232 (275)
Q Consensus       201 ~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~  232 (275)
                      |-.-+.+++.+.+ -.|+.++|.+..+.|...
T Consensus       304 dYWd~ATl~Ea~v-L~~d~~ka~~a~e~~~~l  334 (374)
T PF13281_consen  304 DYWDVATLLEASV-LAGDYEKAIQAAEKAFKL  334 (374)
T ss_pred             cHHHHHHHHHHHH-HcCCHHHHHHHHHHHhhc
Confidence            3345566777766 678999999999999876

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=94.14  E-value=1.4  Score=31.12  Aligned_cols=47  Identities=11%  Similarity=0.196  Sum_probs=21.6

Q ss_pred             hHHHHHHHHhccCC-HHHHHHHHHHHHhccccccHHhHHHHHHHHHhc
Q 023915          102 LCSSLIFHLGKMRA-HSEALSVYNMLRYSKRSMCKALHEKILHILISG  148 (275)
Q Consensus       102 ~~~~li~~~~~~g~-~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~  148 (275)
                      .|..++.+..+..- .-.+..+|+-|++.+.++++.-|..++.++.+.
T Consensus        81 sf~~if~SlsnSsSaK~~~~~Lf~~Lk~~~~~~t~~dy~~li~~~l~g  128 (145)
T PF13762_consen   81 SFHIIFKSLSNSSSAKLTSLTLFNFLKKNDIEFTPSDYSCLIKAALRG  128 (145)
T ss_pred             hHHHHHHHHccChHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHcC
Confidence            44455555444333 333444444444444444444455555444443

>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=94.11  E-value=0.031  Score=39.55  Aligned_cols=83  Identities=16%  Similarity=0.156  Sum_probs=46.1

Q ss_pred             ChhhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCC
Q 023915            1 MISAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKM   80 (275)
Q Consensus         1 li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~   80 (275)
                      +|..+.+.+.++.+..+++.+...+..-+....+.++..|++.+..++..++++.       .+..-...++..|-+.|.
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            3555666666666667777766655455566677777777777666666666551       111222345555555555


Q ss_pred             HHHHHHHHHH
Q 023915           81 YILAYRTMVD   90 (275)
Q Consensus        81 ~~~a~~~~~~   90 (275)
                      ++.+.-++..
T Consensus        86 ~~~a~~Ly~~   95 (143)
T PF00637_consen   86 YEEAVYLYSK   95 (143)
T ss_dssp             HHHHHHHHHC
T ss_pred             HHHHHHHHHH
Confidence            5555554444

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.

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.08  E-value=0.63  Score=41.42  Aligned_cols=113  Identities=12%  Similarity=0.035  Sum_probs=73.4

Q ss_pred             CCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHH
Q 023915           62 SPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKI  141 (275)
Q Consensus        62 ~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l  141 (275)
                      .-..-+.+--+.-+..-|+..+|.++-.+.+    .||...|-.=+.+++..+++++-+++-+...      ++..|.-+
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            3344455555666667777777777666654    6777777777777887777777655544332      13457777


Q ss_pred             HHHHHhccchHHHHHHHHHhhcCCChhHHHHHHHHHHhcCChhHHHHHH
Q 023915          142 LHILISGKLLKDAYVVVKDNSESISHPAIKKFASAFVRLGNINLVNDVM  190 (275)
Q Consensus       142 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~  190 (275)
                      +.+|.+.|+.++|.+.+.+.....      -...+|.+.|++.+|.++-
T Consensus       751 Ve~c~~~~n~~EA~KYiprv~~l~------ekv~ay~~~~~~~eAad~A  793 (829)
T KOG2280|consen  751 VEACLKQGNKDEAKKYIPRVGGLQ------EKVKAYLRVGDVKEAADLA  793 (829)
T ss_pred             HHHHHhcccHHHHhhhhhccCChH------HHHHHHHHhccHHHHHHHH
Confidence            777888888887777776543321      4556777777777766654

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=94.07  E-value=2  Score=34.07  Aligned_cols=125  Identities=10%  Similarity=0.077  Sum_probs=88.3

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHhh-cCCCCChhhHHHHHHHHHc-cC-CHHHHHHHHHHHH-HcCCCCCHHhHHHHHH
Q 023915           33 LNSMLCAYCRTGDMESVMHVMRKLDE-LAISPDYNTFHILIKYFCK-EK-MYILAYRTMVDMH-RKGHQPEEELCSSLIF  108 (275)
Q Consensus        33 ~~~li~~~~~~g~~~~a~~~~~~m~~-~g~~p~~~t~~~li~~~~~-~~-~~~~a~~~~~~m~-~~g~~~~~~~~~~li~  108 (275)
                      |..|+.   ++..+-+|+++|+.... ..+--|..+...+++.... .+ ....-.++.+.+. ..|..++..+...+|.
T Consensus       134 Y~~LVk---~N~~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~  210 (292)
T PF13929_consen  134 YWDLVK---RNKIVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILE  210 (292)
T ss_pred             HHHHHH---hhHHHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHH
Confidence            666664   34456778888874433 3466777777777777766 32 2333333444443 3346777888888999


Q ss_pred             HHhccCCHHHHHHHHHHHHhc-cccccHHhHHHHHHHHHhccchHHHHHHHHH
Q 023915          109 HLGKMRAHSEALSVYNMLRYS-KRSMCKALHEKILHILISGKLLKDAYVVVKD  160 (275)
Q Consensus       109 ~~~~~g~~~~a~~~~~~m~~~-~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  160 (275)
                      .+++.+++.+-+++++..... +..-+...|..+|+.....|+..-..+++.+
T Consensus       211 ~L~~~~dW~kl~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~  263 (292)
T PF13929_consen  211 ILAESRDWNKLFQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDD  263 (292)
T ss_pred             HHHhcccHHHHHHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhC
Confidence            999999999999998876654 5666777899999999999998888888876

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.00  E-value=1  Score=35.16  Aligned_cols=82  Identities=13%  Similarity=0.067  Sum_probs=35.1

Q ss_pred             CCHHHHHHHHHHHHhcc--ccccHHhHHHHHHHHHhccchHHHHHHHHHhhc-C----CChhHHHHHHHHHHhcCChhHH
Q 023915          114 RAHSEALSVYNMLRYSK--RSMCKALHEKILHILISGKLLKDAYVVVKDNSE-S----ISHPAIKKFASAFVRLGNINLV  186 (275)
Q Consensus       114 g~~~~a~~~~~~m~~~~--~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~-~----~~~~~~~~li~~~~~~~~~~~a  186 (275)
                      |++..|..-|....+..  .......+-.|-.++...|++++|..+|..+.. .    ..|..+-.+.....+.|+.++|
T Consensus       155 gdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l~~~d~A  234 (262)
T COG1729         155 GDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRLGNTDEA  234 (262)
T ss_pred             CCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHhcCHHHH
Confidence            34555555555444431  111222333344444445555554444444332 1    1112333444444555555555


Q ss_pred             HHHHHHHHH
Q 023915          187 NDVMKAIHA  195 (275)
Q Consensus       187 ~~~~~~m~~  195 (275)
                      ..+|.++.+
T Consensus       235 ~atl~qv~k  243 (262)
T COG1729         235 CATLQQVIK  243 (262)
T ss_pred             HHHHHHHHH
Confidence            555555444

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=93.88  E-value=2.1  Score=35.40  Aligned_cols=122  Identities=7%  Similarity=-0.057  Sum_probs=79.7

Q ss_pred             HHHccCCHHHHHHHHHHHhhc-----CCC---------CChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHH
Q 023915           39 AYCRTGDMESVMHVMRKLDEL-----AIS---------PDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCS  104 (275)
Q Consensus        39 ~~~~~g~~~~a~~~~~~m~~~-----g~~---------p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~  104 (275)
                      .+.+.|++..|..-|+...+.     +..         .-..+++.|.-++.+.+++..|++.-+..+..+ ++|+....
T Consensus       217 ~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~-~~N~KALy  295 (397)
T KOG0543|consen  217 VLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELD-PNNVKALY  295 (397)
T ss_pred             HHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcC-CCchhHHH
Confidence            566778888888777764431     121         223467788888889999999998888888765 66777777


Q ss_pred             HHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHH-HHHHHHhccc-hHHHHHHHHHhhc
Q 023915          105 SLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEK-ILHILISGKL-LKDAYVVVKDNSE  163 (275)
Q Consensus       105 ~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~-li~~~~~~~~-~~~a~~~~~~~~~  163 (275)
                      .=-.+|...|+++.|...|+.+.+..  |+....+. ++..--+... .+...++|..|-.
T Consensus       296 RrG~A~l~~~e~~~A~~df~ka~k~~--P~Nka~~~el~~l~~k~~~~~~kekk~y~~mF~  354 (397)
T KOG0543|consen  296 RRGQALLALGEYDLARDDFQKALKLE--PSNKAARAELIKLKQKIREYEEKEKKMYANMFA  354 (397)
T ss_pred             HHHHHHHhhccHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            77888888899999999998887543  32233333 3333333333 2333556666544

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=93.84  E-value=1.3  Score=34.56  Aligned_cols=96  Identities=11%  Similarity=-0.044  Sum_probs=74.4

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHHcCC--CCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhcc-ccc-cHHhHHHHH
Q 023915           67 TFHILIKYFCKEKMYILAYRTMVDMHRKGH--QPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSK-RSM-CKALHEKIL  142 (275)
Q Consensus        67 t~~~li~~~~~~~~~~~a~~~~~~m~~~g~--~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-~~~-~~~~~~~li  142 (275)
                      .|+.-+.. .+.|++..|.+.|....+..-  ......+-.|..++...|+++.|..+|..+.+.- -.| .+...-.+-
T Consensus       144 ~Y~~A~~~-~ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg  222 (262)
T COG1729         144 LYNAALDL-YKSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLG  222 (262)
T ss_pred             HHHHHHHH-HHcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHH
Confidence            47776665 567789999999999987642  1223467779999999999999999999887652 222 234566777


Q ss_pred             HHHHhccchHHHHHHHHHhhc
Q 023915          143 HILISGKLLKDAYVVVKDNSE  163 (275)
Q Consensus       143 ~~~~~~~~~~~a~~~~~~~~~  163 (275)
                      ....+.|+.++|..+|++..+
T Consensus       223 ~~~~~l~~~d~A~atl~qv~k  243 (262)
T COG1729         223 VSLGRLGNTDEACATLQQVIK  243 (262)
T ss_pred             HHHHHhcCHHHHHHHHHHHHH
Confidence            888899999999999999876

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=93.80  E-value=1.6  Score=30.76  Aligned_cols=112  Identities=14%  Similarity=0.139  Sum_probs=80.8

Q ss_pred             hcCcHHHHHHHHHHH--------HhcCCCCcHH--hHHHHHHHHHccCCHHHHHHHHHHHhhcC-----CCCChhhHHHH
Q 023915            7 RGGCFEEAKQLAGDF--------EAKYDKYDVV--LLNSMLCAYCRTGDMESVMHVMRKLDELA-----ISPDYNTFHIL   71 (275)
Q Consensus         7 ~~g~~~~a~~~~~~m--------~~~g~~p~~~--~~~~li~~~~~~g~~~~a~~~~~~m~~~g-----~~p~~~t~~~l   71 (275)
                      +.|++-..++.|.+.        .+.+..++..  ..|.++.-....+++...+.+++.+.--.     -..+..+|.++
T Consensus         6 k~g~~~~nL~~w~~fi~~~~~y~~~~~~~~~~k~~fiN~iL~hl~~~~nf~~~v~~L~~l~~l~~~~~~~~~~~ssf~~i   85 (145)
T PF13762_consen    6 KLGNVLANLEVWKTFINSHLPYMQEENASQSTKTIFINCILNHLASYQNFSGVVSILEHLHFLNTDNIIGWLDNSSFHII   85 (145)
T ss_pred             cCcchhhhHHHHHHHHHHHHHHhhhcccChhHHHHHHHHHHHHHHHccchHHHHHHHHHHHHhhHHHHhhhcccchHHHH
Confidence            344444445554443        3345555554  36888888888899999999988885321     12455679999


Q ss_pred             HHHHHccCC-HHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHH
Q 023915           72 IKYFCKEKM-YILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSE  118 (275)
Q Consensus        72 i~~~~~~~~-~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~  118 (275)
                      +.+.+++.- ---+..+|+.|++.+.+++..-|..+|.++.+....+.
T Consensus        86 f~SlsnSsSaK~~~~~Lf~~Lk~~~~~~t~~dy~~li~~~l~g~~~~~  133 (145)
T PF13762_consen   86 FKSLSNSSSAKLTSLTLFNFLKKNDIEFTPSDYSCLIKAALRGYFHDS  133 (145)
T ss_pred             HHHHccChHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHcCCCCcc
Confidence            999988876 44578899999998899999999999999988644443

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=93.74  E-value=0.98  Score=35.77  Aligned_cols=75  Identities=12%  Similarity=0.087  Sum_probs=47.5

Q ss_pred             hHHHHHHHHHhccchHHHHHHHHHhhc--CCChhHHHHHHHHHHhcCChhHHHHHHHHHHH-----cCCCCChhhHHHHH
Q 023915          137 LHEKILHILISGKLLKDAYVVVKDNSE--SISHPAIKKFASAFVRLGNINLVNDVMKAIHA-----TGYRIDQGIFHIAI  209 (275)
Q Consensus       137 ~~~~li~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-----~g~~p~~~~y~~li  209 (275)
                      ++..++..+...|+.+.+.+.++++..  ..+.+.|..++.+|.+.|+...|+..|+.+.+     .|+.|...+.....
T Consensus       155 ~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~y~  234 (280)
T COG3629         155 ALTKLAEALIACGRADAVIEHLERLIELDPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRALYE  234 (280)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHHHH
Confidence            455566666666777777776666554  44455677777777777777777777766655     36666666555444


Q ss_pred             HH
Q 023915          210 AR  211 (275)
Q Consensus       210 ~~  211 (275)
                      ..
T Consensus       235 ~~  236 (280)
T COG3629         235 EI  236 (280)
T ss_pred             HH
Confidence            44

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=93.59  E-value=2  Score=31.17  Aligned_cols=127  Identities=14%  Similarity=0.076  Sum_probs=85.3

Q ss_pred             HHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHH
Q 023915           14 AKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHR   93 (275)
Q Consensus        14 a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~   93 (275)
                      ..+.+..+...++.|+...|..+|+.+.+.|++.    .+..+.+.++-||.......+-.+..  ....+.++=-+|..
T Consensus        13 llEYirSl~~~~i~~~~~L~~lli~lLi~~~~~~----~L~qllq~~Vi~DSk~lA~~LLs~~~--~~~~~~Ql~lDMLk   86 (167)
T PF07035_consen   13 LLEYIRSLNQHNIPVQHELYELLIDLLIRNGQFS----QLHQLLQYHVIPDSKPLACQLLSLGN--QYPPAYQLGLDMLK   86 (167)
T ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHH----HHHHHHhhcccCCcHHHHHHHHHhHc--cChHHHHHHHHHHH
Confidence            3456667778899999999999999999999875    45556677788888777666544443  33445555555553


Q ss_pred             cCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHH
Q 023915           94 KGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDA  154 (275)
Q Consensus        94 ~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a  154 (275)
                      +=    ...+..+++.+...|++-+|+++.+........|    ...++.+..+.++...-
T Consensus        87 RL----~~~~~~iievLL~~g~vl~ALr~ar~~~~~~~~~----~~~fLeAA~~~~D~~lf  139 (167)
T PF07035_consen   87 RL----GTAYEEIIEVLLSKGQVLEALRYARQYHKVDSVP----ARKFLEAAANSNDDQLF  139 (167)
T ss_pred             Hh----hhhHHHHHHHHHhCCCHHHHHHHHHHcCCcccCC----HHHHHHHHHHcCCHHHH
Confidence            20    0246778889999999999999988753221111    23456666555554433

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.38  E-value=6.2  Score=36.07  Aligned_cols=175  Identities=13%  Similarity=0.096  Sum_probs=104.6

Q ss_pred             hhhhhhcCcHHHHHHHHHHHHhcCCCCcH--HhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccC
Q 023915            2 ISAFCRGGCFEEAKQLAGDFEAKYDKYDV--VLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEK   79 (275)
Q Consensus         2 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~--~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~   79 (275)
                      |+.+++...++-|+.+   .+..+..++.  ...-.--+-+.+.|++++|..-|-+-... +.|+     .+|.-|....
T Consensus       341 L~iL~kK~ly~~Ai~L---Ak~~~~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~s-----~Vi~kfLdaq  411 (933)
T KOG2114|consen  341 LDILFKKNLYKVAINL---AKSQHLDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEPS-----EVIKKFLDAQ  411 (933)
T ss_pred             HHHHHHhhhHHHHHHH---HHhcCCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CChH-----HHHHHhcCHH
Confidence            3455666667777766   3333333332  12333344456789999999887665432 3332     4566677777


Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHH
Q 023915           80 MYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVK  159 (275)
Q Consensus        80 ~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~  159 (275)
                      .+..-..+++.+.+.|+. +...-+.|+.+|.+.++.++-.++.+... .|.-.  .-....+..|.+.+-.++|..+-.
T Consensus       412 ~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL~efI~~~~-~g~~~--fd~e~al~Ilr~snyl~~a~~LA~  487 (933)
T KOG2114|consen  412 RIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKLTEFISKCD-KGEWF--FDVETALEILRKSNYLDEAELLAT  487 (933)
T ss_pred             HHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHHHHHHhcCC-Cccee--eeHHHHHHHHHHhChHHHHHHHHH
Confidence            777778888888888863 44566789999999999998877776544 22111  113445666666666666666555


Q ss_pred             HhhcCCChhHHHHHHHHHHhcCChhHHHHHHHHHH
Q 023915          160 DNSESISHPAIKKFASAFVRLGNINLVNDVMKAIH  194 (275)
Q Consensus       160 ~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  194 (275)
                      +...  .+.   .+--.+-..+++++|.+.+..+.
T Consensus       488 k~~~--he~---vl~ille~~~ny~eAl~yi~slp  517 (933)
T KOG2114|consen  488 KFKK--HEW---VLDILLEDLHNYEEALRYISSLP  517 (933)
T ss_pred             Hhcc--CHH---HHHHHHHHhcCHHHHHHHHhcCC
Confidence            4333  111   12222334566777776665543

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=93.34  E-value=1.7  Score=30.56  Aligned_cols=25  Identities=20%  Similarity=0.044  Sum_probs=12.2

Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHc
Q 023915           70 ILIKYFCKEKMYILAYRTMVDMHRK   94 (275)
Q Consensus        70 ~li~~~~~~~~~~~a~~~~~~m~~~   94 (275)
                      .|+.+|.+.++++.|...+++.++.
T Consensus        52 ~l~yayy~~~~y~~A~a~~~rFirL   76 (142)
T PF13512_consen   52 DLAYAYYKQGDYEEAIAAYDRFIRL   76 (142)
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHh
Confidence            4444455555555555555554443

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=93.27  E-value=3.9  Score=33.40  Aligned_cols=190  Identities=12%  Similarity=0.050  Sum_probs=115.6

Q ss_pred             hhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHH---HHHHccCCHHHHHHHHHHHhhcCCCCChhhHH-HHHHHHHccCC
Q 023915            5 FCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSML---CAYCRTGDMESVMHVMRKLDELAISPDYNTFH-ILIKYFCKEKM   80 (275)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li---~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~-~li~~~~~~~~   80 (275)
                      +.-.|++.+|+.-|....+-    |+..|-++.   ..|...|+..-|+.=|+...+  ++||-..-. ---..+.+.|.
T Consensus        48 lla~~Q~sDALt~yHaAve~----dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVle--lKpDF~~ARiQRg~vllK~Ge  121 (504)
T KOG0624|consen   48 LLARGQLSDALTHYHAAVEG----DPNNYQAIFRRATVYLAMGKSKAALQDLSRVLE--LKPDFMAARIQRGVVLLKQGE  121 (504)
T ss_pred             HHHhhhHHHHHHHHHHHHcC----CchhHHHHHHHHHHHhhhcCCccchhhHHHHHh--cCccHHHHHHHhchhhhhccc
Confidence            34456666676666665543    333343333   345666776666666666655  557643211 11234668899


Q ss_pred             HHHHHHHHHHHHHcCCCCC--HHh------------HHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHH
Q 023915           81 YILAYRTMVDMHRKGHQPE--EEL------------CSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILI  146 (275)
Q Consensus        81 ~~~a~~~~~~m~~~g~~~~--~~~------------~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  146 (275)
                      ++.|..=|+..++..-.-+  ...            ....+..+.-.|+...|......+.+.. +-+...|..--.+|.
T Consensus       122 le~A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~-~Wda~l~~~Rakc~i  200 (504)
T KOG0624|consen  122 LEQAEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQ-PWDASLRQARAKCYI  200 (504)
T ss_pred             HHHHHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcC-cchhHHHHHHHHHHH
Confidence            9999999998886532111  111            1233444556688888888888776432 224446677778888


Q ss_pred             hccchHHHHHHHHHhhc--CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChh
Q 023915          147 SGKLLKDAYVVVKDNSE--SISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQG  203 (275)
Q Consensus       147 ~~~~~~~a~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~  203 (275)
                      ..|.+..|+.=++....  .-+....--+-..+...|+.+.++...++..+  +.||..
T Consensus       201 ~~~e~k~AI~Dlk~askLs~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLK--ldpdHK  257 (504)
T KOG0624|consen  201 AEGEPKKAIHDLKQASKLSQDNTEGHYKISQLLYTVGDAENSLKEIRECLK--LDPDHK  257 (504)
T ss_pred             hcCcHHHHHHHHHHHHhccccchHHHHHHHHHHHhhhhHHHHHHHHHHHHc--cCcchh
Confidence            89999888877776544  22233444556667778888888877777665  346654

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=93.22  E-value=1.1  Score=28.98  Aligned_cols=47  Identities=11%  Similarity=0.127  Sum_probs=29.6

Q ss_pred             HHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHH
Q 023915           46 MESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMH   92 (275)
Q Consensus        46 ~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~   92 (275)
                      .-++.+-++.+....+.|+.....+.+++|.+.+|+..|.++|+..+
T Consensus        23 ~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK   69 (103)
T cd00923          23 GWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIK   69 (103)
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            33455555555556666666666666666666666666666666655

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.

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=93.17  E-value=4.1  Score=34.49  Aligned_cols=132  Identities=12%  Similarity=0.094  Sum_probs=86.3

Q ss_pred             ccCCHHHHHHHHHHHHHcCCCCC------HHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHH--hc
Q 023915           77 KEKMYILAYRTMVDMHRKGHQPE------EELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILI--SG  148 (275)
Q Consensus        77 ~~~~~~~a~~~~~~m~~~g~~~~------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~--~~  148 (275)
                      +.++.+.|..+|.+.-+.. ..+      ...-+.+++||.. .+.+.....+.+..+...   ...|-.+..++.  +.
T Consensus        18 kq~~~~esEkifskI~~e~-~~~~f~lkeEvl~grilnAffl-~nld~Me~~l~~l~~~~~---~s~~l~LF~~L~~Y~~   92 (549)
T PF07079_consen   18 KQKKFQESEKIFSKIYDEK-ESSPFLLKEEVLGGRILNAFFL-NNLDLMEKQLMELRQQFG---KSAYLPLFKALVAYKQ   92 (549)
T ss_pred             HHhhhhHHHHHHHHHHHHh-hcchHHHHHHHHhhHHHHHHHH-hhHHHHHHHHHHHHHhcC---CchHHHHHHHHHHHHh
Confidence            6689999999999987542 222      2334567888775 456666666666654322   224556665554  56


Q ss_pred             cchHHHHHHHHHhhcC--C-Chh-----------HH---HHHHHHHHhcCChhHHHHHHHHHHHc----CCCCChhhHHH
Q 023915          149 KLLKDAYVVVKDNSES--I-SHP-----------AI---KKFASAFVRLGNINLVNDVMKAIHAT----GYRIDQGIFHI  207 (275)
Q Consensus       149 ~~~~~a~~~~~~~~~~--~-~~~-----------~~---~~li~~~~~~~~~~~a~~~~~~m~~~----g~~p~~~~y~~  207 (275)
                      +.+..|.+.+....+.  . .++           +|   +..+..+...|++.++..+++.+...    ....+..+|+.
T Consensus        93 k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd~  172 (549)
T PF07079_consen   93 KEYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMYDR  172 (549)
T ss_pred             hhHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHHH
Confidence            7788887777654442  1 111           11   34567788899999999999988875    34488889998


Q ss_pred             HHHHHH
Q 023915          208 AIARYI  213 (275)
Q Consensus       208 li~~~~  213 (275)
                      ++-.+.
T Consensus       173 ~vlmls  178 (549)
T PF07079_consen  173 AVLMLS  178 (549)
T ss_pred             HHHHHh
Confidence            776553

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.15  E-value=0.69  Score=36.97  Aligned_cols=99  Identities=11%  Similarity=0.069  Sum_probs=56.8

Q ss_pred             cccHHhHHHHHHHHHhccchHHHHHHHHHhhcCCChh-----HHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHH
Q 023915          132 SMCKALHEKILHILISGKLLKDAYVVVKDNSESISHP-----AIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFH  206 (275)
Q Consensus       132 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~-----~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~  206 (275)
                      +.+..+....+..-....+++++...+-++...+...     +..+.++.+. .-+.++++-++..=.+.|+-||.++++
T Consensus        61 ~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~~~irlll-ky~pq~~i~~l~npIqYGiF~dqf~~c  139 (418)
T KOG4570|consen   61 PVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIHTWIRLLL-KYDPQKAIYTLVNPIQYGIFPDQFTFC  139 (418)
T ss_pred             CcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHHHHHHHHH-ccChHHHHHHHhCcchhccccchhhHH
Confidence            3333344444444444555666666555554433221     2223333333 335567777776666778888888888


Q ss_pred             HHHHHHHHhchhHHHHHHHHHHHhhC
Q 023915          207 IAIARYIAEREKKELLLKLLEWMTGQ  232 (275)
Q Consensus       207 ~li~~~~~~~~~~~~a~~l~~~m~~~  232 (275)
                      .+|+.+. +.+++.+|..+...|...
T Consensus       140 ~l~D~fl-k~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  140 LLMDSFL-KKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             HHHHHHH-hcccHHHHHHHHHHHHHH
Confidence            8888877 556666677766666543

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=93.07  E-value=1.1  Score=29.33  Aligned_cols=46  Identities=11%  Similarity=0.182  Sum_probs=28.6

Q ss_pred             HHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHH
Q 023915           48 SVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHR   93 (275)
Q Consensus        48 ~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~   93 (275)
                      +..+-++.+....+.|+.....+.+++|.+.+|+..|.++|+..+.
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~   73 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKD   73 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            4555556666666777777777777777777777777777777664

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 ....

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=93.06  E-value=3.7  Score=32.60  Aligned_cols=134  Identities=15%  Similarity=0.116  Sum_probs=80.1

Q ss_pred             HHHHHHHHHHHh-ccccccHHhHHHHHHHHHhcc--chHHHHHHHHHhh----cCCChhHHHHHHHHHHhcCChhHHHHH
Q 023915          117 SEALSVYNMLRY-SKRSMCKALHEKILHILISGK--LLKDAYVVVKDNS----ESISHPAIKKFASAFVRLGNINLVNDV  189 (275)
Q Consensus       117 ~~a~~~~~~m~~-~~~~~~~~~~~~li~~~~~~~--~~~~a~~~~~~~~----~~~~~~~~~~li~~~~~~~~~~~a~~~  189 (275)
                      .+|+++|+...- ..+-.++.+...+++......  ....-.++.+-+.    ...+++....++..++..++|.+..++
T Consensus       145 v~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~kl~~f  224 (292)
T PF13929_consen  145 VEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNKLFQF  224 (292)
T ss_pred             HHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHHHHHH
Confidence            445555542221 234445666667777766522  2222233333332    245555777888888888888888888


Q ss_pred             HHHHHHc-CCCCChhhHHHHHHHHHHhchhHHHHHHHHHH-----HhhCCCCCChhhHHHHHHHHHHh
Q 023915          190 MKAIHAT-GYRIDQGIFHIAIARYIAEREKKELLLKLLEW-----MTGQGYVVDSSTRNLILKNSHLF  251 (275)
Q Consensus       190 ~~~m~~~-g~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~-----m~~~~~~p~~~t~~~li~~~~~~  251 (275)
                      ++..... +..-|...|..+|+... ..|+..-..++.++     +++.|+..+...-..|-+.+.+.
T Consensus       225 W~~~~~~~~~~~D~rpW~~FI~li~-~sgD~~~~~kiI~~GhLLwikR~~V~v~~~L~~~L~~LF~~v  291 (292)
T PF13929_consen  225 WEQCIPNSVPGNDPRPWAEFIKLIV-ESGDQEVMRKIIDDGHLLWIKRNNVDVTDELRSQLSELFKKV  291 (292)
T ss_pred             HHHhcccCCCCCCCchHHHHHHHHH-HcCCHHHHHHHhhCCCeEEeeecCCcCCHHHHHHHHHHHHhc
Confidence            8776654 55567778888888865 66776655555542     34556666666666666555443

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.06  E-value=1.7  Score=38.89  Aligned_cols=117  Identities=9%  Similarity=0.001  Sum_probs=91.2

Q ss_pred             CCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHH
Q 023915           25 YDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCS  104 (275)
Q Consensus        25 g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~  104 (275)
                      |....--+.+--+.-+..-|+..+|.++-.+.+-    ||...|--=+.+++..++|++-+++-+.++      ++.-|.
T Consensus       679 ~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fki----pdKr~~wLk~~aLa~~~kweeLekfAkskk------sPIGy~  748 (829)
T KOG2280|consen  679 GGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFKI----PDKRLWWLKLTALADIKKWEELEKFAKSKK------SPIGYL  748 (829)
T ss_pred             ccccccCcHHHHHHHHHHccchHHHHHHHHhcCC----cchhhHHHHHHHHHhhhhHHHHHHHHhccC------CCCCch
Confidence            3334445667777888889999999999888765    999999999999999999988665544432      256788


Q ss_pred             HHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHH
Q 023915          105 SLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKD  160 (275)
Q Consensus       105 ~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  160 (275)
                      -.+.+|.+.|+.++|.+.+.....         +.-.+.+|.+.|++.+|.++--+
T Consensus       749 PFVe~c~~~~n~~EA~KYiprv~~---------l~ekv~ay~~~~~~~eAad~A~~  795 (829)
T KOG2280|consen  749 PFVEACLKQGNKDEAKKYIPRVGG---------LQEKVKAYLRVGDVKEAADLAAE  795 (829)
T ss_pred             hHHHHHHhcccHHHHhhhhhccCC---------hHHHHHHHHHhccHHHHHHHHHH
Confidence            899999999999999999876531         12577888999998888776554

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=93.01  E-value=0.28  Score=25.26  Aligned_cols=23  Identities=13%  Similarity=0.088  Sum_probs=11.2

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHH
Q 023915           68 FHILIKYFCKEKMYILAYRTMVD   90 (275)
Q Consensus        68 ~~~li~~~~~~~~~~~a~~~~~~   90 (275)
                      |+.|-..|.+.|++++|..+|++
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~   24 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQ   24 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHH
Confidence            34444555555555555555554

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=92.97  E-value=6.4  Score=35.06  Aligned_cols=119  Identities=10%  Similarity=0.094  Sum_probs=77.3

Q ss_pred             HHHHHHHccCCHHHHHHHHH------HHHHcCCCC---CHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHH
Q 023915           70 ILIKYFCKEKMYILAYRTMV------DMHRKGHQP---EEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEK  140 (275)
Q Consensus        70 ~li~~~~~~~~~~~a~~~~~------~m~~~g~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~  140 (275)
                      +....+..+|+.++|..+.-      -+.+-+-+.   +..+...+-.-+.+...+.-|-++|..|..         -.+
T Consensus       708 aAAEmLiSaGe~~KAi~i~~d~gW~d~lidI~rkld~~ere~l~~~a~ylk~l~~~gLAaeIF~k~gD---------~ks  778 (1081)
T KOG1538|consen  708 AAAEMLISAGEHVKAIEICGDHGWVDMLIDIARKLDKAEREPLLLCATYLKKLDSPGLAAEIFLKMGD---------LKS  778 (1081)
T ss_pred             HHHHHhhcccchhhhhhhhhcccHHHHHHHHHhhcchhhhhHHHHHHHHHhhccccchHHHHHHHhcc---------HHH
Confidence            44455566777777655422      112222222   333455555555667778889999988752         356


Q ss_pred             HHHHHHhccchHHHHHHHHHhhcCCChh------------HHHHHHHHHHhcCChhHHHHHHHHHHHcC
Q 023915          141 ILHILISGKLLKDAYVVVKDNSESISHP------------AIKKFASAFVRLGNINLVNDVMKAIHATG  197 (275)
Q Consensus       141 li~~~~~~~~~~~a~~~~~~~~~~~~~~------------~~~~li~~~~~~~~~~~a~~~~~~m~~~g  197 (275)
                      +++..+..++|++|..+-+...+-.+..            -|.-.-.+|-+.|+-.+|.++++++....
T Consensus       779 iVqlHve~~~W~eAFalAe~hPe~~~dVy~pyaqwLAE~DrFeEAqkAfhkAGr~~EA~~vLeQLtnna  847 (1081)
T KOG1538|consen  779 LVQLHVETQRWDEAFALAEKHPEFKDDVYMPYAQWLAENDRFEEAQKAFHKAGRQREAVQVLEQLTNNA  847 (1081)
T ss_pred             HhhheeecccchHhHhhhhhCccccccccchHHHHhhhhhhHHHHHHHHHHhcchHHHHHHHHHhhhhh
Confidence            7888889999999999998876633221            12333467888999999999998876643

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=92.94  E-value=7.1  Score=37.15  Aligned_cols=171  Identities=13%  Similarity=0.084  Sum_probs=99.5

Q ss_pred             hcCcHHHHHHHHHHHHhc-----CCCCcH--HhHHHHHHHHHccC--CHHHHHHHHHHHh--hcC---CCCChhhHHHHH
Q 023915            7 RGGCFEEAKQLAGDFEAK-----YDKYDV--VLLNSMLCAYCRTG--DMESVMHVMRKLD--ELA---ISPDYNTFHILI   72 (275)
Q Consensus         7 ~~g~~~~a~~~~~~m~~~-----g~~p~~--~~~~~li~~~~~~g--~~~~a~~~~~~m~--~~g---~~p~~~t~~~li   72 (275)
                      ...|..+-+-++++++..     ..+.|.  .-|...+..+.+.|  .++++..+.++=.  ..+   .+|+...+..+.
T Consensus       863 SqkDPkEyLP~L~el~~m~~~~rkF~ID~~L~ry~~AL~hLs~~~~~~~~e~~n~I~kh~Ly~~aL~ly~~~~e~~k~i~  942 (1265)
T KOG1920|consen  863 SQKDPKEYLPFLNELKKMETLLRKFKIDDYLKRYEDALSHLSECGETYFPECKNYIKKHGLYDEALALYKPDSEKQKVIY  942 (1265)
T ss_pred             hccChHHHHHHHHHHhhchhhhhheeHHHHHHHHHHHHHHHHHcCccccHHHHHHHHhcccchhhhheeccCHHHHHHHH
Confidence            345667777777777632     112222  23555666666665  4566555543311  111   457777766666


Q ss_pred             HHHH----ccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhc
Q 023915           73 KYFC----KEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISG  148 (275)
Q Consensus        73 ~~~~----~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~  148 (275)
                      .+|+    ....++.|.-+|+..-+         ..-.+.+|-.+|++.+|+.+-.++.......- .+-..|+..+...
T Consensus       943 ~~ya~hL~~~~~~~~Aal~Ye~~Gk---------lekAl~a~~~~~dWr~~l~~a~ql~~~~de~~-~~a~~L~s~L~e~ 1012 (1265)
T KOG1920|consen  943 EAYADHLREELMSDEAALMYERCGK---------LEKALKAYKECGDWREALSLAAQLSEGKDELV-ILAEELVSRLVEQ 1012 (1265)
T ss_pred             HHHHHHHHHhccccHHHHHHHHhcc---------HHHHHHHHHHhccHHHHHHHHHhhcCCHHHHH-HHHHHHHHHHHHc
Confidence            5544    44666666655554321         23467777788888888888776653322221 1235677888888


Q ss_pred             cchHHHHHHHHHhhcCCChhHHHHHHHHHHhcCChhHHHHHHHH
Q 023915          149 KLLKDAYVVVKDNSESISHPAIKKFASAFVRLGNINLVNDVMKA  192 (275)
Q Consensus       149 ~~~~~a~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  192 (275)
                      ++.-+|-++..+....+.     -.+..|++...|++|.++-..
T Consensus      1013 ~kh~eAa~il~e~~sd~~-----~av~ll~ka~~~~eAlrva~~ 1051 (1265)
T KOG1920|consen 1013 RKHYEAAKILLEYLSDPE-----EAVALLCKAKEWEEALRVASK 1051 (1265)
T ss_pred             ccchhHHHHHHHHhcCHH-----HHHHHHhhHhHHHHHHHHHHh
Confidence            888888888887655432     234556666677777766543

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=92.94  E-value=2.2  Score=29.59  Aligned_cols=87  Identities=8%  Similarity=0.075  Sum_probs=43.1

Q ss_pred             HHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHH---HHHHhccCC
Q 023915           39 AYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSL---IFHLGKMRA  115 (275)
Q Consensus        39 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~l---i~~~~~~g~  115 (275)
                      +++..|+.+.|++.|.+...- .+-+...||.-..++.-.|+.++|+.=+++..+..-..+...+.+.   -..|...|+
T Consensus        52 alaE~g~Ld~AlE~F~qal~l-~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g~  130 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALCL-APERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGN  130 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHh-cccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCc
Confidence            344556666666666655442 1223445666666666666666666666655543222222222222   223444555


Q ss_pred             HHHHHHHHHHH
Q 023915          116 HSEALSVYNML  126 (275)
Q Consensus       116 ~~~a~~~~~~m  126 (275)
                      .+.|..=|+..
T Consensus       131 dd~AR~DFe~A  141 (175)
T KOG4555|consen  131 DDAARADFEAA  141 (175)
T ss_pred             hHHHHHhHHHH
Confidence            55555544433

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=92.82  E-value=2.8  Score=30.61  Aligned_cols=123  Identities=8%  Similarity=-0.042  Sum_probs=56.5

Q ss_pred             HccCCHHHHHHHHHHHhhcCCCCChhh-HHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHH-hHHHHHH--HHhccCCH
Q 023915           41 CRTGDMESVMHVMRKLDELAISPDYNT-FHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEE-LCSSLIF--HLGKMRAH  116 (275)
Q Consensus        41 ~~~g~~~~a~~~~~~m~~~g~~p~~~t-~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~-~~~~li~--~~~~~g~~  116 (275)
                      ++.++.++|+.-|.++.+.|...-... ---.-......|+...|...|.+.-.-.-.|-.. -...|=.  .+...|.+
T Consensus        69 A~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlraa~lLvD~gsy  148 (221)
T COG4649          69 AQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLRAAYLLVDNGSY  148 (221)
T ss_pred             HHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHHHHHHHhccccH
Confidence            344555666666666655443211110 0011122345566666666666655433233221 1111111  23445666


Q ss_pred             HHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhc
Q 023915          117 SEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSE  163 (275)
Q Consensus       117 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  163 (275)
                      +....-.+.+...+.+.....-..|--+--+.|++..|..+|..+.+
T Consensus       149 ~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~  195 (221)
T COG4649         149 DDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAN  195 (221)
T ss_pred             HHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHc
Confidence            66555555554444433333334444444556666666666666554

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=92.79  E-value=0.3  Score=25.15  Aligned_cols=26  Identities=23%  Similarity=0.299  Sum_probs=22.1

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHh
Q 023915           32 LLNSMLCAYCRTGDMESVMHVMRKLD   57 (275)
Q Consensus        32 ~~~~li~~~~~~g~~~~a~~~~~~m~   57 (275)
                      +|+.|-..|.+.|++++|+++|++..
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL   26 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQAL   26 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            47888999999999999999999854

>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=92.68  E-value=2.8  Score=30.16  Aligned_cols=52  Identities=13%  Similarity=0.248  Sum_probs=27.4

Q ss_pred             HccCCHHHHHHHHHHHhhcCCCCChhhHHHH-HHHHHccCCHHHHHHHHHHHHHc
Q 023915           41 CRTGDMESVMHVMRKLDELAISPDYNTFHIL-IKYFCKEKMYILAYRTMVDMHRK   94 (275)
Q Consensus        41 ~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~l-i~~~~~~~~~~~a~~~~~~m~~~   94 (275)
                      .+.++.+++..+++-++-  +.|.......+ ..-+.+.|+|++|.++|+++...
T Consensus        21 l~~~~~~D~e~lL~ALrv--LRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~   73 (160)
T PF09613_consen   21 LRLGDPDDAEALLDALRV--LRPEFPELDLFDGWLHIVRGDWDDALRLLRELEER   73 (160)
T ss_pred             HccCChHHHHHHHHHHHH--hCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhcc
Confidence            345566666666666655  33443332211 12245566666666666665543

>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=92.63  E-value=3.1  Score=30.65  Aligned_cols=72  Identities=14%  Similarity=0.230  Sum_probs=56.9

Q ss_pred             hcCCCCcH-HhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCh--hhHHHHHHHHHccCCHHHHHHHHHHHHHc
Q 023915           23 AKYDKYDV-VLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDY--NTFHILIKYFCKEKMYILAYRTMVDMHRK   94 (275)
Q Consensus        23 ~~g~~p~~-~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~--~t~~~li~~~~~~~~~~~a~~~~~~m~~~   94 (275)
                      ....+-++ ..+..+..-|++.|+.+.|++.|.++++....|..  ..+-.+|....-.+++..+.....+....
T Consensus        28 ~n~~kesir~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~  102 (177)
T PF10602_consen   28 SNLGKESIRMALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESL  102 (177)
T ss_pred             hccchHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            33344343 46889999999999999999999999987655544  45678888999999999999888887643

This entry also matches the evolutionarily related subunit 1 of the COP9 signalosome complex (CSN) from Arabidopsis []. The 26S proteasome plays a major role in ATP-dependent degradation of ubiquitinated proteins. Substrate specificity is conferred by the regulatory particle (RP), which can dissociate into stable lid and base subcomplexes. The regulatory subunit RPN7 is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for structural integrity []. The COP9 signalosome is a conserved protein complex composed of eight subunits, where Individual subunits of the complex have been linked to various signal transduction pathways leading to gene expression and cell cycle control []. The overall organisation and the amino acid sequences of the COP9 signalosome subunits resemble the lid subcomplex of the 19 S regulatory particle for the 26 S proteasome []. COP9 subunit 1 (CSN1 or GPS1) of the COP9 complex is an essential subunit of the complex with regard to both structural integrity and functionality. The N-terminal region of subunit 1 (CSN1-N) can inhibit c-fos expression from either a transfected template or a chromosomal transgene (fos-lacZ), and may contain the activity domain that confers most of the repression functions of CSN1. The C-terminal region of subunit 1 (CSN1-C) allows integration of the protein into the COP9 signalosome.

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=92.60  E-value=5.3  Score=33.23  Aligned_cols=161  Identities=10%  Similarity=0.057  Sum_probs=97.7

Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHhhcCC--CCChhh-HHHHHHHHHc---cCCHHHHHHHHHHHHHcCCCCCHHhHHHHH
Q 023915           34 NSMLCAYCRTGDMESVMHVMRKLDELAI--SPDYNT-FHILIKYFCK---EKMYILAYRTMVDMHRKGHQPEEELCSSLI  107 (275)
Q Consensus        34 ~~li~~~~~~g~~~~a~~~~~~m~~~g~--~p~~~t-~~~li~~~~~---~~~~~~a~~~~~~m~~~g~~~~~~~~~~li  107 (275)
                      ..++-+|-...+++.++++.+.+.....  .++... --...-++.+   .|+.++|++++..+......++..+|..+-
T Consensus       145 ~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL~G  224 (374)
T PF13281_consen  145 INLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGLLG  224 (374)
T ss_pred             HHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHHHH
Confidence            3555568888999999999999987421  111111 1123334555   899999999999977777778888888777


Q ss_pred             HHHhc---------cCCHHHHHHHHHHHHhcc-ccccHHhHHHHHHHHHhccchHH---HHHHH---HH-hhcCCC---h
Q 023915          108 FHLGK---------MRAHSEALSVYNMLRYSK-RSMCKALHEKILHILISGKLLKD---AYVVV---KD-NSESIS---H  167 (275)
Q Consensus       108 ~~~~~---------~g~~~~a~~~~~~m~~~~-~~~~~~~~~~li~~~~~~~~~~~---a~~~~---~~-~~~~~~---~  167 (275)
                      ..|-.         ....++|...|.+--... ..-+..-+..++...  ..+.+.   ..++-   .. ....++   .
T Consensus       225 RIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~~~~~Y~GIN~AtLL~~~--g~~~~~~~el~~i~~~l~~llg~kg~~~~~  302 (374)
T PF13281_consen  225 RIYKDLFLESNFTDRESLDKAIEWYRKGFEIEPDYYSGINAATLLMLA--GHDFETSEELRKIGVKLSSLLGRKGSLEKM  302 (374)
T ss_pred             HHHHHHHHHcCccchHHHHHHHHHHHHHHcCCccccchHHHHHHHHHc--CCcccchHHHHHHHHHHHHHHHhhcccccc
Confidence            76643         223667777776543222 111111222233322  222222   22222   11 111111   1


Q ss_pred             h---HHHHHHHHHHhcCChhHHHHHHHHHHHc
Q 023915          168 P---AIKKFASAFVRLGNINLVNDVMKAIHAT  196 (275)
Q Consensus       168 ~---~~~~li~~~~~~~~~~~a~~~~~~m~~~  196 (275)
                      .   .+.+++.++.-.|+.++|.+..+.|...
T Consensus       303 ~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l  334 (374)
T PF13281_consen  303 QDYWDVATLLEASVLAGDYEKAIQAAEKAFKL  334 (374)
T ss_pred             ccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc
Confidence            1   5689999999999999999999999875

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=92.57  E-value=1.2  Score=28.85  Aligned_cols=63  Identities=8%  Similarity=0.068  Sum_probs=49.2

Q ss_pred             cHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHH
Q 023915           10 CFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIK   73 (275)
Q Consensus        10 ~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~   73 (275)
                      +.=++.+-++.+...++.|++...++.+++|-+.+++..|.++|+-.+.+ +..+...|..+++
T Consensus        22 D~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K-~~~~~~~y~~~lq   84 (103)
T cd00923          22 DGWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDK-CGAHKEIYPYILQ   84 (103)
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-ccCchhhHHHHHH
Confidence            44466777778888899999999999999999999999999999987743 2124445665554

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.

>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=92.34  E-value=4.8  Score=32.11  Aligned_cols=211  Identities=15%  Similarity=0.176  Sum_probs=117.4

Q ss_pred             HccCCHHHHHHHHHHHhhc--CCCCChh------hHHHHHHHHHccCCHHHHHHHHHHHHHc--------CCCCCH----
Q 023915           41 CRTGDMESVMHVMRKLDEL--AISPDYN------TFHILIKYFCKEKMYILAYRTMVDMHRK--------GHQPEE----  100 (275)
Q Consensus        41 ~~~g~~~~a~~~~~~m~~~--g~~p~~~------t~~~li~~~~~~~~~~~a~~~~~~m~~~--------g~~~~~----  100 (275)
                      .+.|+.+.|..++.+....  ...|+..      .|+.-...+.+..+++.|...+++..+.        ...|+.    
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            4567777777777666542  2233322      3444444444444777776666665432        123333    


Q ss_pred             -HhHHHHHHHHhccCCHH---HHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhcCCC--hhHHHHHH
Q 023915          101 -ELCSSLIFHLGKMRAHS---EALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSESIS--HPAIKKFA  174 (275)
Q Consensus       101 -~~~~~li~~~~~~g~~~---~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~li  174 (275)
                       .+...++.+|...+..+   +|.++++.+......+ +.++-.-++.+.+.++.+.+.+.+..|....+  ...+..++
T Consensus        84 ~~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~~~~-~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~~~~e~~~~~~l  162 (278)
T PF08631_consen   84 LSILRLLANAYLEWDTYESVEKALNALRLLESEYGNK-PEVFLLKLEILLKSFDEEEYEEILMRMIRSVDHSESNFDSIL  162 (278)
T ss_pred             HHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhCCCC-cHHHHHHHHHHhccCChhHHHHHHHHHHHhcccccchHHHHH
Confidence             45667777887777654   4555666665443332 23455566666668888899999988877544  34666666


Q ss_pred             HHHHhc--CChhHHHHHHHHHHHcCCCCChh-hHH-HHHHHHH--Hh------chhHHHHHHHHHHHhh-CCCCCChhhH
Q 023915          175 SAFVRL--GNINLVNDVMKAIHATGYRIDQG-IFH-IAIARYI--AE------REKKELLLKLLEWMTG-QGYVVDSSTR  241 (275)
Q Consensus       175 ~~~~~~--~~~~~a~~~~~~m~~~g~~p~~~-~y~-~li~~~~--~~------~~~~~~a~~l~~~m~~-~~~~p~~~t~  241 (275)
                      ..+...  .....+...+..+....+.|... ... .++....  ..      .++.+.+.++++...+ .+.+.+..+-
T Consensus       163 ~~i~~l~~~~~~~a~~~ld~~l~~r~~~~~~~~~e~~vl~~~~~~~~~~~~~~~~~i~~l~~~~~~v~~~~~~~ls~~~~  242 (278)
T PF08631_consen  163 HHIKQLAEKSPELAAFCLDYLLLNRFKSSEDQWLEKLVLTRVLLTTQSKDLSSSEKIESLEELLSIVEHSLGKQLSAEAA  242 (278)
T ss_pred             HHHHHHHhhCcHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHcCCccccchhHHHHHHHHHHHHHHHhcCCCCHHHH
Confidence            655322  33455666666666555555553 111 1111111  01      1225556666665443 3556667777


Q ss_pred             HHHHHHHHHhh
Q 023915          242 NLILKNSHLFG  252 (275)
Q Consensus       242 ~~li~~~~~~g  252 (275)
                      .++...+.+.|
T Consensus       243 ~a~~~LLW~~~  253 (278)
T PF08631_consen  243 SAIHTLLWNKG  253 (278)
T ss_pred             HHHHHHHHHHH
Confidence            77777666666

It is also involved in sporulation [].

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=91.90  E-value=3.5  Score=29.63  Aligned_cols=110  Identities=19%  Similarity=0.196  Sum_probs=64.3

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhcCC-CCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHcc-CC
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAKYD-KYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKE-KM   80 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~g~-~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~-~~   80 (275)
                      ..-.+.++.+++..+++-+..-.+ .|...++...+.  .+.|++.+|.++|+++...+  |...--..|+..|... ||
T Consensus        18 ~~al~~~~~~D~e~lL~ALrvLRP~~~e~~~~~~~l~--i~r~~w~dA~rlLr~l~~~~--~~~p~~kALlA~CL~~~~D   93 (160)
T PF09613_consen   18 SVALRLGDPDDAEALLDALRVLRPEFPELDLFDGWLH--IVRGDWDDALRLLRELEERA--PGFPYAKALLALCLYALGD   93 (160)
T ss_pred             HHHHccCChHHHHHHHHHHHHhCCCchHHHHHHHHHH--HHhCCHHHHHHHHHHHhccC--CCChHHHHHHHHHHHHcCC
Confidence            445677899999999999987432 233445555554  57899999999999987653  4333334444444433 33


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHH
Q 023915           81 YILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEAL  120 (275)
Q Consensus        81 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~  120 (275)
                      .+- ...-+++.+.+-.|+.   ..++..+....+...|.
T Consensus        94 ~~W-r~~A~evle~~~d~~a---~~Lv~~Ll~~~~~~~a~  129 (160)
T PF09613_consen   94 PSW-RRYADEVLESGADPDA---RALVRALLARADLEPAH  129 (160)
T ss_pred             hHH-HHHHHHHHhcCCChHH---HHHHHHHHHhccccchh
Confidence            322 2233445555544443   33455554444444433

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=91.75  E-value=9.7  Score=34.34  Aligned_cols=182  Identities=9%  Similarity=-0.043  Sum_probs=89.1

Q ss_pred             CCcHHhHHHHHHHHHccCCHHHHHHHHHHHhh-cCCCCChh--------hHHHHHHHHHccCCHHHHHHHHHHHHHcCCC
Q 023915           27 KYDVVLLNSMLCAYCRTGDMESVMHVMRKLDE-LAISPDYN--------TFHILIKYFCKEKMYILAYRTMVDMHRKGHQ   97 (275)
Q Consensus        27 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-~g~~p~~~--------t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~   97 (275)
                      .|....|..|-......-.++.|...|-+... .|++.-..        .-.+=|.+  --|.+++|+++|-+|.++.+ 
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 NPHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIKLVKRLRTIHSKEQQRAEISA--FYGEFEEAEKLYLDADRRDL-  765 (1189)
T ss_pred             CCchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchhHHHHhhhhhhHHHHhHhHhh--hhcchhHhhhhhhccchhhh-
Confidence            57778888888877777777888777766554 23321111        11111222  23778888888887765432 


Q ss_pred             CCHHhHHHHHHHHhccCCHHHHHHHHHHHHhc-cccccHHhHHHHHHHHHhccchHHHHHHHHH----------------
Q 023915           98 PEEELCSSLIFHLGKMRAHSEALSVYNMLRYS-KRSMCKALHEKILHILISGKLLKDAYVVVKD----------------  160 (275)
Q Consensus        98 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~----------------  160 (275)
                              .|..+.+.|++-.+.++++.--.. ....-...|+.+-..+.....|++|.+.+..                
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                    344444455554444433320000 0011112233333333333333333333322                


Q ss_pred             ---hhc-----CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhchhHHHHHHHHHHH
Q 023915          161 ---NSE-----SISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWM  229 (275)
Q Consensus       161 ---~~~-----~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~m  229 (275)
                         +..     .-+.+..-.+..++.+.|.-++|.+.+-.   .+. |     .+.++.+ .+.++|.+|.++-+..
T Consensus       838 f~~LE~la~~Lpe~s~llp~~a~mf~svGMC~qAV~a~Lr---~s~-p-----kaAv~tC-v~LnQW~~avelaq~~  904 (1189)
T KOG2041|consen  838 FGELEVLARTLPEDSELLPVMADMFTSVGMCDQAVEAYLR---RSL-P-----KAAVHTC-VELNQWGEAVELAQRF  904 (1189)
T ss_pred             hhhHHHHHHhcCcccchHHHHHHHHHhhchHHHHHHHHHh---ccC-c-----HHHHHHH-HHHHHHHHHHHHHHhc
Confidence               111     11122344566677777777766665522   121 2     1234454 3677787787776654

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=91.33  E-value=2.9  Score=27.47  Aligned_cols=76  Identities=11%  Similarity=0.085  Sum_probs=45.6

Q ss_pred             HHHHHHHHHccCCHH--HHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHH
Q 023915           68 FHILIKYFCKEKMYI--LAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHI  144 (275)
Q Consensus        68 ~~~li~~~~~~~~~~--~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~  144 (275)
                      |++--..|....+.|  ...+-++.+....+.|++....+.+.+|.|.+++..|.++|+.++.+-.. ....|..+++.
T Consensus        11 F~ary~~~F~~~~iD~we~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~~~-~~~~Y~~~lqE   88 (108)
T PF02284_consen   11 FDARYEKYFNRPDIDGWELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKCGN-KKEIYPYILQE   88 (108)
T ss_dssp             HHHHHHHHHH-TT--HHHHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHTTT--TTHHHHHHHH
T ss_pred             HHHHHHHHhCCccccHHHHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccC-hHHHHHHHHHH
Confidence            333333444444333  34556666667778899999999999999999999999999988754222 22256666554

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 ....

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=91.31  E-value=0.66  Score=23.20  Aligned_cols=27  Identities=22%  Similarity=0.298  Sum_probs=14.1

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHhh
Q 023915           32 LLNSMLCAYCRTGDMESVMHVMRKLDE   58 (275)
Q Consensus        32 ~~~~li~~~~~~g~~~~a~~~~~~m~~   58 (275)
                      +|..+-.++...|++++|+..|++..+
T Consensus         3 ~~~~~g~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF00515_consen    3 AYYNLGNAYFQLGDYEEALEYYQRALE   29 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHH
Confidence            445555555555555555555555544

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=91.24  E-value=7.1  Score=31.84  Aligned_cols=147  Identities=10%  Similarity=-0.045  Sum_probs=85.1

Q ss_pred             cCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCH----HhHHHHHHHHhccCCHHH
Q 023915           43 TGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEE----ELCSSLIFHLGKMRAHSE  118 (275)
Q Consensus        43 ~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~----~~~~~li~~~~~~g~~~~  118 (275)
                      .|++.+|-..++++.+. .+.|...++..=.+|.-.|+.+.....++.+... ..||.    +.-..+--++..+|-+++
T Consensus       116 ~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  116 RGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK-WNADLPCYSYVHGMYAFGLEECGIYDD  193 (491)
T ss_pred             cccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccc-cCCCCcHHHHHHHHHHhhHHHhccchh
Confidence            45555666666666553 5556666777777778888887777777777632 12332    222333344456788888


Q ss_pred             HHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhcCCCh------hHHHHHHHHHHhcCChhHHHHHHHH
Q 023915          119 ALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSESISH------PAIKKFASAFVRLGNINLVNDVMKA  192 (275)
Q Consensus       119 a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~------~~~~~li~~~~~~~~~~~a~~~~~~  192 (275)
                      |.+.-++..+-+... .-...+.-..+-..+++.++.++..+-...-..      ..|-...-.+...+.++.|+++|+.
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 AEKQADRALQINRFD-CWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYDR  272 (491)
T ss_pred             HHHHHHhhccCCCcc-hHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHHH
Confidence            887777655443322 222334555555677788887777664442211      1232233344555778888888865

>PRK15331 chaperone protein SicA; Provisional

Probab=91.06  E-value=4.5  Score=29.25  Aligned_cols=94  Identities=7%  Similarity=-0.183  Sum_probs=66.2

Q ss_pred             HHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccc
Q 023915           71 LIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKL  150 (275)
Q Consensus        71 li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~  150 (275)
                      ...-+...|++++|..+|.-+...+ ..+..-+..|-.++-..+++++|...|...-.... -++..+-..-.++...|+
T Consensus        43 ~Ay~~y~~Gk~~eA~~~F~~L~~~d-~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~-~dp~p~f~agqC~l~l~~  120 (165)
T PRK15331         43 HAYEFYNQGRLDEAETFFRFLCIYD-FYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLK-NDYRPVFFTGQCQLLMRK  120 (165)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc-CCCCccchHHHHHHHhCC
Confidence            3444667899999999999988754 23333455666677778999999999986554321 112223345667888999


Q ss_pred             hHHHHHHHHHhhcCCC
Q 023915          151 LKDAYVVVKDNSESIS  166 (275)
Q Consensus       151 ~~~a~~~~~~~~~~~~  166 (275)
                      .+.|...|....+.+.
T Consensus       121 ~~~A~~~f~~a~~~~~  136 (165)
T PRK15331        121 AAKARQCFELVNERTE  136 (165)
T ss_pred             HHHHHHHHHHHHhCcc
Confidence            9999999998777543

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=90.87  E-value=12  Score=33.79  Aligned_cols=169  Identities=12%  Similarity=0.074  Sum_probs=94.1

Q ss_pred             cCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHH----------------HhhcCCCCChhhHHHH
Q 023915            8 GGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRK----------------LDELAISPDYNTFHIL   71 (275)
Q Consensus         8 ~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~----------------m~~~g~~p~~~t~~~l   71 (275)
                      -|.+++|.+++-+|.+.++         .|....+.|++-.+.++++.                |-+  .-.+...|...
T Consensus       747 ~g~feeaek~yld~drrDL---------Aielr~klgDwfrV~qL~r~g~~d~dD~~~e~A~r~ig~--~fa~~~~We~A  815 (1189)
T KOG2041|consen  747 YGEFEEAEKLYLDADRRDL---------AIELRKKLGDWFRVYQLIRNGGSDDDDEGKEDAFRNIGE--TFAEMMEWEEA  815 (1189)
T ss_pred             hcchhHhhhhhhccchhhh---------hHHHHHhhhhHHHHHHHHHccCCCcchHHHHHHHHHHHH--HHHHHHHHHHH
Confidence            4778888888887776533         24444455555555444432                111  00122234444


Q ss_pred             HHHHHccCCHHHHHHH------HHHHH--HcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHH
Q 023915           72 IKYFCKEKMYILAYRT------MVDMH--RKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILH  143 (275)
Q Consensus        72 i~~~~~~~~~~~a~~~------~~~m~--~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~  143 (275)
                      ...|.+.|+.+.-.+.      |.++.  ...++-+....-.+.+++.+.|..++|.+.|-.-.    .     -.+.+.
T Consensus       816 ~~yY~~~~~~e~~~ecly~le~f~~LE~la~~Lpe~s~llp~~a~mf~svGMC~qAV~a~Lr~s----~-----pkaAv~  886 (1189)
T KOG2041|consen  816 AKYYSYCGDTENQIECLYRLELFGELEVLARTLPEDSELLPVMADMFTSVGMCDQAVEAYLRRS----L-----PKAAVH  886 (1189)
T ss_pred             HHHHHhccchHhHHHHHHHHHhhhhHHHHHHhcCcccchHHHHHHHHHhhchHHHHHHHHHhcc----C-----cHHHHH
Confidence            4445555554442222      22221  12234455566677888888888888887765422    1     135677


Q ss_pred             HHHhccchHHHHHHHHHhhcCCChh-------------HHHHHHHHHHhcCChhHHHHHHHHHHHc
Q 023915          144 ILISGKLLKDAYVVVKDNSESISHP-------------AIKKFASAFVRLGNINLVNDVMKAIHAT  196 (275)
Q Consensus       144 ~~~~~~~~~~a~~~~~~~~~~~~~~-------------~~~~li~~~~~~~~~~~a~~~~~~m~~~  196 (275)
                      +|....+|.+|.++-+...-.....             ..---|..+.+.|++-+|.+++.+|.+.
T Consensus       887 tCv~LnQW~~avelaq~~~l~qv~tliak~aaqll~~~~~~eaIe~~Rka~~~~daarll~qmae~  952 (1189)
T KOG2041|consen  887 TCVELNQWGEAVELAQRFQLPQVQTLIAKQAAQLLADANHMEAIEKDRKAGRHLDAARLLSQMAER  952 (1189)
T ss_pred             HHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHhhcchHHHHHHhhhcccchhHHHHHHHHhHH
Confidence            8888889999888877533211111             0111356677778777788888777663

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=90.81  E-value=1.4  Score=23.72  Aligned_cols=25  Identities=12%  Similarity=-0.098  Sum_probs=11.5

Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHH
Q 023915           69 HILIKYFCKEKMYILAYRTMVDMHR   93 (275)
Q Consensus        69 ~~li~~~~~~~~~~~a~~~~~~m~~   93 (275)
                      ..+...|.+.|++++|.++|++..+
T Consensus         5 ~~la~~~~~~G~~~~A~~~~~~~l~   29 (44)
T PF13428_consen    5 LALARAYRRLGQPDEAERLLRRALA   29 (44)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3344444444444444444444443

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=90.52  E-value=4.4  Score=28.16  Aligned_cols=91  Identities=9%  Similarity=-0.140  Sum_probs=63.8

Q ss_pred             HHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhc-cccccHHhHHHHH---HHHHhcc
Q 023915           74 YFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYS-KRSMCKALHEKIL---HILISGK  149 (275)
Q Consensus        74 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~~~~~~~~~li---~~~~~~~  149 (275)
                      +.+..|+++.|++.|.+.... .+-+...||.-..++.-.|+.++|+.=+++..+- |.. +.....+.+   ..|...|
T Consensus        52 alaE~g~Ld~AlE~F~qal~l-~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~-trtacqa~vQRg~lyRl~g  129 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALCL-APERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQ-TRTACQAFVQRGLLYRLLG  129 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHh-cccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHHHHhC
Confidence            467789999999999988754 2446678999999999999999998888876653 333 333333322   2455678


Q ss_pred             chHHHHHHHHHhhcCCC
Q 023915          150 LLKDAYVVVKDNSESIS  166 (275)
Q Consensus       150 ~~~~a~~~~~~~~~~~~  166 (275)
                      +.+.|..=|+....-++
T Consensus       130 ~dd~AR~DFe~AA~LGS  146 (175)
T KOG4555|consen  130 NDDAARADFEAAAQLGS  146 (175)
T ss_pred             chHHHHHhHHHHHHhCC
Confidence            88888888876555443

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=90.50  E-value=1.4  Score=23.77  Aligned_cols=28  Identities=25%  Similarity=0.316  Sum_probs=18.6

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHHc
Q 023915          169 AIKKFASAFVRLGNINLVNDVMKAIHAT  196 (275)
Q Consensus       169 ~~~~li~~~~~~~~~~~a~~~~~~m~~~  196 (275)
                      .+..+...|...|++++|.++|+...+.
T Consensus         3 ~~~~la~~~~~~G~~~~A~~~~~~~l~~   30 (44)
T PF13428_consen    3 AWLALARAYRRLGQPDEAERLLRRALAL   30 (44)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            4455666677777777777777776664

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=90.17  E-value=2.8  Score=35.02  Aligned_cols=126  Identities=7%  Similarity=-0.110  Sum_probs=71.5

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHH----hccc-cccHHhHHHHHHHHHhccchHHHHHHHHHhhc----CCCh----hH
Q 023915          103 CSSLIFHLGKMRAHSEALSVYNMLR----YSKR-SMCKALHEKILHILISGKLLKDAYVVVKDNSE----SISH----PA  169 (275)
Q Consensus       103 ~~~li~~~~~~g~~~~a~~~~~~m~----~~~~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~----~~~~----~~  169 (275)
                      |..|-..|.-.|+++.|....+.-.    +-|. ..-...++.+-.+++-.|+++.|.+.++.-..    .++.    ..
T Consensus       198 ~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEAQs  277 (639)
T KOG1130|consen  198 YGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEAQS  277 (639)
T ss_pred             hcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHHHH
Confidence            3344444445577777776554321    1122 22234666777788888888888888875321    1111    14


Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHH----Hc-CCCCChhhHHHHHHHHHHhchhHHHHHHHHHHH
Q 023915          170 IKKFASAFVRLGNINLVNDVMKAIH----AT-GYRIDQGIFHIAIARYIAEREKKELLLKLLEWM  229 (275)
Q Consensus       170 ~~~li~~~~~~~~~~~a~~~~~~m~----~~-g~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~m  229 (275)
                      .-+|-+.|.-...+++|+..+..-.    +. ...-....|++|-.+|- ..|.-++|+.+.+.-
T Consensus       278 cYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~-alg~h~kAl~fae~h  341 (639)
T KOG1130|consen  278 CYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFN-ALGEHRKALYFAELH  341 (639)
T ss_pred             HHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHH-hhhhHHHHHHHHHHH
Confidence            4466677777777888877765421    11 11223457777877775 455556666555443

>PF14669 Asp_Glu_race_2: Putative aspartate racemase

Probab=90.02  E-value=6.4  Score=29.29  Aligned_cols=168  Identities=8%  Similarity=0.044  Sum_probs=87.3

Q ss_pred             cCCCCcHHhHHHHHHHHHccCC----HHHHHHHHHHHhhcCCCCCh----hhHHHHHHHHHccCCHHHHHHHHHHHHHcC
Q 023915           24 KYDKYDVVLLNSMLCAYCRTGD----MESVMHVMRKLDELAISPDY----NTFHILIKYFCKEKMYILAYRTMVDMHRKG   95 (275)
Q Consensus        24 ~g~~p~~~~~~~li~~~~~~g~----~~~a~~~~~~m~~~g~~p~~----~t~~~li~~~~~~~~~~~a~~~~~~m~~~g   95 (275)
                      .|..++...+|.++..+.+..-    .+-++.+=.+....+..++-    ...-.=+..|-..|||.+.-.+|-.....-
T Consensus         2 AGm~l~~Eh~~yiiklL~qlq~s~qEi~~vl~~KsR~~~~~~~~~~~~~l~~~~~eie~Ckek~DW~klg~ly~nv~~gc   81 (233)
T PF14669_consen    2 AGMVLDPEHFNYIIKLLYQLQASKQEIDAVLEIKSRLQARQFKKNWLSDLASAVVEIEHCKEKGDWTKLGNLYINVKMGC   81 (233)
T ss_pred             CcccCCHHHHHHHHHHHHhhcCchhhhHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHhhhccHHHHhhHHhhHHhhc
Confidence            5777888888888877766543    33344443333344444433    233344456666777776655555544322


Q ss_pred             CCCCH-HhHHH-HHHHHhccC--CHHHHHHHHHHHHhccccc-------cHHhHHHHHHHHHhccchHHHHHHHHHhhcC
Q 023915           96 HQPEE-ELCSS-LIFHLGKMR--AHSEALSVYNMLRYSKRSM-------CKALHEKILHILISGKLLKDAYVVVKDNSES  164 (275)
Q Consensus        96 ~~~~~-~~~~~-li~~~~~~g--~~~~a~~~~~~m~~~~~~~-------~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  164 (275)
                      -.++. ..+.. +..++.+.-  +..--+-.|.+-....++-       -..+--+++-.|-+..+|.++.++++.+.+.
T Consensus        82 e~~~dlq~~~~~va~~Ltkd~Kdk~~vPFceFAetV~k~~q~~e~dK~~LGRiGiS~m~~Yhk~~qW~KGrkvLd~l~el  161 (233)
T PF14669_consen   82 EKFADLQRFCACVAEALTKDSKDKPGVPFCEFAETVCKDPQNDEVDKTLLGRIGISLMYSYHKTLQWSKGRKVLDKLHEL  161 (233)
T ss_pred             CCHHHHHHHHHHHHHHHHhcccccCCCCHHHHHHHHhcCCccchhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            22211 11111 111221111  1100111122222111111       1123345667778888888888888876531


Q ss_pred             ---------CCh--------hHHHHHHHHHHhcCChhHHHHHHH
Q 023915          165 ---------ISH--------PAIKKFASAFVRLGNINLVNDVMK  191 (275)
Q Consensus       165 ---------~~~--------~~~~~li~~~~~~~~~~~a~~~~~  191 (275)
                               ...        ...|.....+.++|+++.|..+++
T Consensus       162 ~i~ft~LKGL~g~e~~asrCqivn~AaEiFL~sgsidGA~~vLr  205 (233)
T PF14669_consen  162 QIHFTSLKGLTGPEKLASRCQIVNIAAEIFLKSGSIDGALWVLR  205 (233)
T ss_pred             hhhhhhccCccCccccCchhhhHHHHHHHHHHcCCchHHHHHHh
Confidence                     111        145777889999999999999976

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

Probab=89.49  E-value=9.4  Score=30.45  Aligned_cols=108  Identities=7%  Similarity=0.002  Sum_probs=53.5

Q ss_pred             cHHhHHHHHHHHHhccchHHHHHHHHHhhc-CCChh-HHHHHHHHHHhc---CChhHHHHHHHHHHHcCCCCChhh-HHH
Q 023915          134 CKALHEKILHILISGKLLKDAYVVVKDNSE-SISHP-AIKKFASAFVRL---GNINLVNDVMKAIHATGYRIDQGI-FHI  207 (275)
Q Consensus       134 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~-~~~~~-~~~~li~~~~~~---~~~~~a~~~~~~m~~~g~~p~~~~-y~~  207 (275)
                      +...|..|-..|...|+.+.|..-|.+... .++.+ .+..+..++...   ....++..+|++....  .|+... -.-
T Consensus       155 d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~--D~~~iral~l  232 (287)
T COG4235         155 DAEGWDLLGRAYMALGRASDALLAYRNALRLAGDNPEILLGLAEALYYQAGQQMTAKARALLRQALAL--DPANIRALSL  232 (287)
T ss_pred             CchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhc--CCccHHHHHH
Confidence            344566666666666666666666666544 22222 333333333222   2344666666666553  243332 222


Q ss_pred             HHHHHHHhchhHHHHHHHHHHHhhCCCCCChhhHHHHHH
Q 023915          208 AIARYIAEREKKELLLKLLEWMTGQGYVVDSSTRNLILK  246 (275)
Q Consensus       208 li~~~~~~~~~~~~a~~l~~~m~~~~~~p~~~t~~~li~  246 (275)
                      |-..+. ..|++.+|...|+.|.+.  -|....+..+|+
T Consensus       233 LA~~af-e~g~~~~A~~~Wq~lL~~--lp~~~~rr~~ie  268 (287)
T COG4235         233 LAFAAF-EQGDYAEAAAAWQMLLDL--LPADDPRRSLIE  268 (287)
T ss_pred             HHHHHH-HcccHHHHHHHHHHHHhc--CCCCCchHHHHH
Confidence            333333 556666666666666653  233334444443

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=89.46  E-value=9.5  Score=30.47  Aligned_cols=50  Identities=16%  Similarity=0.111  Sum_probs=25.5

Q ss_pred             hcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHh
Q 023915            7 RGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLD   57 (275)
Q Consensus         7 ~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~   57 (275)
                      ..|++.+|..+|+........ +...--.+..+|...|+.+.|..++..+-
T Consensus       146 ~~e~~~~a~~~~~~al~~~~~-~~~~~~~la~~~l~~g~~e~A~~iL~~lP  195 (304)
T COG3118         146 EAEDFGEAAPLLKQALQAAPE-NSEAKLLLAECLLAAGDVEAAQAILAALP  195 (304)
T ss_pred             hccchhhHHHHHHHHHHhCcc-cchHHHHHHHHHHHcCChHHHHHHHHhCc
Confidence            445555555555555543222 23344445555555555555555555543

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=89.38  E-value=7.1  Score=28.90  Aligned_cols=220  Identities=15%  Similarity=0.059  Sum_probs=154.2

Q ss_pred             CcHHHHHHHHHHHHhcCCC-CcHHhHHHHHHHHHccCCHHHHHHHHHHHhhc-CCCCChhhHHHHHHHHHccCCHHHHHH
Q 023915            9 GCFEEAKQLAGDFEAKYDK-YDVVLLNSMLCAYCRTGDMESVMHVMRKLDEL-AISPDYNTFHILIKYFCKEKMYILAYR   86 (275)
Q Consensus         9 g~~~~a~~~~~~m~~~g~~-p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-g~~p~~~t~~~li~~~~~~~~~~~a~~   86 (275)
                      +....+...+......... .....+......+...+++..+...+...... ........+......+...++...+..
T Consensus        37 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  116 (291)
T COG0457          37 GELAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALE  116 (291)
T ss_pred             hhHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHH
Confidence            4556666666666654332 14678888888999999999999888887653 344555667777788888888999999


Q ss_pred             HHHHHHHcCCCCCHHhHHHHHH-HHhccCCHHHHHHHHHHHHhccc--cccHHhHHHHHHHHHhccchHHHHHHHHHhhc
Q 023915           87 TMVDMHRKGHQPEEELCSSLIF-HLGKMRAHSEALSVYNMLRYSKR--SMCKALHEKILHILISGKLLKDAYVVVKDNSE  163 (275)
Q Consensus        87 ~~~~m~~~g~~~~~~~~~~li~-~~~~~g~~~~a~~~~~~m~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  163 (275)
                      .+.........+. ........ .+...|+++.+...+........  ......+......+...++.+.+...+.....
T Consensus       117 ~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  195 (291)
T COG0457         117 LLEKALALDPDPD-LAEALLALGALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALK  195 (291)
T ss_pred             HHHHHHcCCCCcc-hHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHh
Confidence            9999887554442 22223333 78899999999999998854222  12333444455557788999999999998776


Q ss_pred             CCC---hhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCC-hhhHHHHHHHHHHhchhHHHHHHHHHHHhhC
Q 023915          164 SIS---HPAIKKFASAFVRLGNINLVNDVMKAIHATGYRID-QGIFHIAIARYIAEREKKELLLKLLEWMTGQ  232 (275)
Q Consensus       164 ~~~---~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~  232 (275)
                      ...   ...+..+-..+...+.++.+...+......  .|+ ...+..+...+. ..+..+.+...+.+....
T Consensus       196 ~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~  265 (291)
T COG0457         196 LNPDDDAEALLNLGLLYLKLGKYEEALEYYEKALEL--DPDNAEALYNLALLLL-ELGRYEEALEALEKALEL  265 (291)
T ss_pred             hCcccchHHHHHhhHHHHHcccHHHHHHHHHHHHhh--CcccHHHHhhHHHHHH-HcCCHHHHHHHHHHHHHh
Confidence            333   346777888888888999999999887774  343 344555555555 567788888888877654

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=89.31  E-value=1.1  Score=23.44  Aligned_cols=26  Identities=23%  Similarity=0.372  Sum_probs=13.1

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHh
Q 023915           32 LLNSMLCAYCRTGDMESVMHVMRKLD   57 (275)
Q Consensus        32 ~~~~li~~~~~~g~~~~a~~~~~~m~   57 (275)
                      +++.|-..|...|++++|..++++..
T Consensus         4 ~~~~la~~~~~~g~~~~A~~~~~~al   29 (42)
T PF13374_consen    4 ALNNLANAYRAQGRYEEALELLEEAL   29 (42)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcchhhHHHHHHH
Confidence            44555555555555555555555443

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=89.16  E-value=7.2  Score=34.38  Aligned_cols=100  Identities=6%  Similarity=0.019  Sum_probs=61.2

Q ss_pred             HccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHH
Q 023915           41 CRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEAL  120 (275)
Q Consensus        41 ~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~  120 (275)
                      .+.|+.+.|.++..+.      -+..-|..|-++..+.+++..|.+.|....+         |..|+-.+...|+.+...
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            3567777777765554      3345577777777777777777777766543         445666666666666555


Q ss_pred             HHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHh
Q 023915          121 SVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDN  161 (275)
Q Consensus       121 ~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  161 (275)
                      .+-..-...|..      |...-+|-..|+++++.+++.+-
T Consensus       713 ~la~~~~~~g~~------N~AF~~~~l~g~~~~C~~lLi~t  747 (794)
T KOG0276|consen  713 VLASLAKKQGKN------NLAFLAYFLSGDYEECLELLIST  747 (794)
T ss_pred             HHHHHHHhhccc------chHHHHHHHcCCHHHHHHHHHhc
Confidence            554444443332      33344555667777777776653

>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=89.13  E-value=5.3  Score=29.97  Aligned_cols=83  Identities=12%  Similarity=0.059  Sum_probs=58.9

Q ss_pred             HHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhc---cccccHHhHHHHHHHHHhc
Q 023915           72 IKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYS---KRSMCKALHEKILHILISG  148 (275)
Q Consensus        72 i~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~---~~~~~~~~~~~li~~~~~~  148 (275)
                      --.+.+.|| +.|.+.|-++...+.--++.....|...|. ..+.+++..++......   +-.+++..+.+|...+-+.
T Consensus       114 Yy~Wsr~~d-~~A~~~fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~  191 (203)
T PF11207_consen  114 YYHWSRFGD-QEALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKL  191 (203)
T ss_pred             HHHhhccCc-HHHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHh
Confidence            334555565 557888888877765555555555555555 67888888888876642   3477888899999999999


Q ss_pred             cchHHHHH
Q 023915          149 KLLKDAYV  156 (275)
Q Consensus       149 ~~~~~a~~  156 (275)
                      ++.+.|.-
T Consensus       192 ~~~e~AYi  199 (203)
T PF11207_consen  192 KNYEQAYI  199 (203)
T ss_pred             cchhhhhh
Confidence            99988863

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=88.93  E-value=1.2  Score=23.29  Aligned_cols=27  Identities=11%  Similarity=0.124  Sum_probs=15.0

Q ss_pred             hhHHHHHHHHHccCCHHHHHHHHHHHH
Q 023915           66 NTFHILIKYFCKEKMYILAYRTMVDMH   92 (275)
Q Consensus        66 ~t~~~li~~~~~~~~~~~a~~~~~~m~   92 (275)
                      .+++.|...|...|++++|..++++..
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            345555556666666666666665554

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=88.79  E-value=9.6  Score=29.66  Aligned_cols=87  Identities=11%  Similarity=0.051  Sum_probs=45.2

Q ss_pred             HHHHHHHHHhccchHHHHHHHHHhhc-------CCCh-hHHHHHHHHHHhcCChhHHHHHHHHHHHc---CCCCChhhHH
Q 023915          138 HEKILHILISGKLLKDAYVVVKDNSE-------SISH-PAIKKFASAFVRLGNINLVNDVMKAIHAT---GYRIDQGIFH  206 (275)
Q Consensus       138 ~~~li~~~~~~~~~~~a~~~~~~~~~-------~~~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~---g~~p~~~~y~  206 (275)
                      +..+-+.+++...+++|-..+.+...       -+++ ..|-..|-.|.-..++..|...++.-.+.   .-.-+..+..
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            44444555556666555444433221       1111 12444555566666777777777663332   1122345677


Q ss_pred             HHHHHHHHhchhHHHHHHHH
Q 023915          207 IAIARYIAEREKKELLLKLL  226 (275)
Q Consensus       207 ~li~~~~~~~~~~~~a~~l~  226 (275)
                      .||.+|  ..|+.+++.++.
T Consensus       233 nLL~ay--d~gD~E~~~kvl  250 (308)
T KOG1585|consen  233 NLLTAY--DEGDIEEIKKVL  250 (308)
T ss_pred             HHHHHh--ccCCHHHHHHHH
Confidence            777776  456666665544

>PF11848 DUF3368: Domain of unknown function (DUF3368); InterPro: IPR021799 This domain is functionally uncharacterised

Probab=88.64  E-value=2.1  Score=23.78  Aligned_cols=41  Identities=17%  Similarity=0.242  Sum_probs=29.5

Q ss_pred             hHHHHHHHHHHhchhHHHHHHHHHHHhhCCCCCChhhHHHHHH
Q 023915          204 IFHIAIARYIAEREKKELLLKLLEWMTGQGYVVDSSTRNLILK  246 (275)
Q Consensus       204 ~y~~li~~~~~~~~~~~~a~~l~~~m~~~~~~p~~~t~~~li~  246 (275)
                      |...|+.+  .+.|-.+++..++++|.+.|+..+...|..+++
T Consensus         5 TlGiL~~A--k~~GlI~~~~~~l~~l~~~g~~is~~l~~~~L~   45 (48)
T PF11848_consen    5 TLGILLLA--KRRGLISEVKPLLDRLQQAGFRISPKLIEEILR   45 (48)
T ss_pred             hHHHHHHH--HHcCChhhHHHHHHHHHHcCcccCHHHHHHHHH
Confidence            44556655  255777778888888888888888877777765

This domain is found in bacteria and archaea. This presumed domain is about 50 amino acids in length.

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=88.60  E-value=15  Score=31.70  Aligned_cols=73  Identities=12%  Similarity=-0.013  Sum_probs=45.4

Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHcCCC-CCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccc-cccHHhHHHHH
Q 023915           70 ILIKYFCKEKMYILAYRTMVDMHRKGHQ-PEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKR-SMCKALHEKIL  142 (275)
Q Consensus        70 ~li~~~~~~~~~~~a~~~~~~m~~~g~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~-~~~~~~~~~li  142 (275)
                      .+...+.+.|+.++|.+.+.+|.+..-. -+......|+.++...+.+.++..++..-..... +.-...|++.+
T Consensus       264 RLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpkSAti~YTaAL  338 (539)
T PF04184_consen  264 RLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPKSATICYTAAL  338 (539)
T ss_pred             HHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCchHHHHHHHHH
Confidence            4455556778888888888888754311 1233566788888888888888888777643222 22334566544

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=88.53  E-value=6.5  Score=29.49  Aligned_cols=79  Identities=14%  Similarity=0.151  Sum_probs=60.4

Q ss_pred             HHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHc---CCCCCHHhHHHHHHHHhccCCH
Q 023915           40 YCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRK---GHQPEEELCSSLIFHLGKMRAH  116 (275)
Q Consensus        40 ~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~---g~~~~~~~~~~li~~~~~~g~~  116 (275)
                      .++.|+ +.|.+.|-.+...+.--|+...-.|...|. ..|.+++.+++.+..+.   +-.+|+..+.+|...|.+.|+.
T Consensus       117 Wsr~~d-~~A~~~fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~  194 (203)
T PF11207_consen  117 WSRFGD-QEALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNY  194 (203)
T ss_pred             hhccCc-HHHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcch
Confidence            444455 688889989888877656555555555555 67889999999988753   3367889999999999999999


Q ss_pred             HHHH
Q 023915          117 SEAL  120 (275)
Q Consensus       117 ~~a~  120 (275)
                      +.|-
T Consensus       195 e~AY  198 (203)
T PF11207_consen  195 EQAY  198 (203)
T ss_pred             hhhh
Confidence            8874

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=88.43  E-value=1.5  Score=21.65  Aligned_cols=26  Identities=23%  Similarity=0.256  Sum_probs=13.2

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHhh
Q 023915           33 LNSMLCAYCRTGDMESVMHVMRKLDE   58 (275)
Q Consensus        33 ~~~li~~~~~~g~~~~a~~~~~~m~~   58 (275)
                      |..+-..+.+.|++++|++.|++..+
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            44444555555555555555555544

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 ....

>PF13934 ELYS: Nuclear pore complex assembly

Probab=88.12  E-value=10  Score=29.21  Aligned_cols=70  Identities=9%  Similarity=0.102  Sum_probs=30.5

Q ss_pred             HHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhcCCChhHHHHHHHHHH
Q 023915          106 LIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSESISHPAIKKFASAFV  178 (275)
Q Consensus       106 li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~li~~~~  178 (275)
                      ++.++...|+.+.|+.+++...-....  ...-..++.. ..++.+.+|+.+-+...+....+.+..++..+.
T Consensus       114 Il~~L~~~~~~~lAL~y~~~~~p~l~s--~~~~~~~~~~-La~~~v~EAf~~~R~~~~~~~~~l~e~l~~~~~  183 (226)
T PF13934_consen  114 ILQALLRRGDPKLALRYLRAVGPPLSS--PEALTLYFVA-LANGLVTEAFSFQRSYPDELRRRLFEQLLEHCL  183 (226)
T ss_pred             HHHHHHHCCChhHHHHHHHhcCCCCCC--HHHHHHHHHH-HHcCCHHHHHHHHHhCchhhhHHHHHHHHHHHH
Confidence            555555555555555555543211111  1111222222 444555555555555444333344444444444

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=87.85  E-value=8.8  Score=30.41  Aligned_cols=87  Identities=9%  Similarity=0.029  Sum_probs=54.2

Q ss_pred             HHHHHHHccCCHHHHHHHHHHHhhc--CCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhc
Q 023915           35 SMLCAYCRTGDMESVMHVMRKLDEL--AISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGK  112 (275)
Q Consensus        35 ~li~~~~~~g~~~~a~~~~~~m~~~--g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~  112 (275)
                      .=|.+++..+++.+++...-+-.+.  .++|.+  ....|-.|+|.+.+..+.++-..=.+.--.-+...|.++...|..
T Consensus        88 vGIQALAEmnrWreVLsWvlqyYq~pEklPpkI--leLCILLysKv~Ep~amlev~~~WL~~p~Nq~lp~y~~vaELyLl  165 (309)
T PF07163_consen   88 VGIQALAEMNRWREVLSWVLQYYQVPEKLPPKI--LELCILLYSKVQEPAAMLEVASAWLQDPSNQSLPEYGTVAELYLL  165 (309)
T ss_pred             hhHHHHHHHhhHHHHHHHHHHHhcCcccCCHHH--HHHHHHHHHHhcCHHHHHHHHHHHHhCcccCCchhhHHHHHHHHH
Confidence            3467888888888877665555443  244443  444555577888888777776665543222223346666666654


Q ss_pred             -----cCCHHHHHHHH
Q 023915          113 -----MRAHSEALSVY  123 (275)
Q Consensus       113 -----~g~~~~a~~~~  123 (275)
                           .|.+++|.++.
T Consensus       166 ~VLlPLG~~~eAeelv  181 (309)
T PF07163_consen  166 HVLLPLGHFSEAEELV  181 (309)
T ss_pred             HHHhccccHHHHHHHH
Confidence                 58888888776

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

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=87.71  E-value=1.1  Score=22.69  Aligned_cols=22  Identities=23%  Similarity=0.404  Sum_probs=15.5

Q ss_pred             cHHhHHHHHHHHHccCCHHHHH
Q 023915           29 DVVLLNSMLCAYCRTGDMESVM   50 (275)
Q Consensus        29 ~~~~~~~li~~~~~~g~~~~a~   50 (275)
                      |...|+.+-..|...|++++|+
T Consensus        12 n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen   12 NAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             CHHHHHHHHHHHHHCcCHHhhc
Confidence            5667777777777777777664

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=87.50  E-value=9.6  Score=28.16  Aligned_cols=187  Identities=13%  Similarity=0.004  Sum_probs=121.0

Q ss_pred             cCCHHHHHHHHHHHhhcCCC-CChhhHHHHHHHHHccCCHHHHHHHHHHHHHc-CCCCCHHhHHHHHHHHhccCCHHHHH
Q 023915           43 TGDMESVMHVMRKLDELAIS-PDYNTFHILIKYFCKEKMYILAYRTMVDMHRK-GHQPEEELCSSLIFHLGKMRAHSEAL  120 (275)
Q Consensus        43 ~g~~~~a~~~~~~m~~~g~~-p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~-g~~~~~~~~~~li~~~~~~g~~~~a~  120 (275)
                      .+....+...+......... .....+......+...+++..+...+...... ........+......+...++...+.
T Consensus        36 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  115 (291)
T COG0457          36 LGELAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEAL  115 (291)
T ss_pred             HhhHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHH
Confidence            45666676776666654322 13566777778888888888888888877653 33445556777777777888888888


Q ss_pred             HHHHHHHhccccccHHhHHHHHH-HHHhccchHHHHHHHHHhhcCCCh------hHHHHHHHHHHhcCChhHHHHHHHHH
Q 023915          121 SVYNMLRYSKRSMCKALHEKILH-ILISGKLLKDAYVVVKDNSESISH------PAIKKFASAFVRLGNINLVNDVMKAI  193 (275)
Q Consensus       121 ~~~~~m~~~~~~~~~~~~~~li~-~~~~~~~~~~a~~~~~~~~~~~~~------~~~~~li~~~~~~~~~~~a~~~~~~m  193 (275)
                      +.+.........+.. ....... .+...|+++.|...+.+... ..+      ..+......+...++.+.+...+...
T Consensus       116 ~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~  193 (291)
T COG0457         116 ELLEKALALDPDPDL-AEALLALGALYELGDYEEALELYEKALE-LDPELNELAEALLALGALLEALGRYEEALELLEKA  193 (291)
T ss_pred             HHHHHHHcCCCCcch-HHHHHHHHHHHHcCCHHHHHHHHHHHHh-cCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHH
Confidence            888887764444321 2222222 67888888888888888755 222      12333344466778888888888877


Q ss_pred             HHcCCCCChhhHHHHHHHHHHhchhHHHHHHHHHHHhhC
Q 023915          194 HATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTGQ  232 (275)
Q Consensus       194 ~~~g~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~  232 (275)
                      ...........+..+-..+. ..+.++.+...+......
T Consensus       194 ~~~~~~~~~~~~~~~~~~~~-~~~~~~~a~~~~~~~~~~  231 (291)
T COG0457         194 LKLNPDDDAEALLNLGLLYL-KLGKYEEALEYYEKALEL  231 (291)
T ss_pred             HhhCcccchHHHHHhhHHHH-HcccHHHHHHHHHHHHhh
Confidence            76421112455666665654 556677788888877654

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=87.28  E-value=15  Score=30.13  Aligned_cols=187  Identities=11%  Similarity=0.056  Sum_probs=100.4

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcC---CCC-ChhhHHHHHHHHHcc
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA---ISP-DYNTFHILIKYFCKE   78 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g---~~p-~~~t~~~li~~~~~~   78 (275)
                      .+.-+.|+++...+........  .++...|.++...  +.++.+++....+...+.-   +.+ ....|........+.
T Consensus         6 eaaWrl~~Wd~l~~~~~~~~~~--~~~~~~~~al~~l--~~~~~~~~~~~i~~~r~~~~~~l~~~~~~s~~~~y~~l~~l   81 (352)
T PF02259_consen    6 EAAWRLGDWDLLEEYLSQSNED--SPEYSFYRALLAL--RQGDYDEAKKYIEKARQLLLDELSALSSESYQRAYPSLVKL   81 (352)
T ss_pred             HHHHhcCChhhHHHHHhhccCC--ChhHHHHHHHHHH--hCccHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHH
Confidence            4556778888866665555432  3355556655554  7889999888888776531   111 112233333333333


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhc-----cCCHHH---HHHHHHHHHh--ccccccHHhHHHHHHHHHhc
Q 023915           79 KMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGK-----MRAHSE---ALSVYNMLRY--SKRSMCKALHEKILHILISG  148 (275)
Q Consensus        79 ~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~-----~g~~~~---a~~~~~~m~~--~~~~~~~~~~~~li~~~~~~  148 (275)
                      ..+.+..++.+-....  ..+......++.....     ..+++.   .+.+-..+..  ........++..+.+.+.+.
T Consensus        82 q~L~Elee~~~~~~~~--~~~~~~~~~l~~~W~~Rl~~~~~~~~~~~~il~~R~~~l~~~~~~~~~~~~~l~~a~~aRk~  159 (352)
T PF02259_consen   82 QQLVELEEIIELKSNL--SQNPQDLKSLLKRWRSRLPNMQDDFSVWEPILSLRRLVLSLILLPEELAETWLKFAKLARKA  159 (352)
T ss_pred             hHHHHHHHHHHHHHhh--cccHHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHC
Confidence            2222222222222111  0001122222222211     111111   1111111111  12333445788889999999


Q ss_pred             cchHHHHHHHHHhhcCC------ChhHHHHHHHHHHhcCChhHHHHHHHHHHH
Q 023915          149 KLLKDAYVVVKDNSESI------SHPAIKKFASAFVRLGNINLVNDVMKAIHA  195 (275)
Q Consensus       149 ~~~~~a~~~~~~~~~~~------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  195 (275)
                      |+++.|...+..+....      .+...-...+.+-..|+..+|...++....
T Consensus       160 g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~  212 (352)
T PF02259_consen  160 GNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLK  212 (352)
T ss_pred             CCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            99999999999877643      444556667888888999999998888776

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=86.96  E-value=8.1  Score=29.49  Aligned_cols=55  Identities=11%  Similarity=0.188  Sum_probs=27.2

Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHhhcCCCCC-hhhHHHHHHHHHccCCHHHHHHHHHH
Q 023915           34 NSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYILAYRTMVD   90 (275)
Q Consensus        34 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~~a~~~~~~   90 (275)
                      +..|+.+.+.+..++|+.+.++-.+.  +|+ ..+-..+++.++-.|+|++|..-++-
T Consensus         5 ~~t~seLL~~~sL~dai~~a~~qVka--kPtda~~RhflfqLlcvaGdw~kAl~Ql~l   60 (273)
T COG4455           5 RDTISELLDDNSLQDAIGLARDQVKA--KPTDAGGRHFLFQLLCVAGDWEKALAQLNL   60 (273)
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHhc--CCccccchhHHHHHHhhcchHHHHHHHHHH
Confidence            34455555555556655555444332  232 22333555555666666655544443

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=86.06  E-value=7.7  Score=29.62  Aligned_cols=58  Identities=10%  Similarity=-0.015  Sum_probs=32.5

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHh
Q 023915          103 CSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDN  161 (275)
Q Consensus       103 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  161 (275)
                      .+..+..+.+.+.+.+++...++-.+.++. +..+-..+++-+|-.|+|++|..-++-.
T Consensus         4 l~~t~seLL~~~sL~dai~~a~~qVkakPt-da~~RhflfqLlcvaGdw~kAl~Ql~l~   61 (273)
T COG4455           4 LRDTISELLDDNSLQDAIGLARDQVKAKPT-DAGGRHFLFQLLCVAGDWEKALAQLNLA   61 (273)
T ss_pred             hHHHHHHHHHhccHHHHHHHHHHHHhcCCc-cccchhHHHHHHhhcchHHHHHHHHHHH
Confidence            344555566666666666666654433222 2234455666666677777666555543

>PHA02875 ankyrin repeat protein; Provisional

Probab=86.05  E-value=14  Score=31.36  Aligned_cols=210  Identities=12%  Similarity=-0.005  Sum_probs=100.7

Q ss_pred             hhhhcCcHHHHHHHHHHHHhcCCCCcHHh--HHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChh--hHHHHHHHHHccC
Q 023915            4 AFCRGGCFEEAKQLAGDFEAKYDKYDVVL--LNSMLCAYCRTGDMESVMHVMRKLDELAISPDYN--TFHILIKYFCKEK   79 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~--~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~--t~~~li~~~~~~~   79 (275)
                      ..++.|+.+-+..++    +.|..|+...  ..+.+...++.|+.+-    .+.+.+.|..|+..  ...+.+...+..|
T Consensus         8 ~A~~~g~~~iv~~Ll----~~g~~~n~~~~~g~tpL~~A~~~~~~~~----v~~Ll~~ga~~~~~~~~~~t~L~~A~~~g   79 (413)
T PHA02875          8 DAILFGELDIARRLL----DIGINPNFEIYDGISPIKLAMKFRDSEA----IKLLMKHGAIPDVKYPDIESELHDAVEEG   79 (413)
T ss_pred             HHHHhCCHHHHHHHH----HCCCCCCccCCCCCCHHHHHHHcCCHHH----HHHHHhCCCCccccCCCcccHHHHHHHCC
Confidence            445667776555554    4677766543  3445556667777753    34445566656543  1234566667788


Q ss_pred             CHHHHHHHHHHHHHcCCCCCHH---hHHHHHHHHhccCCHHHHHHHHHHHHhccccccHH--hHHHHHHHHHhccchHHH
Q 023915           80 MYILAYRTMVDMHRKGHQPEEE---LCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKA--LHEKILHILISGKLLKDA  154 (275)
Q Consensus        80 ~~~~a~~~~~~m~~~g~~~~~~---~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~--~~~~li~~~~~~~~~~~a  154 (275)
                      +.+.+..+++    .|...+..   .-.+.+...+..|+.+-+.    .+.+.|..++..  .-...+...+..|+.+-+
T Consensus        80 ~~~~v~~Ll~----~~~~~~~~~~~~g~tpL~~A~~~~~~~iv~----~Ll~~gad~~~~~~~g~tpLh~A~~~~~~~~v  151 (413)
T PHA02875         80 DVKAVEELLD----LGKFADDVFYKDGMTPLHLATILKKLDIMK----LLIARGADPDIPNTDKFSPLHLAVMMGDIKGI  151 (413)
T ss_pred             CHHHHHHHHH----cCCcccccccCCCCCHHHHHHHhCCHHHHH----HHHhCCCCCCCCCCCCCCHHHHHHHcCCHHHH
Confidence            8876555443    34222111   1123334444556664433    334444443221  112334455567777766


Q ss_pred             HHHHHHhhcCCChh-HHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhh---HHHHHHHHHHhchhHHHHHHHHHHHh
Q 023915          155 YVVVKDNSESISHP-AIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGI---FHIAIARYIAEREKKELLLKLLEWMT  230 (275)
Q Consensus       155 ~~~~~~~~~~~~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~---y~~li~~~~~~~~~~~~a~~l~~~m~  230 (275)
                      ..+++.-....... .-.+.+...+..|+.+    +.+.+.+.|..|+...   ..+++...+ ..|+.+    +.+.+.
T Consensus       152 ~~Ll~~g~~~~~~d~~g~TpL~~A~~~g~~e----iv~~Ll~~ga~~n~~~~~~~~t~l~~A~-~~~~~~----iv~~Ll  222 (413)
T PHA02875        152 ELLIDHKACLDIEDCCGCTPLIIAMAKGDIA----ICKMLLDSGANIDYFGKNGCVAALCYAI-ENNKID----IVRLFI  222 (413)
T ss_pred             HHHHhcCCCCCCCCCCCCCHHHHHHHcCCHH----HHHHHHhCCCCCCcCCCCCCchHHHHHH-HcCCHH----HHHHHH
Confidence            66655422211011 0112233344456654    3344556676665432   123443223 456655    334444


Q ss_pred             hCCCCCCh
Q 023915          231 GQGYVVDS  238 (275)
Q Consensus       231 ~~~~~p~~  238 (275)
                      +.|..|+.
T Consensus       223 ~~gad~n~  230 (413)
T PHA02875        223 KRGADCNI  230 (413)
T ss_pred             HCCcCcch
Confidence            56666553

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=86.01  E-value=15  Score=28.73  Aligned_cols=205  Identities=13%  Similarity=0.026  Sum_probs=107.1

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHh
Q 023915           32 LLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLG  111 (275)
Q Consensus        32 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  111 (275)
                      .|..--.+|-...++++|..-+.+..+ +..-+...|       -..+..+.|..+.++|.+..  --+..|+.-...|.
T Consensus        33 ~yekAAvafRnAk~feKakdcLlkA~~-~yEnnrslf-------hAAKayEqaamLake~~kls--Evvdl~eKAs~lY~  102 (308)
T KOG1585|consen   33 LYEKAAVAFRNAKKFEKAKDCLLKASK-GYENNRSLF-------HAAKAYEQAAMLAKELSKLS--EVVDLYEKASELYV  102 (308)
T ss_pred             HHHHHHHHHHhhccHHHHHHHHHHHHH-HHHhcccHH-------HHHHHHHHHHHHHHHHHHhH--HHHHHHHHHHHHHH
Confidence            455555666667777777766555442 111121111       11233455555555555421  11235666777777


Q ss_pred             ccCCHHHHHHHHHHHHh--ccccccH--HhHHHHHHHHHhccchHHHHHHHHHhhcCCChhHHHHHHHHHHhcCChhHHH
Q 023915          112 KMRAHSEALSVYNMLRY--SKRSMCK--ALHEKILHILISGKLLKDAYVVVKDNSESISHPAIKKFASAFVRLGNINLVN  187 (275)
Q Consensus       112 ~~g~~~~a~~~~~~m~~--~~~~~~~--~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~  187 (275)
                      .+|.++.|-..++..-.  .++.|+.  ..|.--+...-..++...|.+            .|...-+.+.+..++++|-
T Consensus       103 E~GspdtAAmaleKAak~lenv~Pd~AlqlYqralavve~~dr~~ma~e------------l~gk~sr~lVrl~kf~Eaa  170 (308)
T KOG1585|consen  103 ECGSPDTAAMALEKAAKALENVKPDDALQLYQRALAVVEEDDRDQMAFE------------LYGKCSRVLVRLEKFTEAA  170 (308)
T ss_pred             HhCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHhccchHHHHHH------------HHHHhhhHhhhhHHhhHHH
Confidence            88887777666655432  1233322  122222222222333333333            3445567777788887776


Q ss_pred             HHHHHHHHc----CCCCCh-hhHHHHHHHHHHhchhHHHHHHHHHHHhh---CCCCCChhhHHHHHHHHHHhhHHHHHHH
Q 023915          188 DVMKAIHAT----GYRIDQ-GIFHIAIARYIAEREKKELLLKLLEWMTG---QGYVVDSSTRNLILKNSHLFGRQLIADI  259 (275)
Q Consensus       188 ~~~~~m~~~----g~~p~~-~~y~~li~~~~~~~~~~~~a~~l~~~m~~---~~~~p~~~t~~~li~~~~~~g~~~~~~~  259 (275)
                      ..+..-...    .--|+. ..|...|-.|+ ...++..|.+.++.--+   ..-+-+..+...||.+|-....+....+
T Consensus       171 ~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L-~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ayd~gD~E~~~kv  249 (308)
T KOG1585|consen  171 TAFLKEGVAADKCDAYNSQCKAYVAAILVYL-YAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAYDEGDIEEIKKV  249 (308)
T ss_pred             HHHHHhhhHHHHHhhcccHHHHHHHHHHHHh-hHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHhccCCHHHHHHH
Confidence            665432221    111222 23444444555 55788889999987433   3334567899999999966554444433

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=85.71  E-value=23  Score=30.70  Aligned_cols=59  Identities=14%  Similarity=0.171  Sum_probs=44.4

Q ss_pred             HHHHHHhccCCHHHHHHHHHHHHhcccc-ccHHhHHHHHHHHHhccchHHHHHHHHHhhc
Q 023915          105 SLIFHLGKMRAHSEALSVYNMLRYSKRS-MCKALHEKILHILISGKLLKDAYVVVKDNSE  163 (275)
Q Consensus       105 ~li~~~~~~g~~~~a~~~~~~m~~~~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  163 (275)
                      .+-.++-+.|+.++|.+.|++|.+.... ........++.++...+.+.++..++.+-.+
T Consensus       264 RLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdD  323 (539)
T PF04184_consen  264 RLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDD  323 (539)
T ss_pred             HHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhcc
Confidence            3555666789999999999988764333 3444677889999999999999888888654

The molecular function of this protein is uncertain.

>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=85.55  E-value=2  Score=21.26  Aligned_cols=27  Identities=22%  Similarity=0.234  Sum_probs=14.5

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHhh
Q 023915           32 LLNSMLCAYCRTGDMESVMHVMRKLDE   58 (275)
Q Consensus        32 ~~~~li~~~~~~g~~~~a~~~~~~m~~   58 (275)
                      +|..+-..|...|++++|.+.|++..+
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            344455555555555555555555443

...

>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=85.40  E-value=18  Score=29.33  Aligned_cols=143  Identities=12%  Similarity=0.065  Sum_probs=84.3

Q ss_pred             HHHHHh-ccCCHHHHHHHHHHHHhccc----cccHHhHHHHHHHHHhccchHHHHHHHHHhhcCCChhHHHHHHHHHHhc
Q 023915          106 LIFHLG-KMRAHSEALSVYNMLRYSKR----SMCKALHEKILHILISGKLLKDAYVVVKDNSESISHPAIKKFASAFVRL  180 (275)
Q Consensus       106 li~~~~-~~g~~~~a~~~~~~m~~~~~----~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~li~~~~~~  180 (275)
                      ++...| ..+..+.|.+.|+.....+.    .+++.....++...++.|..+.-..+++......++..-..++.+++..
T Consensus       135 ~~~~a~~~~~~~~~a~~~~~~~~~~~~~~~~~i~~dlr~~v~~~~~~~g~~~~~~~l~~~~~~~~~~~~k~~~l~aLa~~  214 (324)
T PF11838_consen  135 LLSLACGDPECVAEARELFKAWLDGNDSPESSIPPDLRWAVYCAGVRNGDEEEWDFLWELYKNSTSPEEKRRLLSALACS  214 (324)
T ss_dssp             HHHHHHT-HHHHHHHHHHHHHHHHTTT-TTSTS-HHHHHHHHHHHTTS--HHHHHHHHHHHHTTSTHHHHHHHHHHHTT-
T ss_pred             HHHHhccchhHHHHHHHHHHHHhcCCcccccccchHHHHHHHHHHHHHhhHhhHHHHHHHHhccCCHHHHHHHHHhhhcc
Confidence            344444 22235678888888776522    4566677778888888888777666666666666777788999999999


Q ss_pred             CChhHHHHHHHHHHHcCCCCChhhHHHHHHHHH-HhchhHHHHHHHHH----HHhhCCCCCChhhHHHHHHHHHH
Q 023915          181 GNINLVNDVMKAIHATGYRIDQGIFHIAIARYI-AEREKKELLLKLLE----WMTGQGYVVDSSTRNLILKNSHL  250 (275)
Q Consensus       181 ~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~-~~~~~~~~a~~l~~----~m~~~~~~p~~~t~~~li~~~~~  250 (275)
                      .+.+...++++.....+..++...+. ++.++. ....-.+.+.+.+.    .+. ..+.++......++.++..
T Consensus       215 ~d~~~~~~~l~~~l~~~~v~~~d~~~-~~~~~~~~~~~~~~~~~~~~~~n~~~i~-~~~~~~~~~~~~~~~~~~~  287 (324)
T PF11838_consen  215 PDPELLKRLLDLLLSNDKVRSQDIRY-VLAGLASSNPVGRDLAWEFFKENWDAII-KKFGTNSSALSRVIKSFAG  287 (324)
T ss_dssp             S-HHHHHHHHHHHHCTSTS-TTTHHH-HHHHHH-CSTTCHHHHHHHHHHCHHHHH-CHC-TTSHCCHHHHHCCCT
T ss_pred             CCHHHHHHHHHHHcCCcccccHHHHH-HHHHHhcCChhhHHHHHHHHHHHHHHHH-HHhcCCChHHHHHHHHHhc
Confidence            99999999999888854233444444 444443 22121244555544    332 2344444466667765433

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.

>cd00280 TRFH Telomeric Repeat binding Factor or TTAGGG Repeat binding Factor, central (dimerization) domain Homology; TRFH

Probab=85.33  E-value=8.9  Score=28.32  Aligned_cols=65  Identities=12%  Similarity=0.239  Sum_probs=31.6

Q ss_pred             HHHHHHHHHHHHhcCCCCcH--Hh-----HHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHcc
Q 023915           11 FEEAKQLAGDFEAKYDKYDV--VL-----LNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKE   78 (275)
Q Consensus        11 ~~~a~~~~~~m~~~g~~p~~--~~-----~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~   78 (275)
                      ++.|+.+|+.+.+.-..|..  ..     --..+..|.+.|.+++|.++++...+.   |+......-+....+.
T Consensus        85 LESAl~v~~~I~~E~~~~~~lhe~i~~lik~~aV~VCm~~g~Fk~A~eiLkr~~~d---~~~~~~r~kL~~II~~  156 (200)
T cd00280          85 LESALMVLESIEKEFSLPETLHEEIRKLIKEQAVAVCMENGEFKKAEEVLKRLFSD---PESQKLRMKLLMIIRE  156 (200)
T ss_pred             HHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHhcC---CCchhHHHHHHHHHHc
Confidence            35566666666654222211  11     122334566666666666666666552   4444444444444433

Telomeres are protein/DNA complexes that make up the physical ends of eukaryotic linear chromosomes and are essential for chromosome stability, protecting the chromosome ends from degradation and end-to-end fusion. Proteins TRF1, TRF2 and Taz1 bind telomeric DNA and are also involved in recruiting interacting proteins, TIN2, and Rap1, to the telomeres. It has also been demonstrated that PARP1 associates with TRF2 and is capable of poly(ADP-ribosyl)ation of TRF2, which affects binding of TRF2 to telomeric DNA. TRF1, TRF2 and Taz1 proteins contain three functional domains: an N-terminal acidic domain, a central TRF-specific/dimerization domain, and a C-terminal DNA binding domain with a single Myb-like repeat. Homodimerization, a prerequisite to DNA binding, results in the juxtaposition of two Myb DNA binding domains.

>PRK10564 maltose regulon periplasmic protein; Provisional

Probab=85.25  E-value=2.5  Score=33.71  Aligned_cols=44  Identities=18%  Similarity=0.142  Sum_probs=29.1

Q ss_pred             CCCChhh-HHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHH
Q 023915           61 ISPDYNT-FHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCS  104 (275)
Q Consensus        61 ~~p~~~t-~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~  104 (275)
                      +.||..+ |+..|....+.||+++|++++++..+.|..--..+|-
T Consensus       252 v~~dTe~Yy~~aI~~AVk~gDi~KAL~LldEAe~LG~~~Ar~tFi  296 (303)
T PRK10564        252 MLNDTESYFNQAIKQAVKKGDVDKALKLLDEAERLGSTSARSTFI  296 (303)
T ss_pred             cCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCchHHHHHH
Confidence            4455555 4577777777777777777777777777655444443

>COG5159 RPN6 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]

Probab=84.00  E-value=20  Score=28.67  Aligned_cols=20  Identities=10%  Similarity=0.154  Sum_probs=10.7

Q ss_pred             HHHHHHHhcCChhHHHHHHH
Q 023915          172 KFASAFVRLGNINLVNDVMK  191 (275)
Q Consensus       172 ~li~~~~~~~~~~~a~~~~~  191 (275)
                      .++..+.+.|.+.+|..+.+
T Consensus       130 Kli~l~y~~~~YsdalalIn  149 (421)
T COG5159         130 KLIYLLYKTGKYSDALALIN  149 (421)
T ss_pred             HHHHHHHhcccHHHHHHHHH
Confidence            34555555555555555443

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=83.96  E-value=13  Score=26.46  Aligned_cols=19  Identities=21%  Similarity=-0.024  Sum_probs=9.2

Q ss_pred             hccCCHHHHHHHHHHHHhc
Q 023915          111 GKMRAHSEALSVYNMLRYS  129 (275)
Q Consensus       111 ~~~g~~~~a~~~~~~m~~~  129 (275)
                      ...|++++|..+|+++...
T Consensus        55 i~rg~w~eA~rvlr~l~~~   73 (153)
T TIGR02561        55 IARGNYDEAARILRELLSS   73 (153)
T ss_pred             HHcCCHHHHHHHHHhhhcc
Confidence            3445555555555554433

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B

Probab=83.87  E-value=4.9  Score=23.72  Aligned_cols=47  Identities=17%  Similarity=0.299  Sum_probs=27.5

Q ss_pred             cHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhh
Q 023915           10 CFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDE   58 (275)
Q Consensus        10 ~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~   58 (275)
                      .++.+.++++.++..  ..|-.-.-.+|.++...|++++|.+...++.+
T Consensus         5 ~~~~~~~~~~~lR~~--RHD~~NhLqvI~gllqlg~~~~a~eYi~~~~~   51 (62)
T PF14689_consen    5 QLEELEELIDSLRAQ--RHDFLNHLQVIYGLLQLGKYEEAKEYIKELSK   51 (62)
T ss_dssp             -HHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH--hHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            345555555555543  33555555677777777777777777766654

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=83.81  E-value=4.1  Score=22.15  Aligned_cols=22  Identities=9%  Similarity=-0.145  Sum_probs=10.8

Q ss_pred             HHHHhccCCHHHHHHHHHHHHh
Q 023915          107 IFHLGKMRAHSEALSVYNMLRY  128 (275)
Q Consensus       107 i~~~~~~g~~~~a~~~~~~m~~  128 (275)
                      -.+|...|+.+.|.++++++..
T Consensus         6 A~ayie~Gd~e~Ar~lL~evl~   27 (44)
T TIGR03504         6 ARAYIEMGDLEGARELLEEVIE   27 (44)
T ss_pred             HHHHHHcCChHHHHHHHHHHHH
Confidence            3444555555555555554443

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.

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=83.78  E-value=3.7  Score=20.30  Aligned_cols=27  Identities=11%  Similarity=-0.038  Sum_probs=16.0

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHH
Q 023915           67 TFHILIKYFCKEKMYILAYRTMVDMHR   93 (275)
Q Consensus        67 t~~~li~~~~~~~~~~~a~~~~~~m~~   93 (275)
                      +|..+...|...|+++.|+..|++..+
T Consensus         3 ~~~~~g~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF00515_consen    3 AYYNLGNAYFQLGDYEEALEYYQRALE   29 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHH
Confidence            455556666666666666666666554

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 ....

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=83.56  E-value=13  Score=26.21  Aligned_cols=76  Identities=12%  Similarity=0.012  Sum_probs=47.2

Q ss_pred             HHccCCHHHHHHHHHHHHHcCC--CCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccc
Q 023915           75 FCKEKMYILAYRTMVDMHRKGH--QPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKL  150 (275)
Q Consensus        75 ~~~~~~~~~a~~~~~~m~~~g~--~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~  150 (275)
                      ..+.|+++.|...|+.+...=-  +-...+--.++.+|.+.++++.|...+++..+.++.-...-|...+.+++.-..
T Consensus        20 ~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL~~~~~   97 (142)
T PF13512_consen   20 ALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGLSYYEQ   97 (142)
T ss_pred             HHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHHHHHHH
Confidence            3566777777777777765411  122345556777777888888888887777765544444455555555554443

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=83.51  E-value=45  Score=32.27  Aligned_cols=116  Identities=15%  Similarity=0.081  Sum_probs=68.1

Q ss_pred             CCCHHhHHHHHHHHh----ccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhcCCChh--HH
Q 023915           97 QPEEELCSSLIFHLG----KMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSESISHP--AI  170 (275)
Q Consensus        97 ~~~~~~~~~li~~~~----~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~--~~  170 (275)
                      .|+...+..+..+|+    ..+.+++|.-.|+..-         -....+.+|..+|+|.+|..+-.++....+.-  +-
T Consensus       932 ~~~~e~~k~i~~~ya~hL~~~~~~~~Aal~Ye~~G---------klekAl~a~~~~~dWr~~l~~a~ql~~~~de~~~~a 1002 (1265)
T KOG1920|consen  932 KPDSEKQKVIYEAYADHLREELMSDEAALMYERCG---------KLEKALKAYKECGDWREALSLAAQLSEGKDELVILA 1002 (1265)
T ss_pred             ccCHHHHHHHHHHHHHHHHHhccccHHHHHHHHhc---------cHHHHHHHHHHhccHHHHHHHHHhhcCCHHHHHHHH
Confidence            455555555444443    3455566655555432         12345667777888888888877766544443  23


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhchhHHHHHHHHHHHh
Q 023915          171 KKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMT  230 (275)
Q Consensus       171 ~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~m~  230 (275)
                      ..|+.-+...++.-+|-++..+....   |.     -.+..|| ++..|++|..+-..-.
T Consensus      1003 ~~L~s~L~e~~kh~eAa~il~e~~sd---~~-----~av~ll~-ka~~~~eAlrva~~~~ 1053 (1265)
T KOG1920|consen 1003 EELVSRLVEQRKHYEAAKILLEYLSD---PE-----EAVALLC-KAKEWEEALRVASKAK 1053 (1265)
T ss_pred             HHHHHHHHHcccchhHHHHHHHHhcC---HH-----HHHHHHh-hHhHHHHHHHHHHhcc
Confidence            56777888888888888887665441   21     2233344 5566777776655443

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=83.32  E-value=21  Score=28.39  Aligned_cols=92  Identities=8%  Similarity=0.015  Sum_probs=61.6

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHH--
Q 023915           68 FHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHIL--  145 (275)
Q Consensus        68 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~--  145 (275)
                      ...=|.+++..++|.+++...-+--+.--+.-......-|-.|.|.+++..+.++-..=.+....-....|..+..-|  
T Consensus        86 cvvGIQALAEmnrWreVLsWvlqyYq~pEklPpkIleLCILLysKv~Ep~amlev~~~WL~~p~Nq~lp~y~~vaELyLl  165 (309)
T PF07163_consen   86 CVVGIQALAEMNRWREVLSWVLQYYQVPEKLPPKILELCILLYSKVQEPAAMLEVASAWLQDPSNQSLPEYGTVAELYLL  165 (309)
T ss_pred             hhhhHHHHHHHhhHHHHHHHHHHHhcCcccCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCcccCCchhhHHHHHHHHH
Confidence            345578899999999987766554432223334466777788999999998888877555443322333466655554  


Q ss_pred             ---HhccchHHHHHHHH
Q 023915          146 ---ISGKLLKDAYVVVK  159 (275)
Q Consensus       146 ---~~~~~~~~a~~~~~  159 (275)
                         .=.|.+++|+++..
T Consensus       166 ~VLlPLG~~~eAeelv~  182 (309)
T PF07163_consen  166 HVLLPLGHFSEAEELVV  182 (309)
T ss_pred             HHHhccccHHHHHHHHh
Confidence               45799999998883

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

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=83.24  E-value=16  Score=26.91  Aligned_cols=131  Identities=11%  Similarity=0.051  Sum_probs=78.3

Q ss_pred             hhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHH-hHHHHHHHHhccCCHHHHHHHHHHHHhccccccHH-hHHHHH
Q 023915           65 YNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEE-LCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKA-LHEKIL  142 (275)
Q Consensus        65 ~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-~~~~li  142 (275)
                      ..+|...++. .+.+..++|+.-|.++.+.|..--+. .--..-......|+...|...|+++-.....|... -...+-
T Consensus        59 gd~flaAL~l-A~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlr  137 (221)
T COG4649          59 GDAFLAALKL-AQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLR  137 (221)
T ss_pred             hHHHHHHHHH-HHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHH
Confidence            3445555543 56677788888888888776543222 22233344567788888888888876554444332 112222


Q ss_pred             H--HHHhccchHHHHHHHHHhhcCCChh-H--HHHHHHHHHhcCChhHHHHHHHHHHHc
Q 023915          143 H--ILISGKLLKDAYVVVKDNSESISHP-A--IKKFASAFVRLGNINLVNDVMKAIHAT  196 (275)
Q Consensus       143 ~--~~~~~~~~~~a~~~~~~~~~~~~~~-~--~~~li~~~~~~~~~~~a~~~~~~m~~~  196 (275)
                      .  .++.+|.+++....++.+....++- +  -..|--+-.+.|++.+|...|..+...
T Consensus       138 aa~lLvD~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~D  196 (221)
T COG4649         138 AAYLLVDNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAND  196 (221)
T ss_pred             HHHHHhccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHcc
Confidence            2  3346777777777777665544432 2  235555666778888888888776664

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=83.18  E-value=24  Score=28.92  Aligned_cols=189  Identities=13%  Similarity=0.050  Sum_probs=96.7

Q ss_pred             HHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCC---C-CCHHhHHHHHHHHh
Q 023915           36 MLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGH---Q-PEEELCSSLIFHLG  111 (275)
Q Consensus        36 li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~---~-~~~~~~~~li~~~~  111 (275)
                      ...+..+.|+++...+.......  -.|+...|.++...  +.++.+.+....+.....-.   . .....|........
T Consensus         4 ~~eaaWrl~~Wd~l~~~~~~~~~--~~~~~~~~~al~~l--~~~~~~~~~~~i~~~r~~~~~~l~~~~~~s~~~~y~~l~   79 (352)
T PF02259_consen    4 AAEAAWRLGDWDLLEEYLSQSNE--DSPEYSFYRALLAL--RQGDYDEAKKYIEKARQLLLDELSALSSESYQRAYPSLV   79 (352)
T ss_pred             HHHHHHhcCChhhHHHHHhhccC--CChhHHHHHHHHHH--hCccHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHH
Confidence            34677888999986666555543  22456666666554  88999999888888764311   1 11223333333333


Q ss_pred             ccCCHHHHHHHHHHHHhccc-cc----cHHhHHHHHHHHHhccchHHHHHHHH---Hhhc-----CCChhHHHHHHHHHH
Q 023915          112 KMRAHSEALSVYNMLRYSKR-SM----CKALHEKILHILISGKLLKDAYVVVK---DNSE-----SISHPAIKKFASAFV  178 (275)
Q Consensus       112 ~~g~~~~a~~~~~~m~~~~~-~~----~~~~~~~li~~~~~~~~~~~a~~~~~---~~~~-----~~~~~~~~~li~~~~  178 (275)
                      +...+.+..++.+-...... ..    -...|..-+...  .++++.-..++.   .+..     .....++..+...+.
T Consensus        80 ~lq~L~Elee~~~~~~~~~~~~~~~~~l~~~W~~Rl~~~--~~~~~~~~~il~~R~~~l~~~~~~~~~~~~~l~~a~~aR  157 (352)
T PF02259_consen   80 KLQQLVELEEIIELKSNLSQNPQDLKSLLKRWRSRLPNM--QDDFSVWEPILSLRRLVLSLILLPEELAETWLKFAKLAR  157 (352)
T ss_pred             HHhHHHHHHHHHHHHHhhcccHHHHHHHHHHHHHHHHHh--ccchHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHH
Confidence            33333333333332211100 00    001122222111  122222111111   1111     122236778899999


Q ss_pred             hcCChhHHHHHHHHHHHcCCCC---ChhhHHHHHHHHHHhchhHHHHHHHHHHHhh
Q 023915          179 RLGNINLVNDVMKAIHATGYRI---DQGIFHIAIARYIAEREKKELLLKLLEWMTG  231 (275)
Q Consensus       179 ~~~~~~~a~~~~~~m~~~g~~p---~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~  231 (275)
                      +.|+++.|...+..+...+..+   +....-.-.+.+. ..|+.++|...+++...
T Consensus       158 k~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw-~~g~~~~Ai~~L~~~~~  212 (352)
T PF02259_consen  158 KAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLW-AQGEQEEAIQKLRELLK  212 (352)
T ss_pred             HCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHH-HcCCHHHHHHHHHHHHH
Confidence            9999999999999888754211   1222222223333 34666678888877766

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>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=82.49  E-value=5.5  Score=24.80  Aligned_cols=46  Identities=13%  Similarity=0.073  Sum_probs=22.9

Q ss_pred             ccCCHHHHHHHHHHHhhcCCCCC-h-hhHHHHHHHHHccCCHHHHHHH
Q 023915           42 RTGDMESVMHVMRKLDELAISPD-Y-NTFHILIKYFCKEKMYILAYRT   87 (275)
Q Consensus        42 ~~g~~~~a~~~~~~m~~~g~~p~-~-~t~~~li~~~~~~~~~~~a~~~   87 (275)
                      ...+.++|+..|....+.-..|. . .++..++.+|+..|+++.++.+
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            34455556666655554322221 1 2445556666666666555443

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

>cd00280 TRFH Telomeric Repeat binding Factor or TTAGGG Repeat binding Factor, central (dimerization) domain Homology; TRFH

Probab=82.09  E-value=13  Score=27.48  Aligned_cols=22  Identities=14%  Similarity=0.350  Sum_probs=12.5

Q ss_pred             HHHHHhcCChhHHHHHHHHHHH
Q 023915          174 ASAFVRLGNINLVNDVMKAIHA  195 (275)
Q Consensus       174 i~~~~~~~~~~~a~~~~~~m~~  195 (275)
                      +-.|.+.|.+++|.++++....
T Consensus       118 V~VCm~~g~Fk~A~eiLkr~~~  139 (200)
T cd00280         118 VAVCMENGEFKKAEEVLKRLFS  139 (200)
T ss_pred             HHHHHhcCchHHHHHHHHHHhc
Confidence            3455556666666666655544

Telomeres are protein/DNA complexes that make up the physical ends of eukaryotic linear chromosomes and are essential for chromosome stability, protecting the chromosome ends from degradation and end-to-end fusion. Proteins TRF1, TRF2 and Taz1 bind telomeric DNA and are also involved in recruiting interacting proteins, TIN2, and Rap1, to the telomeres. It has also been demonstrated that PARP1 associates with TRF2 and is capable of poly(ADP-ribosyl)ation of TRF2, which affects binding of TRF2 to telomeric DNA. TRF1, TRF2 and Taz1 proteins contain three functional domains: an N-terminal acidic domain, a central TRF-specific/dimerization domain, and a C-terminal DNA binding domain with a single Myb-like repeat. Homodimerization, a prerequisite to DNA binding, results in the juxtaposition of two Myb DNA binding domains.

>COG5108 RPO41 Mitochondrial DNA-directed RNA polymerase [Transcription]

Probab=81.92  E-value=9.5  Score=34.15  Aligned_cols=75  Identities=20%  Similarity=0.256  Sum_probs=54.2

Q ss_pred             ChhhhhhcCcHHHHHHHHHHHHhc--CCCCcHHhHHHHHHHHHccCCHHH------HHHHHHHHhhcCCCCChhhHHHHH
Q 023915            1 MISAFCRGGCFEEAKQLAGDFEAK--YDKYDVVLLNSMLCAYCRTGDMES------VMHVMRKLDELAISPDYNTFHILI   72 (275)
Q Consensus         1 li~~~~~~g~~~~a~~~~~~m~~~--g~~p~~~~~~~li~~~~~~g~~~~------a~~~~~~m~~~g~~p~~~t~~~li   72 (275)
                      |+.+|..+|++.++.++++.+...  |-+.-...||..|+.+.+.|.++-      |.++++.   .-+.-|..||..++
T Consensus        34 l~eacv~n~~~~rs~~ll~s~~~~~~~~k~~l~~~nlyi~~~~q~~sf~l~~~~~~~~~~lq~---a~ln~d~~t~all~  110 (1117)
T COG5108          34 LFEACVYNGDFLRSKQLLKSFIDHNKGDKILLPMINLYIREIIQRGSFELTDVLSNAKELLQQ---ARLNGDSLTYALLC  110 (1117)
T ss_pred             HHHHHHhcchHHHHHHHHHHHhcCCcCCeeehhHHHHHHHHHHhcCCccHHHHHHHHHHHHHH---hhcCCcchHHHHHH
Confidence            467899999999999999988763  444556778999999999997642      3333333   33667778888888


Q ss_pred             HHHHcc
Q 023915           73 KYFCKE   78 (275)
Q Consensus        73 ~~~~~~   78 (275)
                      .+-...
T Consensus       111 ~~sln~  116 (1117)
T COG5108         111 QASLNP  116 (1117)
T ss_pred             HhhcCh
Confidence            776554

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=81.91  E-value=30  Score=29.11  Aligned_cols=91  Identities=13%  Similarity=0.111  Sum_probs=46.4

Q ss_pred             hcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCC-hhhHHHHHHHHHccCCHHHHH
Q 023915            7 RGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYILAY   85 (275)
Q Consensus         7 ~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~~a~   85 (275)
                      -.|+.+.|.+-|+-|... +..-..-...|.-..-+.|..+.|...-+..-.  .-|. ...+.+++...+..|+|+.|+
T Consensus       132 ~eG~~~~Ar~kfeAMl~d-PEtRllGLRgLyleAqr~GareaAr~yAe~Aa~--~Ap~l~WA~~AtLe~r~~~gdWd~Al  208 (531)
T COG3898         132 LEGDYEDARKKFEAMLDD-PETRLLGLRGLYLEAQRLGAREAARHYAERAAE--KAPQLPWAARATLEARCAAGDWDGAL  208 (531)
T ss_pred             hcCchHHHHHHHHHHhcC-hHHHHHhHHHHHHHHHhcccHHHHHHHHHHHHh--hccCCchHHHHHHHHHHhcCChHHHH
Confidence            346667777777766541 010111122233333345555555554444332  2233 234567777777777777777


Q ss_pred             HHHHHHHHcC-CCCCH
Q 023915           86 RTMVDMHRKG-HQPEE  100 (275)
Q Consensus        86 ~~~~~m~~~g-~~~~~  100 (275)
                      ++.+.-++.. +.++.
T Consensus       209 kLvd~~~~~~vie~~~  224 (531)
T COG3898         209 KLVDAQRAAKVIEKDV  224 (531)
T ss_pred             HHHHHHHHHHhhchhh
Confidence            7777665432 34443

>PHA02875 ankyrin repeat protein; Provisional

Probab=81.66  E-value=26  Score=29.62  Aligned_cols=210  Identities=11%  Similarity=0.058  Sum_probs=104.0

Q ss_pred             HHHHccCCHHHHHHHHHHHhhcCCCCChhh--HHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHH--hHHHHHHHHhcc
Q 023915           38 CAYCRTGDMESVMHVMRKLDELAISPDYNT--FHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEE--LCSSLIFHLGKM  113 (275)
Q Consensus        38 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t--~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~--~~~~li~~~~~~  113 (275)
                      ...++.|+.+-+.    .+.+.|..|+...  ..+.+..+++.|+.+    +.+.+.+.|..|+..  ...+.+...++.
T Consensus         7 ~~A~~~g~~~iv~----~Ll~~g~~~n~~~~~g~tpL~~A~~~~~~~----~v~~Ll~~ga~~~~~~~~~~t~L~~A~~~   78 (413)
T PHA02875          7 CDAILFGELDIAR----RLLDIGINPNFEIYDGISPIKLAMKFRDSE----AIKLLMKHGAIPDVKYPDIESELHDAVEE   78 (413)
T ss_pred             HHHHHhCCHHHHH----HHHHCCCCCCccCCCCCCHHHHHHHcCCHH----HHHHHHhCCCCccccCCCcccHHHHHHHC
Confidence            3345567765544    4445677776543  335566667778876    445556677666543  223445566677


Q ss_pred             CCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhcCCChh-HHHHHHHHHHhcCChhHHHHHHHH
Q 023915          114 RAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSESISHP-AIKKFASAFVRLGNINLVNDVMKA  192 (275)
Q Consensus       114 g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~li~~~~~~~~~~~a~~~~~~  192 (275)
                      |+.+.+..+++.-.......+... ...+...+..|+.+-+..+++.-.....+. .-.+.+...+..|+.+.+..+   
T Consensus        79 g~~~~v~~Ll~~~~~~~~~~~~~g-~tpL~~A~~~~~~~iv~~Ll~~gad~~~~~~~g~tpLh~A~~~~~~~~v~~L---  154 (413)
T PHA02875         79 GDVKAVEELLDLGKFADDVFYKDG-MTPLHLATILKKLDIMKLLIARGADPDIPNTDKFSPLHLAVMMGDIKGIELL---  154 (413)
T ss_pred             CCHHHHHHHHHcCCcccccccCCC-CCHHHHHHHhCCHHHHHHHHhCCCCCCCCCCCCCCHHHHHHHcCCHHHHHHH---
Confidence            888877666653211100001111 123344456677765555555422211111 112344555567776655444   


Q ss_pred             HHHcCCCCC---hhhHHHHHHHHHHhchhHHHHHHHHHHHhhCCCCCChhhH---HHHHHHHHHhh-HHHHHHHHhccCC
Q 023915          193 IHATGYRID---QGIFHIAIARYIAEREKKELLLKLLEWMTGQGYVVDSSTR---NLILKNSHLFG-RQLIADILSKQHM  265 (275)
Q Consensus       193 m~~~g~~p~---~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~~~~p~~~t~---~~li~~~~~~g-~~~~~~~~~~~~~  265 (275)
                       .+.|..++   ..-.+.|..+ + ..|+.+    +.+.+.+.|..|+....   ..++...+..| .+....++.++.-
T Consensus       155 -l~~g~~~~~~d~~g~TpL~~A-~-~~g~~e----iv~~Ll~~ga~~n~~~~~~~~t~l~~A~~~~~~~iv~~Ll~~gad  227 (413)
T PHA02875        155 -IDHKACLDIEDCCGCTPLIIA-M-AKGDIA----ICKMLLDSGANIDYFGKNGCVAALCYAIENNKIDIVRLFIKRGAD  227 (413)
T ss_pred             -HhcCCCCCCCCCCCCCHHHHH-H-HcCCHH----HHHHHHhCCCCCCcCCCCCCchHHHHHHHcCCHHHHHHHHHCCcC
Confidence             44454443   3345556655 3 457665    34445566766654321   23444233444 4444444445544


Q ss_pred             C
Q 023915          266 K  266 (275)
Q Consensus       266 ~  266 (275)
                      +
T Consensus       228 ~  228 (413)
T PHA02875        228 C  228 (413)
T ss_pred             c
Confidence            3

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=81.21  E-value=17  Score=25.88  Aligned_cols=50  Identities=16%  Similarity=0.252  Sum_probs=34.8

Q ss_pred             ccCCHHHHHHHHHHHhhcCCCCCh---hhHHHHHHHHHccCCHHHHHHHHHHHHHcC
Q 023915           42 RTGDMESVMHVMRKLDELAISPDY---NTFHILIKYFCKEKMYILAYRTMVDMHRKG   95 (275)
Q Consensus        42 ~~g~~~~a~~~~~~m~~~g~~p~~---~t~~~li~~~~~~~~~~~a~~~~~~m~~~g   95 (275)
                      ..++++++..+++.|+-  +.|+.   .+|...+  +.+.|+|++|.++|++..+.+
T Consensus        22 ~~~d~~D~e~lLdALrv--LrP~~~e~d~~dg~l--~i~rg~w~eA~rvlr~l~~~~   74 (153)
T TIGR02561        22 RSADPYDAQAMLDALRV--LRPNLKELDMFDGWL--LIARGNYDEAARILRELLSSA   74 (153)
T ss_pred             hcCCHHHHHHHHHHHHH--hCCCccccchhHHHH--HHHcCCHHHHHHHHHhhhccC
Confidence            46788888888888876  44544   3444444  567788888888888887654

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PF11848 DUF3368: Domain of unknown function (DUF3368); InterPro: IPR021799 This domain is functionally uncharacterised

Probab=80.62  E-value=7.7  Score=21.49  Aligned_cols=24  Identities=8%  Similarity=0.066  Sum_probs=9.5

Q ss_pred             HHHHHHHHHHHHHcCCCCCHHhHH
Q 023915           81 YILAYRTMVDMHRKGHQPEEELCS  104 (275)
Q Consensus        81 ~~~a~~~~~~m~~~g~~~~~~~~~  104 (275)
                      .+++..++++|.+.|+..+...|.
T Consensus        18 I~~~~~~l~~l~~~g~~is~~l~~   41 (48)
T PF11848_consen   18 ISEVKPLLDRLQQAGFRISPKLIE   41 (48)
T ss_pred             hhhHHHHHHHHHHcCcccCHHHHH
Confidence            333344444444444433333333

This domain is found in bacteria and archaea. This presumed domain is about 50 amino acids in length.

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=80.62  E-value=31  Score=28.41  Aligned_cols=149  Identities=11%  Similarity=-0.051  Sum_probs=102.9

Q ss_pred             cCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHH----HHHHHHccCCHHH
Q 023915            8 GGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHI----LIKYFCKEKMYIL   83 (275)
Q Consensus         8 ~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~----li~~~~~~~~~~~   83 (275)
                      .|++.+|-..++.+... .+.|...++-.=++|.-.|+.+.....+++.... ..||...|.-    ..-++...|-+++
T Consensus       116 ~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  116 RGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK-WNADLPCYSYVHGMYAFGLEECGIYDD  193 (491)
T ss_pred             cccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccc-cCCCCcHHHHHHHHHHhhHHHhccchh
Confidence            57788888888888875 3448888888889999999999999888887753 3355544433    2334456799999


Q ss_pred             HHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhc---c-ccccHHhHHHHHHHHHhccchHHHHHHHH
Q 023915           84 AYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYS---K-RSMCKALHEKILHILISGKLLKDAYVVVK  159 (275)
Q Consensus        84 a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~---~-~~~~~~~~~~li~~~~~~~~~~~a~~~~~  159 (275)
                      |++.-++..+.+ +-|..+-.+....+-..|++.++.+++.+-...   + ...+. .|=..--.+...+.++.|+++|+
T Consensus       194 AEk~A~ralqiN-~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasH-NyWH~Al~~iE~aeye~aleIyD  271 (491)
T KOG2610|consen  194 AEKQADRALQIN-RFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASH-NYWHTALFHIEGAEYEKALEIYD  271 (491)
T ss_pred             HHHHHHhhccCC-CcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhh-hhHHHHHhhhcccchhHHHHHHH
Confidence            998887766543 445566677777888889999999887764422   1 11111 12122234556688999999998


Q ss_pred             H
Q 023915          160 D  160 (275)
Q Consensus       160 ~  160 (275)
                      .
T Consensus       272 ~  272 (491)
T KOG2610|consen  272 R  272 (491)
T ss_pred             H
Confidence            6

>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=80.51  E-value=3.1  Score=19.42  Aligned_cols=18  Identities=17%  Similarity=0.276  Sum_probs=8.5

Q ss_pred             HHHHHHccCCHHHHHHHH
Q 023915           36 MLCAYCRTGDMESVMHVM   53 (275)
Q Consensus        36 li~~~~~~g~~~~a~~~~   53 (275)
                      +-.++...|++++|.+++
T Consensus         7 la~~~~~~G~~~eA~~~l   24 (26)
T PF07721_consen    7 LARALLAQGDPDEAERLL   24 (26)
T ss_pred             HHHHHHHcCCHHHHHHHH
Confidence            334444445555554444

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

>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]

Probab=80.37  E-value=16  Score=25.15  Aligned_cols=60  Identities=5%  Similarity=0.084  Sum_probs=36.3

Q ss_pred             HHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHH
Q 023915           84 AYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHI  144 (275)
Q Consensus        84 a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~  144 (275)
                      ..+.++.+....+.|++.....-+.+|.+.+++..|..+|+-+..+ ..+....|-.+++-
T Consensus        68 vrkglN~l~~yDlVP~pkvIEaaLRA~RRvNDfa~aVRilE~iK~K-~g~~k~~Y~y~v~e  127 (149)
T KOG4077|consen   68 VRKGLNNLFDYDLVPSPKVIEAALRACRRVNDFATAVRILEAIKDK-CGAQKQVYPYYVKE  127 (149)
T ss_pred             HHHHHHhhhccccCCChHHHHHHHHHHHHhccHHHHHHHHHHHHHh-cccHHHHHHHHHHH
Confidence            3445556666667777777777777777777777777777766533 22223345555544

>COG0735 Fur Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]

Probab=80.08  E-value=11  Score=26.71  Aligned_cols=63  Identities=16%  Similarity=0.139  Sum_probs=39.1

Q ss_pred             HHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhcc
Q 023915           86 RTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGK  149 (275)
Q Consensus        86 ~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~  149 (275)
                      .+.+.+.+.|++++. --..+++.+...++.-.|.++++++...++..+..|.-..++.+...|
T Consensus         7 ~~~~~lk~~glr~T~-qR~~vl~~L~~~~~~~sAeei~~~l~~~~p~islaTVYr~L~~l~e~G   69 (145)
T COG0735           7 DAIERLKEAGLRLTP-QRLAVLELLLEADGHLSAEELYEELREEGPGISLATVYRTLKLLEEAG   69 (145)
T ss_pred             HHHHHHHHcCCCcCH-HHHHHHHHHHhcCCCCCHHHHHHHHHHhCCCCCHhHHHHHHHHHHHCC
Confidence            344556667766654 334566666666666778888888877766666555444455555444

---

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	275
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	5e-07
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-04
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 = 49.8 bits (117), Expect = 5e-07
 Identities = 15/147 (10%), Positives = 47/147 (31%), Gaps = 4/147 (2%)

Query: 1   MISAFCRGGCFEEAKQLAGDFEAKYDK---YDVVLLNSMLCAYCRTGDMESVMHVMRKLD 57
                        A  L      +  K     + + N+++  + R G  + +++V+  + 
Sbjct: 133 FFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVK 192

Query: 58  ELAISPDYNTFHILIKYFCKEKMYILAYRT-MVDMHRKGHQPEEELCSSLIFHLGKMRAH 116
           +  ++PD  ++   ++   ++          +  M ++G + +    + L+    +    
Sbjct: 193 DAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVL 252

Query: 117 SEALSVYNMLRYSKRSMCKALHEKILH 143
                V        +        K+L 
Sbjct: 253 KAVHKVKPTFSLPPQLPPPVNTSKLLR 279

>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 = 42.1 bits (98), Expect = 1e-04
 Identities = 44/298 (14%), Positives = 96/298 (32%), Gaps = 80/298 (26%)

Query: 20  DFEAKYDKY---DVVLLNSMLCAYCRTGDMESVMHVMR------KLDELAISPD-----Y 65
           DFE    +Y   D++ +     A+    D + V  + +      ++D + +S D      
Sbjct: 8   DFETGEHQYQYKDILSVF--EDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTL 65

Query: 66  NTFHILIKYFCKEKMYILAYRTMVDMHRKGH------------QPEEELCSSLIFHLGKM 113
             F  L+    +E+M     + + ++ R  +            QP        I    ++
Sbjct: 66  RLFWTLLSK--QEEMV---QKFVEEVLRINYKFLMSPIKTEQRQPSMMT-RMYIEQRDRL 119

Query: 114 RAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSESISH--PAIK 171
              ++  + YN+ R         L + +L      +L     V++               
Sbjct: 120 YNDNQVFAKYNVSR---LQPYLKLRQALL------ELRPAKNVLI--------DGVLGSG 162

Query: 172 KFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTG 231
           K  +         +  DV  + +    ++D  IF + +    +     E+L KLL  +  
Sbjct: 163 K--TW--------VALDVCLS-YKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDP 211

Query: 232 QGYVVDSSTRNLIL-------KNSHLFGRQ------LI-ADILSKQHMKS--KSSKTL 273
                   + N+ L       +   L   +      L+  ++ + +   +   S K L
Sbjct: 212 NWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKIL 269

>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 = 41/227 (18%), Positives = 81/227 (35%), Gaps = 52/227 (22%)

Query: 20  DFEAKYDK-----YDV-----VLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFH 69
           ++   +D+             +L  S++       D+  V++ + K   +   P  +T  
Sbjct: 370 EYRKMFDRLSVFPPSAHIPTILL--SLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTIS 427

Query: 70  I---LIKYFCK-EKMYILAYRTMVDMHR--KGHQPEEEL--------CSSLIFHLGKMRA 115
           I    ++   K E  Y L +R++VD +   K    ++ +         S +  HL  +  
Sbjct: 428 IPSIYLELKVKLENEYAL-HRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIE- 485

Query: 116 HSEALSVYNM-----------LRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSES 164
           H E ++++ M           +R+   +   +    IL+ L   K  K  Y+   D    
Sbjct: 486 HPERMTLFRMVFLDFRFLEQKIRHDSTAWNAS--GSILNTLQQLKFYKP-YICDNDPKYE 542

Query: 165 ISHPAIKKF---------ASAFVRLGNINLVNDVMKAIHATGYRIDQ 202
               AI  F          S +  L  I L+ +  +AI    ++  Q
Sbjct: 543 RLVNAILDFLPKIEENLICSKYTDLLRIALMAED-EAIFEEAHKQVQ 588

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	275
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	99.93
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.93
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.9
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.89
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.82
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.82
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.8
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.79
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.77
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.76
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.75
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.75
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.73
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.71
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.7
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.69
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.67
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.67
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.67
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.66
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.65
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.65
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.64
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.63
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.63
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.61
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.6
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.6
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.6
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.6
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.59
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.58
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.58
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.57
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.56
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.56
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.54
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.53
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.5
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.49
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.48
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.47
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.46
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.46
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.42
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.4
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.4
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.38
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.37
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.37
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.34
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.34
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.32
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.32
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.31
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.3
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.3
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.29
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.28
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.28
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.28
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.27
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.25
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.24
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.22
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.21
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.21
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.21
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.19
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.15
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.15
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.15
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.13
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.13
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.12
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.1
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.08
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.07
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.07
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.06
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.04
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.01
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.0
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	98.99
4g1t_A	472	Interferon-induced protein with tetratricopeptide	98.99
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.96
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.94
4g1t_A	472	Interferon-induced protein with tetratricopeptide	98.94
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	98.94
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.9
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.9
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	98.88
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.88
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.85
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.83
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.82
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.81
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.78
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.78
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.78
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.78
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.75
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.73
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	98.73
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	98.71
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.71
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.7
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.7
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.7
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.69
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.68
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.65
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.62
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.62
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.62
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.6
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.59
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.59
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.57
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.57
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	98.57
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.56
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.56
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.54
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.53
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	98.51
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.48
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.47
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.45
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.45
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.44
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.42
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.41
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.39
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.39
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.37
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.35
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.35
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.33
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.33
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.33
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.32
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.32
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.29
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.28
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.28
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.26
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.25
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.24
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.24
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.24
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.23
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.22
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.22
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.21
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.19
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.18
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.18
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.15
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.14
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.13
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.12
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.12
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.11
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.11
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.1
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.09
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.07
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.06
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.04
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.03
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.01
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	97.98
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	97.96
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.93
3k9i_A	117	BH0479 protein; putative protein binding protein,	97.93
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.84
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	97.84
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.83
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.81
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	97.81
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.8
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	97.79
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	97.74
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	97.71
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.68
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.67
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.66
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	97.65
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	97.56
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.46
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	97.44
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	97.4
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.39
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.39
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.38
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.37
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.31
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	97.23
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.16
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.12
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.02
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.96
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	96.96
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	96.96
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	96.86
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	96.79
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.79
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.78
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	96.7
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.59
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	96.58
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	96.56
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	96.51
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	96.37
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.23
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	96.09
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	95.9
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	95.86
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	95.51
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	95.5
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	95.47
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	95.46
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	95.39
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	94.81
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	94.76
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	94.7
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	94.08
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	93.87
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	93.77
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	93.68
1wdy_A	285	2-5A-dependent ribonuclease; hydrolase, RNA-bindin	93.4
1pc2_A	152	Mitochondria fission protein; unknown function; NM	93.4
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	93.05
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	92.85
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	92.83
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	92.57
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	91.85
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	91.55
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	91.36
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	91.33
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	91.33
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	90.69
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	90.08
1k1a_A	241	B-cell lymphoma 3-encoded protein; BCL-3, NF-kappa	89.45
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	89.33
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	89.32
2zu6_B	307	Programmed cell death protein 4; protein-protein c	88.45
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	88.44
3eiq_C	358	Programmed cell death protein 4; PDCD4, anti-oncog	88.06
3utm_A	351	Tankyrase-1; tankyrase, TNKS, ankryin repeat clust	87.74
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	85.7
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	85.68
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	83.78
3kea_A	285	K1L; tropism, ANK repeat, viral protein; 2.30A {Va	83.76
3eu9_A	240	Huntingtin-interacting protein 14; epigenetics, an	83.47
1wdy_A	285	2-5A-dependent ribonuclease; hydrolase, RNA-bindin	83.34
2p58_C	116	Putative type III secretion protein YSCG; type III	83.28
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	82.92
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	82.42
2zu6_B	307	Programmed cell death protein 4; protein-protein c	81.07

>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=1.8e-38  Score=269.12  Aligned_cols=207  Identities=11%  Similarity=0.059  Sum_probs=156.3

Q ss_pred             HHHHHHHHHHHhcCCCCcH-HhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCC---------H
Q 023915           12 EEAKQLAGDFEAKYDKYDV-VLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKM---------Y   81 (275)
Q Consensus        12 ~~a~~~~~~m~~~g~~p~~-~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~---------~   81 (275)
                      ..+..+...+.+.+..++. ..++.+|++|++.|++++|+++|++|.+.|++||..|||+||.+|++.+.         +
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            4556667778777766544 46899999999999999999999999999999999999999999987654         6


Q ss_pred             HHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHh
Q 023915           82 ILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDN  161 (275)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  161 (275)
                      +.|.++|++|.+.|+.||..||+++|.+|++.|++++|.++|++|...|+.|+..+|+++|                   
T Consensus        87 ~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI-------------------  147 (501)
T 4g26_A           87 SRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPAL-------------------  147 (501)
T ss_dssp             HHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHH-------------------
T ss_pred             HHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHH-------------------
Confidence            8899999999999999999999999999999999999999999999988888776655555                   


Q ss_pred             hcCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhchhHHHHHHHHHHHhhCCCCCChhhH
Q 023915          162 SESISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTGQGYVVDSSTR  241 (275)
Q Consensus       162 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~~~~p~~~t~  241 (275)
                                   .+|++.|++++|.++|++|.+.|+.||..||++||.+|+ +.|++++|.+++++|++.|+.|+..||
T Consensus       148 -------------~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~-~~g~~d~A~~ll~~Mr~~g~~ps~~T~  213 (501)
T 4g26_A          148 -------------FGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSM-DTKNADKVYKTLQRLRDLVRQVSKSTF  213 (501)
T ss_dssp             -------------HHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHTSSBCHHHH
T ss_pred             -------------HHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHh-hCCCHHHHHHHHHHHHHhCCCcCHHHH
Confidence                         555555666666666777777777777777777777776 567777777777777777777777777


Q ss_pred             HHHHHHHHHh
Q 023915          242 NLILKNSHLF  251 (275)
Q Consensus       242 ~~li~~~~~~  251 (275)
                      ++++..|++.
T Consensus       214 ~~l~~~F~s~  223 (501)
T 4g26_A          214 DMIEEWFKSE  223 (501)
T ss_dssp             HHHHHHHHSH
T ss_pred             HHHHHHHhcC
Confidence            7777777654

>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=4.6e-37  Score=260.58  Aligned_cols=181  Identities=12%  Similarity=0.118  Sum_probs=159.9

Q ss_pred             ChhhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCC---------HHHHHHHHHHHhhcCCCCChhhHHHH
Q 023915            1 MISAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGD---------MESVMHVMRKLDELAISPDYNTFHIL   71 (275)
Q Consensus         1 li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~---------~~~a~~~~~~m~~~g~~p~~~t~~~l   71 (275)
                      +|++|++.|++++|+++|++|.+.|+.||..|||+||.+|++.+.         +++|.++|++|.+.|+.||..||++|
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            378999999999999999999999999999999999999998765         68899999999999999999999999


Q ss_pred             HHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccch
Q 023915           72 IKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLL  151 (275)
Q Consensus        72 i~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~  151 (275)
                      |.+|++.|+++.|.++|++|.+.|+.||..||+++|.+|++.|++++|.++|++|...|+.|+..+|+++|.+|      
T Consensus       112 I~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~------  185 (501)
T 4g26_A          112 ARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVS------  185 (501)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHH------
T ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHH------
Confidence            99999999999999999999999999999999999999999999999999999999999999876666665555      


Q ss_pred             HHHHHHHHHhhcCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHH
Q 023915          152 KDAYVVVKDNSESISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYI  213 (275)
Q Consensus       152 ~~a~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~  213 (275)
                                                ++.|++++|.+++++|++.|+.|+..||+.++..|+
T Consensus       186 --------------------------~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~  221 (501)
T 4g26_A          186 --------------------------MDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFK  221 (501)
T ss_dssp             --------------------------HHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHH
T ss_pred             --------------------------hhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHh
Confidence                                      455555556666666666666777777777666665

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.93  E-value=9.2e-24  Score=183.67  Aligned_cols=252  Identities=7%  Similarity=-0.069  Sum_probs=142.6

Q ss_pred             hhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHH
Q 023915            4 AFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYIL   83 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~   83 (275)
                      .|.+.|++++|.++|+++.+.+.. +..+|+.++.++.+.|++++|.++|+++.+. .+.+..+|+.++..|.+.|++++
T Consensus       314 ~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~  391 (597)
T 2xpi_A          314 TLFVRSRFIDVLAITTKILEIDPY-NLDVYPLHLASLHESGEKNKLYLISNDLVDR-HPEKAVTWLAVGIYYLCVNKISE  391 (597)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTT-CCTTHHHHHHHHHHHTCHHHHHHHHHHHHHH-CTTSHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHHcCcc-cHHHHHHHHHHHHHhCCHHHHHHHHHHHHhh-CcccHHHHHHHHHHHHHhccHHH
Confidence            344444445555544444443322 4444444444444555555555555444432 12345556666666666666666


Q ss_pred             HHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhc
Q 023915           84 AYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSE  163 (275)
Q Consensus        84 a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  163 (275)
                      |.++|+++.+.. +.+..+|+.++.+|.+.|++++|.++|+++..... .+..+|..+..+|.+.|++++|.++|+++..
T Consensus       392 A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  469 (597)
T 2xpi_A          392 ARRYFSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLFQ-GTHLPYLFLGMQHMQLGNILLANEYLQSSYA  469 (597)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTT-TCSHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-cchHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            666666665532 23455666666666666666666666666654432 2344566666666666666666666666544


Q ss_pred             --CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHc----CCCCC--hhhHHHHHHHHHHhchhHHHHHHHHHHHhhCCCC
Q 023915          164 --SISHPAIKKFASAFVRLGNINLVNDVMKAIHAT----GYRID--QGIFHIAIARYIAEREKKELLLKLLEWMTGQGYV  235 (275)
Q Consensus       164 --~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----g~~p~--~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~~~~  235 (275)
                        ..++..|+.+...|.+.|++++|.++|+.+.+.    +..|+  ..+|..+...|. ..|++++|.++++++.+.+ +
T Consensus       470 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~-~~g~~~~A~~~~~~~~~~~-p  547 (597)
T 2xpi_A          470 LFQYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYR-KLKMYDAAIDALNQGLLLS-T  547 (597)
T ss_dssp             HCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHS-S
T ss_pred             hCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHH-HhcCHHHHHHHHHHHHHhC-C
Confidence              223445666666666666666666666666554    45555  456666666654 5566666666666665543 3


Q ss_pred             CChhhHHHHHHHHHHhhHHHHHHHHh
Q 023915          236 VDSSTRNLILKNSHLFGRQLIADILS  261 (275)
Q Consensus       236 p~~~t~~~li~~~~~~g~~~~~~~~~  261 (275)
                      .+..+|..+..+|.+.|+...+....
T Consensus       548 ~~~~~~~~l~~~~~~~g~~~~A~~~~  573 (597)
T 2xpi_A          548 NDANVHTAIALVYLHKKIPGLAITHL  573 (597)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHhCCHHHHHHHH
Confidence            35666666666666666444444433

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.93  E-value=6.7e-24  Score=184.53  Aligned_cols=255  Identities=10%  Similarity=-0.019  Sum_probs=223.8

Q ss_pred             hhhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCH
Q 023915            2 ISAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMY   81 (275)
Q Consensus         2 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~   81 (275)
                      +..|.+.|++++|.++|+.+.+.  .++..+|+.++.+|.+.|++++|.++|+++.+.+ +.+..+++.++.++.+.|++
T Consensus       279 ~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~  355 (597)
T 2xpi_A          279 LNKTSHEDELRRAEDYLSSINGL--EKSSDLLLCKADTLFVRSRFIDVLAITTKILEID-PYNLDVYPLHLASLHESGEK  355 (597)
T ss_dssp             SCTTTTHHHHHHHHHHHHTSTTG--GGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCCTTHHHHHHHHHHHTCH
T ss_pred             HHHHcCcchHHHHHHHHHHhhcC--CchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHhCCH
Confidence            56788999999999999999876  5799999999999999999999999999998765 34778899999999999999


Q ss_pred             HHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHh
Q 023915           82 ILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDN  161 (275)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  161 (275)
                      ++|..+++++.+.. +.+..+++.+...|.+.|++++|.++|+++..... .+..+|+.++..|.+.|++++|.++|+++
T Consensus       356 ~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  433 (597)
T 2xpi_A          356 NKLYLISNDLVDRH-PEKAVTWLAVGIYYLCVNKISEARRYFSKSSTMDP-QFGPAWIGFAHSFAIEGEHDQAISAYTTA  433 (597)
T ss_dssp             HHHHHHHHHHHHHC-TTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhC-cccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            99999999998653 56788999999999999999999999999876432 24568999999999999999999999998


Q ss_pred             hcC--CChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhchhHHHHHHHHHHHhhC----CCC
Q 023915          162 SES--ISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTGQ----GYV  235 (275)
Q Consensus       162 ~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~----~~~  235 (275)
                      ...  .+...++.+..+|.+.|++++|.++|+.+.+.. +.+..+|+.+...|+ +.|++++|.++|+++.+.    +..
T Consensus       434 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~-~~g~~~~A~~~~~~~~~~~~~~~~~  511 (597)
T 2xpi_A          434 ARLFQGTHLPYLFLGMQHMQLGNILLANEYLQSSYALF-QYDPLLLNELGVVAF-NKSDMQTAINHFQNALLLVKKTQSN  511 (597)
T ss_dssp             HHTTTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHHHHSCCC
T ss_pred             HHhCccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHH-HhCCHHHHHHHHHHHHHhhhccccc
Confidence            763  345589999999999999999999999998864 346889999999987 779999999999999776    778


Q ss_pred             CC--hhhHHHHHHHHHHhhHHHHHHHHhcc
Q 023915          236 VD--SSTRNLILKNSHLFGRQLIADILSKQ  263 (275)
Q Consensus       236 p~--~~t~~~li~~~~~~g~~~~~~~~~~~  263 (275)
                      |+  ..+|..+..+|.+.|+...+....+.
T Consensus       512 p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  541 (597)
T 2xpi_A          512 EKPWAATWANLGHAYRKLKMYDAAIDALNQ  541 (597)
T ss_dssp             SGGGHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence            88  78999999999999976666665544

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.90  E-value=6.7e-24  Score=186.64  Aligned_cols=164  Identities=9%  Similarity=0.069  Sum_probs=130.6

Q ss_pred             cHHhHHHHHHHHHccCCHHHHHHHHHHHhh---cCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHH
Q 023915           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDE---LAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSS  105 (275)
Q Consensus        29 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~---~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~  105 (275)
                      -..|||+||++||+.|++++|.++|++|.+   .|+.||..|||+||++|++.|++++|.++|++|.+.|+.||..||++
T Consensus       126 ~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYnt  205 (1134)
T 3spa_A          126 QQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAA  205 (1134)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHH
Confidence            346899999999999999999999988764   58999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhccCC-HHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhcCCCh--h--HHHHHHHHHHhc
Q 023915          106 LIFHLGKMRA-HSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSESISH--P--AIKKFASAFVRL  180 (275)
Q Consensus       106 li~~~~~~g~-~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~--~--~~~~li~~~~~~  180 (275)
                      +|.++|+.|+ .+.|.++|++|...|+.|+..+|++++.+..+.+-++.+.++..++.-.+.+  .  +...|.+.|.+.
T Consensus       206 LI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~vL~~Vrkv~P~f~p~~~~~~~~~t~~LL~dl~s~d  285 (1134)
T 3spa_A          206 ALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKD  285 (1134)
T ss_dssp             HHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHHHHHHHGGGCCCCCCCCCCCCCCCCCTTTHHHHCCC
T ss_pred             HHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHHHHHHHHHhCcccCCCCCCcccccchHHHHHHHccC
Confidence            9999999998 4789999999999999999999999997766654444333332222211111  1  334566666655


Q ss_pred             C---------ChhHHHHHHHH
Q 023915          181 G---------NINLVNDVMKA  192 (275)
Q Consensus       181 ~---------~~~~a~~~~~~  192 (275)
                      +         ..++....|++
T Consensus       286 ~~~s~pk~~~~~~~L~~~~~~  306 (1134)
T 3spa_A          286 GRVSYPKLHLPLKTLQCLFEK  306 (1134)
T ss_dssp             SCCCCCCCSSCHHHHHHHHHH
T ss_pred             CCCcCccccCCHHHHHHHHHH
Confidence            5         23455555554

>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=1.7e-23  Score=184.11  Aligned_cols=114  Identities=11%  Similarity=0.190  Sum_probs=106.8

Q ss_pred             ChhhhhhcCcHHHHHHHHHHHHh---cCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHc
Q 023915            1 MISAFCRGGCFEEAKQLAGDFEA---KYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCK   77 (275)
Q Consensus         1 li~~~~~~g~~~~a~~~~~~m~~---~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~   77 (275)
                      ||++||+.|++++|.++|++|.+   .|+.||+.|||+||++||+.|++++|.++|++|.+.|+.||..|||+||+++++
T Consensus       133 LIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYntLI~glcK  212 (1134)
T 3spa_A          133 FFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGR  212 (1134)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHh
Confidence            58999999999999999998874   589999999999999999999999999999999999999999999999999999


Q ss_pred             cCCH-HHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccC
Q 023915           78 EKMY-ILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMR  114 (275)
Q Consensus        78 ~~~~-~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g  114 (275)
                      .|+. +.|.++|++|.+.|+.||..+|++++.++.+.+
T Consensus       213 ~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~  250 (1134)
T 3spa_A          213 QDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRAT  250 (1134)
T ss_dssp             HTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHH
T ss_pred             CCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHH
Confidence            9985 789999999999999999999999987666543

>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=99.82  E-value=2.3e-17  Score=136.07  Aligned_cols=251  Identities=12%  Similarity=-0.011  Sum_probs=165.6

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChh-hHHHHHHHHHccCCH
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYN-TFHILIKYFCKEKMY   81 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~-t~~~li~~~~~~~~~   81 (275)
                      ..+.+.|++++|.+.|+.+.+..+. +..+|..+..++.+.|++++|.+.|+++.+.  .|+.. .+..+...+...|++
T Consensus        75 ~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~  151 (388)
T 1w3b_A           75 NVYKERGQLQEAIEHYRHALRLKPD-FIDGYINLAAALVAAGDMEGAVQAYVSALQY--NPDLYCVRSDLGNLLKALGRL  151 (388)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHSCSSHHHHHHHHHHHH--CTTCTHHHHHHHHHHHTTSCH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHcCcc-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHccCH
Confidence            4677888888888888888775332 4557888888888888888888888877763  35543 345566667777777


Q ss_pred             HHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhcccc-----------------------------
Q 023915           82 ILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRS-----------------------------  132 (275)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~-----------------------------  132 (275)
                      ++|...|+++.+.. +-+..+|..+...+.+.|++++|...|+++....+.                             
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            77777777776652 223556777777777777777777777665532211                             


Q ss_pred             ---c-cHHhHHHHHHHHHhccchHHHHHHHHHhhc--CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHH
Q 023915          133 ---M-CKALHEKILHILISGKLLKDAYVVVKDNSE--SISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFH  206 (275)
Q Consensus       133 ---~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~  206 (275)
                         | +..++..+...+...|++++|...++++..  ...+..+..+...+.+.|++++|...|+.+.+.. +.+..+++
T Consensus       231 ~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~  309 (388)
T 1w3b_A          231 SLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLN  309 (388)
T ss_dssp             HHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             hhCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHH
Confidence               1 234556666667777777777777776654  2233466677777777777777777777776643 34556677


Q ss_pred             HHHHHHHHhchhHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHHhhHHHHHHHH
Q 023915          207 IAIARYIAEREKKELLLKLLEWMTGQGYVVDSSTRNLILKNSHLFGRQLIADIL  260 (275)
Q Consensus       207 ~li~~~~~~~~~~~~a~~l~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~~~~~  260 (275)
                      .+...+. ..|++++|.+.++++.+. .+.+..++..+...+.+.|+...+...
T Consensus       310 ~l~~~~~-~~g~~~~A~~~~~~al~~-~p~~~~~~~~l~~~~~~~g~~~~A~~~  361 (388)
T 1w3b_A          310 NLANIKR-EQGNIEEAVRLYRKALEV-FPEFAAAHSNLASVLQQQGKLQEALMH  361 (388)
T ss_dssp             HHHHHHH-TTTCHHHHHHHHHHHTTS-CTTCHHHHHHHHHHHHTTTCCHHHHHH
T ss_pred             HHHHHHH-HcCCHHHHHHHHHHHHhc-CCCcHHHHHHHHHHHHHcCCHHHHHHH
Confidence            7776665 667777777777777653 233466777777777777744444433

>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=99.82  E-value=5.2e-17  Score=133.92  Aligned_cols=251  Identities=11%  Similarity=0.005  Sum_probs=185.8

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCh-hhHHHHHHHHHccCCH
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDY-NTFHILIKYFCKEKMY   81 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-~t~~~li~~~~~~~~~   81 (275)
                      ..+.+.|++++|...++...+.. +.+..+|+.+..++.+.|++++|++.|+++.+.  .|+. .+|..+..++.+.|++
T Consensus        41 ~~~~~~~~~~~a~~~~~~a~~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~  117 (388)
T 1w3b_A           41 SIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQLQEAIEHYRHALRL--KPDFIDGYINLAAALVAAGDM  117 (388)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHSCS
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHc--CcchHHHHHHHHHHHHHcCCH
Confidence            35678899999999999988764 347889999999999999999999999999873  4654 5799999999999999


Q ss_pred             HHHHHHHHHHHHcCCCCC-HHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHH
Q 023915           82 ILAYRTMVDMHRKGHQPE-EELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKD  160 (275)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  160 (275)
                      ++|...|+++.+..  |+ ...+..+...+...|++++|.+.|+.+....+. ....|..+...+...|++++|...|++
T Consensus       118 ~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~  194 (388)
T 1w3b_A          118 EGAVQAYVSALQYN--PDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPN-FAVAWSNLGCVFNAQGEIWLAIHHFEK  194 (388)
T ss_dssp             SHHHHHHHHHHHHC--TTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            99999999998763  54 456777888899999999999999998865432 355788888888888888888888877


Q ss_pred             hhcC--C----------------------------------ChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhh
Q 023915          161 NSES--I----------------------------------SHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGI  204 (275)
Q Consensus       161 ~~~~--~----------------------------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~  204 (275)
                      +...  .                                  .+..+..+...|...|++++|...|+.+.+.+ +.+..+
T Consensus       195 al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~  273 (388)
T 1w3b_A          195 AVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDA  273 (388)
T ss_dssp             HHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHH
T ss_pred             HHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHH
Confidence            5431  1                                  12244455666666666777777666666542 123456


Q ss_pred             HHHHHHHHHHhchhHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHHhhHHHHHHHHhc
Q 023915          205 FHIAIARYIAEREKKELLLKLLEWMTGQGYVVDSSTRNLILKNSHLFGRQLIADILSK  262 (275)
Q Consensus       205 y~~li~~~~~~~~~~~~a~~l~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~~~~~~~  262 (275)
                      |..+...+. ..|++++|.+.++++.+. .+.+..++..+...+.+.|+...+....+
T Consensus       274 ~~~l~~~~~-~~g~~~~A~~~~~~al~~-~p~~~~~~~~l~~~~~~~g~~~~A~~~~~  329 (388)
T 1w3b_A          274 YCNLANALK-EKGSVAEAEDCYNTALRL-CPTHADSLNNLANIKREQGNIEEAVRLYR  329 (388)
T ss_dssp             HHHHHHHHH-HHSCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTTTCHHHHHHHHH
T ss_pred             HHHHHHHHH-HcCCHHHHHHHHHHHHhh-CcccHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            666666654 556777777777776554 24456667777777777775555544443

>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=99.80  E-value=1.6e-16  Score=133.31  Aligned_cols=188  Identities=13%  Similarity=0.054  Sum_probs=102.6

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHH
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYI   82 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~   82 (275)
                      ..+.+.|++++|..+|+.+....+. +..+|..+..++...|++++|++.|+++.+.+ +.+..++..+...|.+.|+++
T Consensus        34 ~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~  111 (450)
T 2y4t_A           34 KKLLAAGQLADALSQFHAAVDGDPD-NYIAYYRRATVFLAMGKSKAALPDLTKVIQLK-MDFTAARLQRGHLLLKQGKLD  111 (450)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHH
Confidence            3456667777777777776654322 56666777777777777777777777666542 123455666666666667777


Q ss_pred             HHHHHHHHHHHcCCCCCH----HhHHHHH------------HHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHH
Q 023915           83 LAYRTMVDMHRKGHQPEE----ELCSSLI------------FHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILI  146 (275)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~----~~~~~li------------~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  146 (275)
                      .|...|+++.+.  .|+.    ..+..+.            ..+.+.|++++|...|+.+..... .+...+..+...|.
T Consensus       112 ~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~  188 (450)
T 2y4t_A          112 EAEDDFKKVLKS--NPSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVCV-WDAELRELRAECFI  188 (450)
T ss_dssp             HHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhc--CCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHH
Confidence            666666666643  2322    3333332            225555666666666655543221 12334445555555


Q ss_pred             hccchHHHHHHHHHhhc--CCChhHHHHHHHHHHhcCChhHHHHHHHHHHH
Q 023915          147 SGKLLKDAYVVVKDNSE--SISHPAIKKFASAFVRLGNINLVNDVMKAIHA  195 (275)
Q Consensus       147 ~~~~~~~a~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  195 (275)
                      ..|++++|...++++..  ...+..+..+...|...|++++|...|+.+..
T Consensus       189 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  239 (450)
T 2y4t_A          189 KEGEPRKAISDLKAASKLKNDNTEAFYKISTLYYQLGDHELSLSEVRECLK  239 (450)
T ss_dssp             HTTCGGGGHHHHHHHHHHHCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            55555555555555433  22233444455555555555555555554443

>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=99.79  E-value=2.1e-16  Score=132.62  Aligned_cols=252  Identities=10%  Similarity=-0.073  Sum_probs=202.7

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCh----hhHHHHH------
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDY----NTFHILI------   72 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~----~t~~~li------   72 (275)
                      ..+.+.|++++|.+.|+.+.+.++. +..++..+..+|.+.|++++|.+.|+++.+.  .|+.    ..+..+.      
T Consensus        68 ~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~  144 (450)
T 2y4t_A           68 TVFLAMGKSKAALPDLTKVIQLKMD-FTAARLQRGHLLLKQGKLDEAEDDFKKVLKS--NPSENEEKEAQSQLIKSDEMQ  144 (450)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHhcCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCChhhHHHHHHHHHHHHHH
Confidence            4678899999999999999987644 6789999999999999999999999999874  4554    4555553      


Q ss_pred             ------HHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHH
Q 023915           73 ------KYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILI  146 (275)
Q Consensus        73 ------~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  146 (275)
                            ..+.+.|+++.|...|+++.+.. +.+..++..+..+|.+.|++++|...|+.+..... .+...+..+...+.
T Consensus       145 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~  222 (450)
T 2y4t_A          145 RLRSQALNAFGSGDYTAAIAFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLKN-DNTEAFYKISTLYY  222 (450)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHC-SCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHH
Confidence                  44889999999999999998764 45677899999999999999999999999876533 34568889999999


Q ss_pred             hccchHHHHHHHHHhhc-CCC-hhHHHHH------------HHHHHhcCChhHHHHHHHHHHHcCCCCC-----hhhHHH
Q 023915          147 SGKLLKDAYVVVKDNSE-SIS-HPAIKKF------------ASAFVRLGNINLVNDVMKAIHATGYRID-----QGIFHI  207 (275)
Q Consensus       147 ~~~~~~~a~~~~~~~~~-~~~-~~~~~~l------------i~~~~~~~~~~~a~~~~~~m~~~g~~p~-----~~~y~~  207 (275)
                      ..|++++|...++++.. .+. +..+..+            ...|...|++++|...|+.+.+.  .|+     ...|..
T Consensus       223 ~~g~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~--~p~~~~~~~~~~~~  300 (450)
T 2y4t_A          223 QLGDHELSLSEVRECLKLDQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKT--EPSIAEYTVRSKER  300 (450)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CCSSHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcchHHHHHHHHH
Confidence            99999999999999866 232 2234433            78899999999999999998875  355     346777


Q ss_pred             HHHHHHHhchhHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHHhhHHHHHHHHhcc
Q 023915          208 AIARYIAEREKKELLLKLLEWMTGQGYVVDSSTRNLILKNSHLFGRQLIADILSKQ  263 (275)
Q Consensus       208 li~~~~~~~~~~~~a~~l~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~~~~~~~~  263 (275)
                      +...+. +.|++++|...++++.... +.+...+..+..+|...|+...+....+.
T Consensus       301 l~~~~~-~~g~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~  354 (450)
T 2y4t_A          301 ICHCFS-KDEKPVEAIRVCSEVLQME-PDNVNALKDRAEAYLIEEMYDEAIQDYET  354 (450)
T ss_dssp             HHHHHH-TTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHH-HCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence            777776 7799999999999987642 34678999999999999966666555443

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.77  E-value=1.9e-16  Score=129.44  Aligned_cols=255  Identities=5%  Similarity=-0.080  Sum_probs=201.2

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHH
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYI   82 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~   82 (275)
                      ..+.+.|++++|.+.|+.+....+. +..+|..+...+.+.|++++|++.|++..+.. +.+..++..+...|.+.|+++
T Consensus        73 ~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~  150 (365)
T 4eqf_A           73 LKRLKEGDLPVTILFMEAAILQDPG-DAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAVSYTNTSHQQ  150 (365)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHccccHH
Confidence            4577899999999999999987544 78899999999999999999999999998743 234778999999999999999


Q ss_pred             HHHHHHHHHHHcCCCCC-----------HHhHHHHHHHHhccCCHHHHHHHHHHHHhcccc-ccHHhHHHHHHHHHhccc
Q 023915           83 LAYRTMVDMHRKGHQPE-----------EELCSSLIFHLGKMRAHSEALSVYNMLRYSKRS-MCKALHEKILHILISGKL  150 (275)
Q Consensus        83 ~a~~~~~~m~~~g~~~~-----------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~-~~~~~~~~li~~~~~~~~  150 (275)
                      +|...|+++.+..  |+           ...+..+...+.+.|++++|...|+.+...... ++...+..+...+...|+
T Consensus       151 ~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~~~g~  228 (365)
T 4eqf_A          151 DACEALKNWIKQN--PKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVLFHLSGE  228 (365)
T ss_dssp             HHHHHHHHHHHHC--HHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHhC--ccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHHHHHCCC
Confidence            9999999998753  32           223344588899999999999999998876443 256788999999999999


Q ss_pred             hHHHHHHHHHhhc--CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhchhHHHHHHHHHH
Q 023915          151 LKDAYVVVKDNSE--SISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEW  228 (275)
Q Consensus       151 ~~~a~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~  228 (275)
                      +++|...+++...  ...+..+..+...|...|++++|...|+...+.. +.+..++..+...|. ..|++++|...|++
T Consensus       229 ~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~-~~g~~~~A~~~~~~  306 (365)
T 4eqf_A          229 FNRAIDAFNAALTVRPEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQ-PGFIRSRYNLGISCI-NLGAYREAVSNFLT  306 (365)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH-HHTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHH-HCCCHHHHHHHHHH
Confidence            9999999999766  3345588999999999999999999999988863 224678888888876 77999999999998


Q ss_pred             HhhCC---CC--------CChhhHHHHHHHHHHhhHHHHHHHHhcc
Q 023915          229 MTGQG---YV--------VDSSTRNLILKNSHLFGRQLIADILSKQ  263 (275)
Q Consensus       229 m~~~~---~~--------p~~~t~~~li~~~~~~g~~~~~~~~~~~  263 (275)
                      ..+..   ..        .+...|..+-.++...|+...++...+.
T Consensus       307 al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          307 ALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             HHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTT
T ss_pred             HHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHh
Confidence            86531   11        1467889999999999977777666544

>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=99.76  E-value=7.4e-16  Score=125.78  Aligned_cols=255  Identities=8%  Similarity=-0.074  Sum_probs=201.9

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHH
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYI   82 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~   82 (275)
                      ..+.+.|++++|...|+.+.+..+. +..+|..+..++.+.|++++|.+.|++..+.. +.+..++..+...+...|+++
T Consensus        72 ~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~  149 (368)
T 1fch_A           72 LRRLQEGDLPNAVLLFEAAVQQDPK-HMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNESLQR  149 (368)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHSCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHH
Confidence            4577889999999999999987543 77889999999999999999999999998753 236678889999999999999


Q ss_pred             HHHHHHHHHHHcCCCCCHHhHHH---------------HHHHHhccCCHHHHHHHHHHHHhccccc-cHHhHHHHHHHHH
Q 023915           83 LAYRTMVDMHRKGHQPEEELCSS---------------LIFHLGKMRAHSEALSVYNMLRYSKRSM-CKALHEKILHILI  146 (275)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~~---------------li~~~~~~g~~~~a~~~~~~m~~~~~~~-~~~~~~~li~~~~  146 (275)
                      .|...++++.+.... +...+..               .+..+...|++++|...|+.+....+.. +..++..+...+.
T Consensus       150 ~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~  228 (368)
T 1fch_A          150 QACEILRDWLRYTPA-YAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFN  228 (368)
T ss_dssp             HHHHHHHHHHHTSTT-TGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCcC-cHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHH
Confidence            999999999876422 2222221               2344448899999999999987654432 4678889999999


Q ss_pred             hccchHHHHHHHHHhhc--CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhchhHHHHHH
Q 023915          147 SGKLLKDAYVVVKDNSE--SISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLK  224 (275)
Q Consensus       147 ~~~~~~~a~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~~a~~  224 (275)
                      ..|++++|...+++...  ...+..+..+...+...|++++|...++...+.. +.+...+..+...|. ..|++++|..
T Consensus       229 ~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~-~~g~~~~A~~  306 (368)
T 1fch_A          229 LSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCI-NLGAHREAVE  306 (368)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH-HHTCHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHH-HCCCHHHHHH
Confidence            99999999999999765  3344588899999999999999999999988753 234667888888876 7799999999


Q ss_pred             HHHHHhhCC---C-------CCChhhHHHHHHHHHHhhHHHHHHHHhc
Q 023915          225 LLEWMTGQG---Y-------VVDSSTRNLILKNSHLFGRQLIADILSK  262 (275)
Q Consensus       225 l~~~m~~~~---~-------~p~~~t~~~li~~~~~~g~~~~~~~~~~  262 (275)
                      .+++.....   .       .....+|..+..++...|+...+..+.+
T Consensus       307 ~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  354 (368)
T 1fch_A          307 HFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGAADA  354 (368)
T ss_dssp             HHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHHHHT
T ss_pred             HHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCChHhHHHhHH
Confidence            999886531   1       1126889999999999996666665544

>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=99.75  E-value=5.4e-15  Score=118.61  Aligned_cols=257  Identities=10%  Similarity=-0.088  Sum_probs=203.7

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccC-CH
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEK-MY   81 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~-~~   81 (275)
                      ..+...|++++|.++|+.+....+. +...+..+..++...|++++|..+++++.+.. +.+...+..+...+...| ++
T Consensus        30 ~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~  107 (330)
T 3hym_B           30 ERHYYNCDFKMCYKLTSVVMEKDPF-HASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAVGCYYLMVGHKN  107 (330)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTT-CTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHHHHHHHHSCSCH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHcCCC-ChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhhhhH
Confidence            4566789999999999999887543 56677788888999999999999999998742 234567888888999999 99


Q ss_pred             HHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHh
Q 023915           82 ILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDN  161 (275)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  161 (275)
                      +.|...|++..+.. +.+...+..+...+...|++++|...++......... ...+..+...+...|++++|...+++.
T Consensus       108 ~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~a  185 (330)
T 3hym_B          108 EHARRYLSKATTLE-KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKGC-HLPMLYIGLEYGLTNNSKLAERFFSQA  185 (330)
T ss_dssp             HHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTC-SHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhcccc-HHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            99999999988654 3356788899999999999999999999887654432 335666888899999999999999997


Q ss_pred             hcC--CChhHHHHHHHHHHhcCChhHHHHHHHHHHHcC--------CCCChhhHHHHHHHHHHhchhHHHHHHHHHHHhh
Q 023915          162 SES--ISHPAIKKFASAFVRLGNINLVNDVMKAIHATG--------YRIDQGIFHIAIARYIAEREKKELLLKLLEWMTG  231 (275)
Q Consensus       162 ~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g--------~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~  231 (275)
                      ...  ..+..+..+...+...|++++|...++...+..        .+.+..++..+...|. ..|++++|...+++..+
T Consensus       186 l~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~-~~g~~~~A~~~~~~a~~  264 (330)
T 3hym_B          186 LSIAPEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCR-KLKKYAEALDYHRQALV  264 (330)
T ss_dssp             HTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHH-HTTCHHHHHHHHHHHHH
T ss_pred             HHhCCCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHH-HhcCHHHHHHHHHHHHh
Confidence            763  334477888899999999999999999877641        1233467888888876 77999999999999876


Q ss_pred             CCCCCChhhHHHHHHHHHHhhHHHHHHHHhccCC
Q 023915          232 QGYVVDSSTRNLILKNSHLFGRQLIADILSKQHM  265 (275)
Q Consensus       232 ~~~~p~~~t~~~li~~~~~~g~~~~~~~~~~~~~  265 (275)
                      .. +.+...+..+-..+.+.|+...+....+...
T Consensus       265 ~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al  297 (330)
T 3hym_B          265 LI-PQNASTYSAIGYIHSLMGNFENAVDYFHTAL  297 (330)
T ss_dssp             HS-TTCSHHHHHHHHHHHHHTCHHHHHHHHHTTT
T ss_pred             hC-ccchHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            43 3457788888899999997776666655543

>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=99.75  E-value=2.3e-15  Score=120.61  Aligned_cols=255  Identities=10%  Similarity=-0.037  Sum_probs=203.8

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHH
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYI   82 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~   82 (275)
                      ..+.+.|++++|..+|+.+.+.... +...+..+..++.+.|++++|.+.|++..+.. +.+..++..+...+...|+++
T Consensus        29 ~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~  106 (327)
T 3cv0_A           29 LSMLKLANLAEAALAFEAVCQAAPE-REEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHNAN  106 (327)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHhccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHHHHHHcCCHH
Confidence            3567889999999999999987544 77889999999999999999999999998752 235678889999999999999


Q ss_pred             HHHHHHHHHHHcCCCCCH-HhHHHH--------------HH-HHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHH
Q 023915           83 LAYRTMVDMHRKGHQPEE-ELCSSL--------------IF-HLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILI  146 (275)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~-~~~~~l--------------i~-~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  146 (275)
                      .|...+++..+..  |+. ..+..+              .. .+...|++++|...++........ +...+..+...+.
T Consensus       107 ~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~  183 (327)
T 3cv0_A          107 AALASLRAWLLSQ--PQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMNPN-DAQLHASLGVLYN  183 (327)
T ss_dssp             HHHHHHHHHHHTS--TTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC--CccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHH
Confidence            9999999998753  332 233333              22 378889999999999998765433 4567888999999


Q ss_pred             hccchHHHHHHHHHhhc--CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhchhHHHHHH
Q 023915          147 SGKLLKDAYVVVKDNSE--SISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLK  224 (275)
Q Consensus       147 ~~~~~~~a~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~~a~~  224 (275)
                      ..|++++|...+++...  ...+..+..+...+...|++++|...++...+.. +.+..++..+...|. ..|++++|.+
T Consensus       184 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~-~~g~~~~A~~  261 (327)
T 3cv0_A          184 LSNNYDSAAANLRRAVELRPDDAQLWNKLGATLANGNRPQEALDAYNRALDIN-PGYVRVMYNMAVSYS-NMSQYDLAAK  261 (327)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH-HTTCHHHHHH
T ss_pred             HhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHH-HhccHHHHHH
Confidence            99999999999999765  3344578889999999999999999999988754 235677888888876 7799999999


Q ss_pred             HHHHHhhCCCCC-----------ChhhHHHHHHHHHHhhHHHHHHHHhccC
Q 023915          225 LLEWMTGQGYVV-----------DSSTRNLILKNSHLFGRQLIADILSKQH  264 (275)
Q Consensus       225 l~~~m~~~~~~p-----------~~~t~~~li~~~~~~g~~~~~~~~~~~~  264 (275)
                      .+++.....-..           +..++..+..++.+.|+...+....+..
T Consensus       262 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  312 (327)
T 3cv0_A          262 QLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQN  312 (327)
T ss_dssp             HHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCC
T ss_pred             HHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            999886642111           4778889999999999877777766543

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.73  E-value=3e-15  Score=118.71  Aligned_cols=239  Identities=10%  Similarity=0.019  Sum_probs=176.6

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHH
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYI   82 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~   82 (275)
                      +..-..|++..|+..++......+.+.....-.+.++|...|+++.|+.-++.    .-.|+..++..+...+.+.++.+
T Consensus         7 ~~~~~~g~y~~ai~~~~~~~~~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~----~~~~~~~a~~~la~~~~~~~~~~   82 (291)
T 3mkr_A            7 KNAFYIGSYQQCINEAQRVKPSSPERDVERDVFLYRAYLAQRKYGVVLDEIKP----SSAPELQAVRMFAEYLASHSRRD   82 (291)
T ss_dssp             HHHHHTTCHHHHHHHHHHSCCCSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT----TSCHHHHHHHHHHHHHHCSTTHH
T ss_pred             HHHHHHHHHHHHHHHHHhcccCCchhhHHHHHHHHHHHHHCCCHHHHHHHhcc----cCChhHHHHHHHHHHHcCCCcHH
Confidence            34556788899988887765432222234556678889999999998876644    24567778888888899999999


Q ss_pred             HHHHHHHHHHHcCCCCC-HHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHh
Q 023915           83 LAYRTMVDMHRKGHQPE-EELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDN  161 (275)
Q Consensus        83 ~a~~~~~~m~~~g~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  161 (275)
                      .|++.++++...+..|+ ...+..+-..+.+.|++++|++.++.      +.+...+..+...+.+.|++++|.+.++++
T Consensus        83 ~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~  156 (291)
T 3mkr_A           83 AIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKELKKM  156 (291)
T ss_dssp             HHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            99999999888776564 44556666888899999999998887      345667888888899999999999999988


Q ss_pred             hcCCChhHHHH----HHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhchhHHHHHHHHHHHhhCCCCCC
Q 023915          162 SESISHPAIKK----FASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTGQGYVVD  237 (275)
Q Consensus       162 ~~~~~~~~~~~----li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~~~~p~  237 (275)
                      ...........    ++..+...|++++|..+|+++.+. .+.+...++.+...+. +.|++++|...+++..... +-+
T Consensus       157 ~~~~p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~-~p~~~~~~~~la~~~~-~~g~~~eA~~~l~~al~~~-p~~  233 (291)
T 3mkr_A          157 QDQDEDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK-CSPTLLLLNGQAACHM-AQGRWEAAEGVLQEALDKD-SGH  233 (291)
T ss_dssp             HHHCTTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH-SCCCHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHC-TTC
T ss_pred             HhhCcCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh-CCCcHHHHHHHHHHHH-HcCCHHHHHHHHHHHHHhC-CCC
Confidence            76432222222    334444558899999999998886 3456677888887776 7789999999999876542 335


Q ss_pred             hhhHHHHHHHHHHhhHH
Q 023915          238 SSTRNLILKNSHLFGRQ  254 (275)
Q Consensus       238 ~~t~~~li~~~~~~g~~  254 (275)
                      ..++..+...+...|+.
T Consensus       234 ~~~l~~l~~~~~~~g~~  250 (291)
T 3mkr_A          234 PETLINLVVLSQHLGKP  250 (291)
T ss_dssp             HHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHHHHHHcCCC
Confidence            67888888888888843

>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=99.71  E-value=2.9e-14  Score=114.31  Aligned_cols=238  Identities=11%  Similarity=-0.033  Sum_probs=195.8

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccC-CHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCH
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTG-DMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMY   81 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g-~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~   81 (275)
                      ..+.+.|++++|..+++.+.+.... +...|..+...+...| ++++|.+.|++..+.. +.+...|..+...+...|++
T Consensus        64 ~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~  141 (330)
T 3hym_B           64 GTLVELNKANELFYLSHKLVDLYPS-NPVSWFAVGCYYLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVESEH  141 (330)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHCTT-STHHHHHHHHHHHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTCH
T ss_pred             HHHHHhhhHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccCH
Confidence            4677889999999999999987543 6788999999999999 9999999999998743 23466788999999999999


Q ss_pred             HHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHh
Q 023915           82 ILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDN  161 (275)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  161 (275)
                      +.|...+++..+.. +.+...+..+...|...|++++|...++........ +...+..+...+...|++++|...+++.
T Consensus       142 ~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a  219 (330)
T 3hym_B          142 DQAMAAYFTAAQLM-KGCHLPMLYIGLEYGLTNNSKLAERFFSQALSIAPE-DPFVMHEVGVVAFQNGEWKTAEKWFLDA  219 (330)
T ss_dssp             HHHHHHHHHHHHHT-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhc-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHcccHHHHHHHHHHH
Confidence            99999999998764 334567777999999999999999999998866433 4567888999999999999999999986


Q ss_pred             hc-----------CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhchhHHHHHHHHHHHh
Q 023915          162 SE-----------SISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMT  230 (275)
Q Consensus       162 ~~-----------~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~m~  230 (275)
                      ..           ...+..+..+...|...|++++|...++...+.. +.+...+..+...|. ..|++++|.+.+++..
T Consensus       220 ~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~-~~g~~~~A~~~~~~al  297 (330)
T 3hym_B          220 LEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALDYHRQALVLI-PQNASTYSAIGYIHS-LMGNFENAVDYFHTAL  297 (330)
T ss_dssp             HHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHH-HHTCHHHHHHHHHTTT
T ss_pred             HHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhC-ccchHHHHHHHHHHH-HhccHHHHHHHHHHHH
Confidence            55           1223478889999999999999999999988764 235567888888776 7799999999999887


Q ss_pred             hCCCCC-ChhhHHHHHHHH
Q 023915          231 GQGYVV-DSSTRNLILKNS  248 (275)
Q Consensus       231 ~~~~~p-~~~t~~~li~~~  248 (275)
                      +.  .| +...+..+..++
T Consensus       298 ~~--~p~~~~~~~~l~~~~  314 (330)
T 3hym_B          298 GL--RRDDTFSVTMLGHCI  314 (330)
T ss_dssp             TT--CSCCHHHHHHHHHHH
T ss_pred             cc--CCCchHHHHHHHHHH
Confidence            64  45 456666666666

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.70  E-value=1.3e-14  Score=115.12  Aligned_cols=224  Identities=9%  Similarity=0.038  Sum_probs=176.0

Q ss_pred             hhhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChh-hHHHHHHHHHccCC
Q 023915            2 ISAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYN-TFHILIKYFCKEKM   80 (275)
Q Consensus         2 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~-t~~~li~~~~~~~~   80 (275)
                      ..+|...|+++.|+..++.    .-.|+..++..+...+...++.++|++.++++...+..|+.. .+..+...+.+.|+
T Consensus        41 ~r~yi~~g~~~~al~~~~~----~~~~~~~a~~~la~~~~~~~~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~  116 (291)
T 3mkr_A           41 YRAYLAQRKYGVVLDEIKP----SSAPELQAVRMFAEYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQN  116 (291)
T ss_dssp             HHHHHHTTCHHHHHHHSCT----TSCHHHHHHHHHHHHHHCSTTHHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHCCCHHHHHHHhcc----cCChhHHHHHHHHHHHcCCCcHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCC
Confidence            3578889999999987654    235678899999999999999999999999999877767654 45566688999999


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccH-HhHHHHHHHHHhccchHHHHHHHH
Q 023915           81 YILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCK-ALHEKILHILISGKLLKDAYVVVK  159 (275)
Q Consensus        81 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~-~~~~~li~~~~~~~~~~~a~~~~~  159 (275)
                      +++|+..+++      +.+...+..+...+.+.|++++|.+.|+.+......... ......+..+...|++++|..+|+
T Consensus       117 ~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~  190 (291)
T 3mkr_A          117 PDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKELKKMQDQDEDATLTQLATAWVSLAAGGEKLQDAYYIFQ  190 (291)
T ss_dssp             HHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTTHHHHHHHHHH
T ss_pred             HHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCcCcHHHHHHHHHHHHHhCchHHHHHHHHHH
Confidence            9999999988      567789999999999999999999999999876432211 111234445556699999999999


Q ss_pred             Hhhc--CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhchhHH-HHHHHHHHHhhCCCCC
Q 023915          160 DNSE--SISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKE-LLLKLLEWMTGQGYVV  236 (275)
Q Consensus       160 ~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~-~a~~l~~~m~~~~~~p  236 (275)
                      ++..  ..++..++.+..++...|++++|...|++..+.. +-+..++..+...+. ..|+.+ .+.++++++.+.  .|
T Consensus       191 ~~l~~~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~-p~~~~~l~~l~~~~~-~~g~~~eaa~~~~~~~~~~--~P  266 (291)
T 3mkr_A          191 EMADKCSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD-SGHPETLINLVVLSQ-HLGKPPEVTNRYLSQLKDA--HR  266 (291)
T ss_dssp             HHHHHSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH-HTTCCHHHHHHHHHHHHHH--CT
T ss_pred             HHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH-HcCCCHHHHHHHHHHHHHh--CC
Confidence            9876  3344478889999999999999999999988754 235668888887776 556665 467899888753  46


Q ss_pred             Chh
Q 023915          237 DSS  239 (275)
Q Consensus       237 ~~~  239 (275)
                      +..
T Consensus       267 ~~~  269 (291)
T 3mkr_A          267 SHP  269 (291)
T ss_dssp             TCH
T ss_pred             CCh
Confidence            543

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.69  E-value=1.9e-14  Score=122.49  Aligned_cols=90  Identities=16%  Similarity=0.108  Sum_probs=70.9

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHH
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYI   82 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~   82 (275)
                      ..+.+.|++++|.+.|+.+...+  |+...|..+..++.+.|++++|++.|+++.+.+ +.+..+|..+..++.+.|+++
T Consensus        14 ~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~   90 (514)
T 2gw1_A           14 NQFFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELK-PDYSKVLLRRASANEGLGKFA   90 (514)
T ss_dssp             HHHHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC-hHHHHHHHHHHHHHHHHhhHH
Confidence            35677888888888888888764  688888888888888888888888888887743 233457778888888888888


Q ss_pred             HHHHHHHHHHHcC
Q 023915           83 LAYRTMVDMHRKG   95 (275)
Q Consensus        83 ~a~~~~~~m~~~g   95 (275)
                      +|...|+++.+.+
T Consensus        91 ~A~~~~~~~~~~~  103 (514)
T 2gw1_A           91 DAMFDLSVLSLNG  103 (514)
T ss_dssp             HHHHHHHHHHHSS
T ss_pred             HHHHHHHHHHhcC
Confidence            8888888876554

>1b89_A Protein (clathrin heavy chain); triskelion, coated vesicles, endocytosis, SELF- assembly, alpha-alpha superhelix; 2.60A {Bos taurus} SCOP: a.118.1.3

Probab=99.67  E-value=2.1e-16  Score=129.47  Aligned_cols=182  Identities=14%  Similarity=0.144  Sum_probs=39.8

Q ss_pred             hcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHH
Q 023915            7 RGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYR   86 (275)
Q Consensus         7 ~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~   86 (275)
                      +.|++++|.++++++.      +..+|+.|..++.+.|++++|++.|.+.      +|..+|..++.++...|++++|..
T Consensus        15 ~~~~ld~A~~fae~~~------~~~vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~~g~~EeAi~   82 (449)
T 1b89_A           15 HIGNLDRAYEFAERCN------EPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVK   82 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhCC------ChHHHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCCCHHHHHH
Confidence            4455666666666662      2236666666666666666666666432      555566666666666666666666


Q ss_pred             HHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhcCCC
Q 023915           87 TMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSESIS  166 (275)
Q Consensus        87 ~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~  166 (275)
                      .++..++.  .+++.+.+.++.+|.+.|+++++.++++       .|+..+|..+...|...|++++|...|..+     
T Consensus        83 yl~~ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a-----  148 (449)
T 1b89_A           83 YLQMARKK--ARESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV-----  148 (449)
T ss_dssp             ----------------------------CHHHHTTTTT-------CC----------------CTTTHHHHHHHT-----
T ss_pred             HHHHHHHh--CccchhHHHHHHHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh-----
Confidence            55554442  3344556666666666666666655553       133345666666666666666666666654     


Q ss_pred             hhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhchhHHHH
Q 023915          167 HPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELL  222 (275)
Q Consensus       167 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~~a  222 (275)
                       +.|..+...+.+.|+++.|.+.+...      .++.+|..++.+|+ ..|+++.|
T Consensus       149 -~n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv-~~~ef~lA  196 (449)
T 1b89_A          149 -SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACV-DGKEFRLA  196 (449)
T ss_dssp             -TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHH-HTTCHHHH
T ss_pred             -hhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHH-HcCcHHHH
Confidence             35555666666666666666655544      14455555555544 44555555

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.67  E-value=5e-13  Score=108.22  Aligned_cols=248  Identities=11%  Similarity=-0.083  Sum_probs=127.1

Q ss_pred             hhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCC---C-hhhHHHH---------
Q 023915            5 FCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP---D-YNTFHIL---------   71 (275)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p---~-~~t~~~l---------   71 (275)
                      +...|++++|...|+...+..+. +...|..+...+...|++++|.+.|++..+.  .|   + ...+..+         
T Consensus        47 ~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~  123 (359)
T 3ieg_A           47 FLAMGKSKAALPDLTKVIALKMD-FTAARLQRGHLLLKQGKLDEAEDDFKKVLKS--NPSEQEEKEAESQLVKADEMQRL  123 (359)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHccCHHHHHHHHHHHHHhCCC-cchHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCcccChHHHHHHHHHHHHHHHH
Confidence            33444444444444444443221 3344444444444555555555555444432  23   1 1122222         


Q ss_pred             ---HHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhc
Q 023915           72 ---IKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISG  148 (275)
Q Consensus        72 ---i~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~  148 (275)
                         ...+...|+++.|...++++.+.. +.+...+..+...+.+.|++++|...++......+ .+...+..+...+...
T Consensus       124 ~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~  201 (359)
T 3ieg_A          124 RSQALDAFDGADYTAAITFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLKS-DNTEAFYKISTLYYQL  201 (359)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCS-CCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHc
Confidence               244445555555555555554432 23344555555566666666666666665554322 2334555566666666


Q ss_pred             cchHHHHHHHHHhhc-CCCh-hHHH------------HHHHHHHhcCChhHHHHHHHHHHHcCCCCChh-----hHHHHH
Q 023915          149 KLLKDAYVVVKDNSE-SISH-PAIK------------KFASAFVRLGNINLVNDVMKAIHATGYRIDQG-----IFHIAI  209 (275)
Q Consensus       149 ~~~~~a~~~~~~~~~-~~~~-~~~~------------~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~-----~y~~li  209 (275)
                      |++++|...+++... .+.. ..+.            .+...+...|++++|...++...+..  |+..     .+..+.
T Consensus       202 ~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~la  279 (359)
T 3ieg_A          202 GDHELSLSEVRECLKLDQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTE--PSVAEYTVRSKERIC  279 (359)
T ss_dssp             TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CSSHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHhhCccchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCchHHHHHHHHHHH
Confidence            666666666666544 1111 1111            12445666777777777777666543  3322     233344


Q ss_pred             HHHHHhchhHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHHhhHHHHHHHHh
Q 023915          210 ARYIAEREKKELLLKLLEWMTGQGYVVDSSTRNLILKNSHLFGRQLIADILS  261 (275)
Q Consensus       210 ~~~~~~~~~~~~a~~l~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~~~~~~  261 (275)
                      ..+. ..|++++|...+++..+. .+.+..++..+-..+.+.|+...+....
T Consensus       280 ~~~~-~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~g~~~~A~~~~  329 (359)
T 3ieg_A          280 HCFS-KDEKPVEAIRICSEVLQM-EPDNVNALKDRAEAYLIEEMYDEAIQDY  329 (359)
T ss_dssp             HHHH-HTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHH-HccCHHHHHHHHHHHHHh-CcccHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            4544 567777787777777654 2335667777777777777555544443

>1b89_A Protein (clathrin heavy chain); triskelion, coated vesicles, endocytosis, SELF- assembly, alpha-alpha superhelix; 2.60A {Bos taurus} SCOP: a.118.1.3

Probab=99.67  E-value=1.2e-15  Score=124.97  Aligned_cols=225  Identities=14%  Similarity=0.028  Sum_probs=109.0

Q ss_pred             ChhhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCC
Q 023915            1 MISAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKM   80 (275)
Q Consensus         1 li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~   80 (275)
                      |..++.+.|++++|++.|...      +|..+|..++.++...|++++|+..++..++.  .|+..+.+.++.+|.+.|+
T Consensus        38 La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~~g~~EeAi~yl~~ark~--~~~~~i~~~Li~~Y~Klg~  109 (449)
T 1b89_A           38 LAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKK--ARESYVETELIFALAKTNR  109 (449)
T ss_dssp             -------------------------------------------------------------------------------C
T ss_pred             HHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CccchhHHHHHHHHHHhCC
Confidence            456888999999999999653      58889999999999999999999987777663  4667889999999999999


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHH
Q 023915           81 YILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKD  160 (275)
Q Consensus        81 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  160 (275)
                      ++++.++++       .|+..+|..+...|...|.+++|...|..+         ..|..+..++++.|++++|.+.+++
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            999988885       478889999999999999999999999976         3799999999999999999999999


Q ss_pred             hhcCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhchhHHHHHHHHHHHhhCCCCCChhh
Q 023915          161 NSESISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTGQGYVVDSST  240 (275)
Q Consensus       161 ~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~~~~p~~~t  240 (275)
                      .   .++.+|..++.+|+..|+++.|......     +..++.-...++..| .+.|++++|..+++.-.... +--...
T Consensus       174 A---~~~~~Wk~v~~aCv~~~ef~lA~~~~l~-----L~~~ad~l~~lv~~Y-ek~G~~eEai~lLe~aL~le-~ah~~~  243 (449)
T 1b89_A          174 A---NSTRTWKEVCFACVDGKEFRLAQMCGLH-----IVVHADELEELINYY-QDRGYFEELITMLEAALGLE-RAHMGM  243 (449)
T ss_dssp             H---TCHHHHHHHHHHHHHTTCHHHHHHTTTT-----TTTCHHHHHHHHHHH-HHTTCHHHHHHHHHHHTTST-TCCHHH
T ss_pred             c---CCchhHHHHHHHHHHcCcHHHHHHHHHH-----HHhCHhhHHHHHHHH-HHCCCHHHHHHHHHHHhCCc-HHHHHH
Confidence            8   4678999999999999999999665443     223333455677777 48899999999999876554 445677


Q ss_pred             HHHHHHHHHHhhHHHHHHH
Q 023915          241 RNLILKNSHLFGRQLIADI  259 (275)
Q Consensus       241 ~~~li~~~~~~g~~~~~~~  259 (275)
                      |.-|--+|++.......+.
T Consensus       244 ftel~il~~ky~p~k~~eh  262 (449)
T 1b89_A          244 FTELAILYSKFKPQKMREH  262 (449)
T ss_dssp             HHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHhcCHHHHHHH
Confidence            7777777777764444333

>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=99.66  E-value=4.1e-14  Score=115.42  Aligned_cols=251  Identities=9%  Similarity=-0.038  Sum_probs=187.9

Q ss_pred             hhcCcHHHHHH-HHHHHHhcCC---CCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCH
Q 023915            6 CRGGCFEEAKQ-LAGDFEAKYD---KYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMY   81 (275)
Q Consensus         6 ~~~g~~~~a~~-~~~~m~~~g~---~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~   81 (275)
                      .-.|++++|.+ .|+.......   ..+...+..+...+.+.|++++|...|+++.+.. +.+..++..+...+.+.|++
T Consensus        36 ~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~  114 (368)
T 1fch_A           36 PWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQE  114 (368)
T ss_dssp             ----------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCH
Confidence            34567777777 6665443221   1145678899999999999999999999998753 34566888999999999999


Q ss_pred             HHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHH--------------HHHHHHh
Q 023915           82 ILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEK--------------ILHILIS  147 (275)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~--------------li~~~~~  147 (275)
                      +.|...|+++.+.. +.+..++..+...|...|++++|...++.+..............              .+..+..
T Consensus       115 ~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  193 (368)
T 1fch_A          115 LLAISALRRCLELK-PDNQTALMALAVSFTNESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLS  193 (368)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHH
T ss_pred             HHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHhhhhcccHHHHHHHHHhh
Confidence            99999999999875 45678999999999999999999999999887644333222111              2444458


Q ss_pred             ccchHHHHHHHHHhhc-CC---ChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhchhHHHHH
Q 023915          148 GKLLKDAYVVVKDNSE-SI---SHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLL  223 (275)
Q Consensus       148 ~~~~~~a~~~~~~~~~-~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~~a~  223 (275)
                      .|++++|...+++... .+   .+..+..+...|...|++++|...++...... +.+..+|..+...+. ..|++++|.
T Consensus       194 ~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~-~~g~~~~A~  271 (368)
T 1fch_A          194 DSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLA-NGNQSEEAV  271 (368)
T ss_dssp             HHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH-HTTCHHHHH
T ss_pred             cccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHH-HcCCHHHHH
Confidence            9999999999999766 23   34578889999999999999999999988753 234678888888876 779999999


Q ss_pred             HHHHHHhhCCCCCChhhHHHHHHHHHHhhHHHHHHHHh
Q 023915          224 KLLEWMTGQGYVVDSSTRNLILKNSHLFGRQLIADILS  261 (275)
Q Consensus       224 ~l~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~~~~~~  261 (275)
                      ..+++..... +.+...+..+...+.+.|+...+....
T Consensus       272 ~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~  308 (368)
T 1fch_A          272 AAYRRALELQ-PGYIRSRYNLGISCINLGAHREAVEHF  308 (368)
T ss_dssp             HHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            9999987642 345788899999999999555554443

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.65  E-value=5.8e-13  Score=107.80  Aligned_cols=248  Identities=13%  Similarity=0.024  Sum_probs=194.3

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCC-ChhhHHHHHHHHHccCCH
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP-DYNTFHILIKYFCKEKMY   81 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~t~~~li~~~~~~~~~   81 (275)
                      ..+.+.|++++|...|+.+....+. +..++..+...+...|++++|.+.|++..+.  .| +...+..+...+.+.|++
T Consensus        11 ~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~   87 (359)
T 3ieg_A           11 KKLLAAGQLADALSQFHAAVDGDPD-NYIAYYRRATVFLAMGKSKAALPDLTKVIAL--KMDFTAARLQRGHLLLKQGKL   87 (359)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhhCcc-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCcchHHHHHHHHHHHcCCh
Confidence            4577899999999999999987544 6789999999999999999999999999874  35 557788999999999999


Q ss_pred             HHHHHHHHHHHHcCCCC----CHHhHHHH------------HHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHH
Q 023915           82 ILAYRTMVDMHRKGHQP----EEELCSSL------------IFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHIL  145 (275)
Q Consensus        82 ~~a~~~~~~m~~~g~~~----~~~~~~~l------------i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~  145 (275)
                      +.|...|++..+.  .|    +...+..+            ...+...|++++|.+.++......+ .+...+..+...+
T Consensus        88 ~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~  164 (359)
T 3ieg_A           88 DEAEDDFKKVLKS--NPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVCV-WDAELRELRAECF  164 (359)
T ss_dssp             HHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhc--CCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CchHHHHHHHHHH
Confidence            9999999999875  45    33444444            5788899999999999999876543 3456788899999


Q ss_pred             HhccchHHHHHHHHHhhc--CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCh-hhHHH------------HHH
Q 023915          146 ISGKLLKDAYVVVKDNSE--SISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQ-GIFHI------------AIA  210 (275)
Q Consensus       146 ~~~~~~~~a~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~-~~y~~------------li~  210 (275)
                      ...|++++|...+++...  ...+..+..+...+...|++++|...++...+..  |+. ..+..            +..
T Consensus       165 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~~a~  242 (359)
T 3ieg_A          165 IKEGEPRKAISDLKAASKLKSDNTEAFYKISTLYYQLGDHELSLSEVRECLKLD--QDHKRCFAHYKQVKKLNKLIESAE  242 (359)
T ss_dssp             HHTTCHHHHHHHHHHHHTTCSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--ccchHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999876  3345578889999999999999999999988753  443 22222            233


Q ss_pred             HHHHhchhHHHHHHHHHHHhhCCCCCCh-----hhHHHHHHHHHHhhHHHHHHHHh
Q 023915          211 RYIAEREKKELLLKLLEWMTGQGYVVDS-----STRNLILKNSHLFGRQLIADILS  261 (275)
Q Consensus       211 ~~~~~~~~~~~a~~l~~~m~~~~~~p~~-----~t~~~li~~~~~~g~~~~~~~~~  261 (275)
                      .+. ..|++++|...+++.....  |+.     ..+..+-..+.+.|+...+....
T Consensus       243 ~~~-~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~  295 (359)
T 3ieg_A          243 ELI-RDGRYTDATSKYESVMKTE--PSVAEYTVRSKERICHCFSKDEKPVEAIRIC  295 (359)
T ss_dssp             HHH-HTTCHHHHHHHHHHHHHHC--CSSHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHH-HcCCHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHHHHHHccCHHHHHHHH
Confidence            454 6799999999999987743  442     23444667777888544444443

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.65  E-value=1.6e-13  Score=106.07  Aligned_cols=216  Identities=12%  Similarity=0.024  Sum_probs=177.7

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcC--CCCC----hhhHHHHHHHHH
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA--ISPD----YNTFHILIKYFC   76 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g--~~p~----~~t~~~li~~~~   76 (275)
                      ..+...|++++|...|+...+..  .+...|..+..++...|++++|.+.|++..+..  ..|+    ..++..+...+.
T Consensus        13 ~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~   90 (258)
T 3uq3_A           13 NKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFARIGNAYH   90 (258)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHHHHH
Confidence            35778899999999999999887  688999999999999999999999999988632  1122    478889999999


Q ss_pred             ccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHH
Q 023915           77 KEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYV  156 (275)
Q Consensus        77 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~  156 (275)
                      +.|+++.|...|++..+.  .|+.       ..+.+.|++++|...++........ ....+..+...+...|++++|..
T Consensus        91 ~~~~~~~A~~~~~~a~~~--~~~~-------~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~A~~  160 (258)
T 3uq3_A           91 KLGDLKKTIEYYQKSLTE--HRTA-------DILTKLRNAEKELKKAEAEAYVNPE-KAEEARLEGKEYFTKSDWPNAVK  160 (258)
T ss_dssp             HTTCHHHHHHHHHHHHHH--CCCH-------HHHHHHHHHHHHHHHHHHHHHCCHH-HHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HcccHHHHHHHHHHHHhc--Cchh-------HHHHHHhHHHHHHHHHHHHHHcCcc-hHHHHHHHHHHHHHhcCHHHHHH
Confidence            999999999999999875  3543       3466678899999999988765433 44578888889999999999999


Q ss_pred             HHHHhhc--CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhchhHHHHHHHHHHHhhC
Q 023915          157 VVKDNSE--SISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTGQ  232 (275)
Q Consensus       157 ~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~  232 (275)
                      .+++...  ...+..+..+...|...|++++|...++...+.. +.+...|..+...+. ..|++++|.+.+++..+.
T Consensus       161 ~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~-~~g~~~~A~~~~~~a~~~  236 (258)
T 3uq3_A          161 AYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQI-AVKEYASALETLDAARTK  236 (258)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-HHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHh
Confidence            9999766  3345578889999999999999999999988864 234667887888776 779999999999987653

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.64  E-value=5.4e-14  Score=119.69  Aligned_cols=249  Identities=8%  Similarity=-0.091  Sum_probs=197.4

Q ss_pred             hcCcHHHHHHHHHHHHh-----cCC--------CCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHH
Q 023915            7 RGGCFEEAKQLAGDFEA-----KYD--------KYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIK   73 (275)
Q Consensus         7 ~~g~~~~a~~~~~~m~~-----~g~--------~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~   73 (275)
                      +.|++++|..+|+.+..     ...        ..+..++..+...+...|++++|.+.|+++.+..  |+..++..+..
T Consensus       201 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--~~~~~~~~l~~  278 (514)
T 2gw1_A          201 SPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKNDPLGAHEDIKKAIELF--PRVNSYIYMAL  278 (514)
T ss_dssp             CTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHC--CCHHHHHHHHH
T ss_pred             hhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--ccHHHHHHHHH
Confidence            48999999999999887     311        2245678889999999999999999999998754  55778889999


Q ss_pred             HHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHH
Q 023915           74 YFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKD  153 (275)
Q Consensus        74 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~  153 (275)
                      .+...|+++.|...+++..+.. +.+..++..+...+...|++++|...++........ +...+..+...+...|++++
T Consensus       279 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~  356 (514)
T 2gw1_A          279 IMADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQMNFILQNYDQAGKDFDKAKELDPE-NIFPYIQLACLAYRENKFDD  356 (514)
T ss_dssp             HHHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHHHHHHTTCTTHHHHHHHHHHHTCSS-CSHHHHHHHHHTTTTTCHHH
T ss_pred             HHHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhChh-hHHHHHHHHHHHHHcCCHHH
Confidence            9999999999999999988653 345678889999999999999999999988765443 34577888889999999999


Q ss_pred             HHHHHHHhhc--CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCC-CCC----hhhHHHHHHHHHHh---chhHHHHH
Q 023915          154 AYVVVKDNSE--SISHPAIKKFASAFVRLGNINLVNDVMKAIHATGY-RID----QGIFHIAIARYIAE---REKKELLL  223 (275)
Q Consensus       154 a~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~-~p~----~~~y~~li~~~~~~---~~~~~~a~  223 (275)
                      |...+++...  ...+..+..+...+...|++++|...++.+.+..- .|+    ...+..+...+. .   .|++++|.
T Consensus       357 A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~-~~~~~~~~~~A~  435 (514)
T 2gw1_A          357 CETLFSEAKRKFPEAPEVPNFFAEILTDKNDFDKALKQYDLAIELENKLDGIYVGIAPLVGKATLLT-RNPTVENFIEAT  435 (514)
T ss_dssp             HHHHHHHHHHHSTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHH-TSCCTTHHHHHH
T ss_pred             HHHHHHHHHHHcccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHh-hhhhcCCHHHHH
Confidence            9999998765  23445788888999999999999999998876421 111    237777887776 6   79999999


Q ss_pred             HHHHHHhhCCCCCChhhHHHHHHHHHHhhHHHHHHHHh
Q 023915          224 KLLEWMTGQGYVVDSSTRNLILKNSHLFGRQLIADILS  261 (275)
Q Consensus       224 ~l~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~~~~~~  261 (275)
                      ..+++..... +.+..++..+...+.+.|+...+....
T Consensus       436 ~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~  472 (514)
T 2gw1_A          436 NLLEKASKLD-PRSEQAKIGLAQMKLQQEDIDEAITLF  472 (514)
T ss_dssp             HHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHhC-cccHHHHHHHHHHHHHhcCHHHHHHHH
Confidence            9999987642 345677888888888888555554443

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.63  E-value=1.2e-13  Score=112.77  Aligned_cols=225  Identities=10%  Similarity=-0.029  Sum_probs=177.2

Q ss_pred             cHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHH
Q 023915           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIF  108 (275)
Q Consensus        29 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~  108 (275)
                      +...+..+...+.+.|++++|.+.|+++.+.. +.+..+|..+...+.+.|+++.|...|++..+.. +.+..++..+..
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~  141 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAV  141 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHH
Confidence            45568999999999999999999999998753 3456789999999999999999999999998864 445789999999


Q ss_pred             HHhccCCHHHHHHHHHHHHhcccccc---------HHhHHHHHHHHHhccchHHHHHHHHHhhc-CC---ChhHHHHHHH
Q 023915          109 HLGKMRAHSEALSVYNMLRYSKRSMC---------KALHEKILHILISGKLLKDAYVVVKDNSE-SI---SHPAIKKFAS  175 (275)
Q Consensus       109 ~~~~~g~~~~a~~~~~~m~~~~~~~~---------~~~~~~li~~~~~~~~~~~a~~~~~~~~~-~~---~~~~~~~li~  175 (275)
                      .|.+.|++++|...|+.+........         ...+..+...+...|++++|...+++... .+   .+..+..+..
T Consensus       142 ~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~  221 (365)
T 4eqf_A          142 SYTNTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGV  221 (365)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHH
T ss_pred             HHHccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHH
Confidence            99999999999999999876432211         12234457888999999999999999876 22   4558889999


Q ss_pred             HHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhchhHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHHhhHHH
Q 023915          176 AFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTGQGYVVDSSTRNLILKNSHLFGRQL  255 (275)
Q Consensus       176 ~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~~~~p~~~t~~~li~~~~~~g~~~  255 (275)
                      .|...|++++|...|+...+.. +.+..+|..+...|. ..|++++|...|++..+.. +.+..++..+-..|.+.|+..
T Consensus       222 ~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~-~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~  298 (365)
T 4eqf_A          222 LFHLSGEFNRAIDAFNAALTVR-PEDYSLWNRLGATLA-NGDRSEEAVEAYTRALEIQ-PGFIRSRYNLGISCINLGAYR  298 (365)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCH
T ss_pred             HHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH-HcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHH
Confidence            9999999999999999988864 335678888888886 7799999999999987742 334788999999999988444


Q ss_pred             HHH
Q 023915          256 IAD  258 (275)
Q Consensus       256 ~~~  258 (275)
                      .+.
T Consensus       299 ~A~  301 (365)
T 4eqf_A          299 EAV  301 (365)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            333

>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=99.63  E-value=1e-13  Score=111.01  Aligned_cols=221  Identities=9%  Similarity=0.001  Sum_probs=177.7

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhh-HHHH----------
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNT-FHIL----------   71 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t-~~~l----------   71 (275)
                      ..+.+.|++++|.+.|+...+.... +..++..+...+...|++++|.+.|++..+.  .|+... +..+          
T Consensus        63 ~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~  139 (327)
T 3cv0_A           63 LTQAENEKDGLAIIALNHARMLDPK-DIAVHAALAVSHTNEHNANAALASLRAWLLS--QPQYEQLGSVNLQADVDIDDL  139 (327)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--STTTTTC--------------
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcCcC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCccHHHHHHHhHHHHHHHHH
Confidence            4678899999999999999987543 7788999999999999999999999999874  344333 2222          


Q ss_pred             ----HH-HHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHH
Q 023915           72 ----IK-YFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILI  146 (275)
Q Consensus        72 ----i~-~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  146 (275)
                          .. .+...|+++.|...++++.+.. +.+..++..+...+.+.|++++|...++....... .+...+..+...+.
T Consensus       140 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~  217 (327)
T 3cv0_A          140 NVQSEDFFFAAPNEYRECRTLLHAALEMN-PNDAQLHASLGVLYNLSNNYDSAAANLRRAVELRP-DDAQLWNKLGATLA  217 (327)
T ss_dssp             ------CCTTSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHH
T ss_pred             HHHHHhHHHHHcccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHH
Confidence                22 3778899999999999998764 44678899999999999999999999999876543 24567888999999


Q ss_pred             hccchHHHHHHHHHhhc--CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCC-----------ChhhHHHHHHHHH
Q 023915          147 SGKLLKDAYVVVKDNSE--SISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRI-----------DQGIFHIAIARYI  213 (275)
Q Consensus       147 ~~~~~~~a~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p-----------~~~~y~~li~~~~  213 (275)
                      ..|++++|...+++...  ...+..+..+...|...|++++|...++......-..           +...|..+...+.
T Consensus       218 ~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  297 (327)
T 3cv0_A          218 NGNRPQEALDAYNRALDINPGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLN  297 (327)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHH
Confidence            99999999999999766  3345578889999999999999999999987753111           3567888888876


Q ss_pred             HhchhHHHHHHHHHHH
Q 023915          214 AEREKKELLLKLLEWM  229 (275)
Q Consensus       214 ~~~~~~~~a~~l~~~m  229 (275)
                       ..|+.++|..++++.
T Consensus       298 -~~g~~~~A~~~~~~~  312 (327)
T 3cv0_A          298 -VMNRPDLVELTYAQN  312 (327)
T ss_dssp             -HTTCHHHHHHHTTCC
T ss_pred             -hcCCHHHHHHHHHHH
Confidence             779999999988743

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.61  E-value=1.6e-12  Score=98.19  Aligned_cols=212  Identities=8%  Similarity=-0.020  Sum_probs=163.0

Q ss_pred             cHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHH
Q 023915           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIF  108 (275)
Q Consensus        29 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~  108 (275)
                      +...|..+...+...|++++|.+.|++..+.. +.+...+..+...+...|+++.|...+++..+.. +.+..++..+..
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            56678888889999999999999999888743 2346678888889999999999999999988764 346678888899


Q ss_pred             HHhcc-CCHHHHHHHHHHHHhccccc-cHHhHHHHHHHHHhccchHHHHHHHHHhhc--CCChhHHHHHHHHHHhcCChh
Q 023915          109 HLGKM-RAHSEALSVYNMLRYSKRSM-CKALHEKILHILISGKLLKDAYVVVKDNSE--SISHPAIKKFASAFVRLGNIN  184 (275)
Q Consensus       109 ~~~~~-g~~~~a~~~~~~m~~~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~  184 (275)
                      .+... |++++|...++.....+..| ....+..+...+...|++++|...+++...  ...+..+..+...+...|+++
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~  164 (225)
T 2vq2_A           85 FLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQPQFPPAFKELARTKMLAGQLG  164 (225)
T ss_dssp             HHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHcCCHH
Confidence            99999 99999999999888732222 345677888889999999999999988765  233457788888999999999


Q ss_pred             HHHHHHHHHHHcCCCCChhhHHHHHHHHHHhchhHHHHHHHHHHHhhCCCCCChhhHHHHH
Q 023915          185 LVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTGQGYVVDSSTRNLIL  245 (275)
Q Consensus       185 ~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~~~~p~~~t~~~li  245 (275)
                      +|...++...+..-..+...+..+...+ ...|+.+++..+++.+...  .|+......++
T Consensus       165 ~A~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~--~p~~~~~~~~l  222 (225)
T 2vq2_A          165 DADYYFKKYQSRVEVLQADDLLLGWKIA-KALGNAQAAYEYEAQLQAN--FPYSEELQTVL  222 (225)
T ss_dssp             HHHHHHHHHHHHHCSCCHHHHHHHHHHH-HHTTCHHHHHHHHHHHHHH--CTTCHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCCCHHHHHHHHHHH-HhcCcHHHHHHHHHHHHHh--CCCCHHHHHHh
Confidence            9999999887754213555666555554 4778899999999888653  36555444443

>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=99.60  E-value=5.9e-13  Score=114.01  Aligned_cols=250  Identities=8%  Similarity=-0.067  Sum_probs=177.6

Q ss_pred             hhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHH
Q 023915            4 AFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYIL   83 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~   83 (275)
                      .+.+.|++++|.+.|+.+....+. +...|..+..++.+.|++++|++.|++..+.+ +.+..++..+...+...|+++.
T Consensus        34 ~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~  111 (537)
T 3fp2_A           34 HFFTAKNFNEAIKYYQYAIELDPN-EPVFYSNISACYISTGDLEKVIEFTTKALEIK-PDHSKALLRRASANESLGNFTD  111 (537)
T ss_dssp             HHHHTTCCC-CHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHhccHHHHHHHHHHHHhhCCC-CcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CchHHHHHHHHHHHHHcCCHHH
Confidence            566778888888888888876543 67788888888888888888888888877643 2235567777777777787777


Q ss_pred             HHHHHHHHHHc---------------------------------------------------------------------
Q 023915           84 AYRTMVDMHRK---------------------------------------------------------------------   94 (275)
Q Consensus        84 a~~~~~~m~~~---------------------------------------------------------------------   94 (275)
                      |...|+.+...                                                                     
T Consensus       112 A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  191 (537)
T 3fp2_A          112 AMFDLSVLSLNGDFDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVSSVNTSSNYDT  191 (537)
T ss_dssp             HHHHHHHHC-----------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHHTSCCCCSSCS
T ss_pred             HHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHHHHhhcccccc
Confidence            77766422100                                                                     


Q ss_pred             --------------------------------------CCCCC--------HHhHHHHHHHHhccCCHHHHHHHHHHHHh
Q 023915           95 --------------------------------------GHQPE--------EELCSSLIFHLGKMRAHSEALSVYNMLRY  128 (275)
Q Consensus        95 --------------------------------------g~~~~--------~~~~~~li~~~~~~g~~~~a~~~~~~m~~  128 (275)
                                                            ...|+        ..++..+...+...|++++|...|+....
T Consensus       192 ~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~  271 (537)
T 3fp2_A          192 AYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSANTVDDPLRENAALALCYTGIFHFLKNNLLDAQVLLQESIN  271 (537)
T ss_dssp             SHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHCCCcchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHh
Confidence                                                  11222        12345555667777888888888888776


Q ss_pred             ccccccHHhHHHHHHHHHhccchHHHHHHHHHhhc--CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHH
Q 023915          129 SKRSMCKALHEKILHILISGKLLKDAYVVVKDNSE--SISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFH  206 (275)
Q Consensus       129 ~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~  206 (275)
                      ....  ...+..+...+...|++++|...+++...  ...+..+..+...+...|++++|...++...+.. +.+...+.
T Consensus       272 ~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~  348 (537)
T 3fp2_A          272 LHPT--PNSYIFLALTLADKENSQEFFKFFQKAVDLNPEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLN-PENVYPYI  348 (537)
T ss_dssp             HCCC--HHHHHHHHHHTCCSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCSHHHH
T ss_pred             cCCC--chHHHHHHHHHHHhcCHHHHHHHHHHHhccCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CCCHHHHH
Confidence            5443  56677788888888999999999988765  3344577888888999999999999999888754 22456777


Q ss_pred             HHHHHHHHhchhHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHHhhHHHHHHHH
Q 023915          207 IAIARYIAEREKKELLLKLLEWMTGQGYVVDSSTRNLILKNSHLFGRQLIADIL  260 (275)
Q Consensus       207 ~li~~~~~~~~~~~~a~~l~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~~~~~  260 (275)
                      .+...+. ..|++++|...+++..+.. +.+...+..+...+...|+...+...
T Consensus       349 ~la~~~~-~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~  400 (537)
T 3fp2_A          349 QLACLLY-KQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQ  400 (537)
T ss_dssp             HHHHHHH-HTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHH-HcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHH
Confidence            7777775 7789999999999887652 34467888888888888855544443

>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=99.60  E-value=1.6e-12  Score=100.38  Aligned_cols=209  Identities=11%  Similarity=-0.035  Sum_probs=169.3

Q ss_pred             HHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHH
Q 023915           30 VVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFH  109 (275)
Q Consensus        30 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~  109 (275)
                      ...|..+...+...|++++|.+.|+++.+.. +.+...+..+...+.+.|++++|...+++..+.. +.+...+..+...
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            5678899999999999999999999988753 2356788899999999999999999999998764 3467788899999


Q ss_pred             HhccCCHHHHHHHHHHHHhccccc-cHHhHHHHHHHHHhccchHHHHHHHHHhhc--CCChhHHHHHHHHHHhcCChhHH
Q 023915          110 LGKMRAHSEALSVYNMLRYSKRSM-CKALHEKILHILISGKLLKDAYVVVKDNSE--SISHPAIKKFASAFVRLGNINLV  186 (275)
Q Consensus       110 ~~~~g~~~~a~~~~~~m~~~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a  186 (275)
                      |...|++++|.+.++.....+..| ....+..+...+...|++++|...+++...  ...+..+..+...|...|++++|
T Consensus       115 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  194 (252)
T 2ho1_A          115 LYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLNRNQPSVALEMADLLYKEREYVPA  194 (252)
T ss_dssp             HHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCCHHHH
Confidence            999999999999999988733333 455778888899999999999999998766  23455788889999999999999


Q ss_pred             HHHHHHHHHcCCCCChhhHHHHHHHHHHhchhHHHHHHHHHHHhhCCCCCChhhHHHH
Q 023915          187 NDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTGQGYVVDSSTRNLI  244 (275)
Q Consensus       187 ~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~~~~p~~~t~~~l  244 (275)
                      ...++...+.. +.+...+..+...+. ..|+.++|.+.++++.+.  .|+...+..+
T Consensus       195 ~~~~~~~~~~~-~~~~~~~~~~~~~~~-~~g~~~~A~~~~~~~~~~--~p~~~~~~~~  248 (252)
T 2ho1_A          195 RQYYDLFAQGG-GQNARSLLLGIRLAK-VFEDRDTAASYGLQLKRL--YPGSLEYQEF  248 (252)
T ss_dssp             HHHHHHHHTTS-CCCHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHH--CTTSHHHHHH
T ss_pred             HHHHHHHHHhC-cCcHHHHHHHHHHHH-HccCHHHHHHHHHHHHHH--CCCCHHHHHH
Confidence            99999987743 345566777777765 779999999999998764  3554444333

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.60  E-value=1.5e-12  Score=98.40  Aligned_cols=202  Identities=9%  Similarity=-0.032  Sum_probs=166.8

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHcc-CCH
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKE-KMY   81 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~-~~~   81 (275)
                      ..+...|++++|.+.|+...+.... +...|..+...+...|++++|.+.|++..+.. +.+..++..+...+... |++
T Consensus        16 ~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~   93 (225)
T 2vq2_A           16 MEYMRGQDYRQATASIEDALKSDPK-NELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGWFLCGRLNRP   93 (225)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCCH
T ss_pred             HHHHHHhhHHHHHHHHHHHHHhCcc-chHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCcH
Confidence            4678899999999999999886543 67889999999999999999999999998743 23567888999999999 999


Q ss_pred             HHHHHHHHHHHHcCCCCC-HHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHH
Q 023915           82 ILAYRTMVDMHRKGHQPE-EELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKD  160 (275)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  160 (275)
                      +.|...++++.+.+..|+ ...+..+...+.+.|++++|...++........ +...+..+...+...|++++|...+++
T Consensus        94 ~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~  172 (225)
T 2vq2_A           94 AESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQPQ-FPPAFKELARTKMLAGQLGDADYYFKK  172 (225)
T ss_dssp             HHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CchHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            999999999998434444 568888999999999999999999998765432 355788899999999999999999998


Q ss_pred             hhc--C-CChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHH
Q 023915          161 NSE--S-ISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAI  209 (275)
Q Consensus       161 ~~~--~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li  209 (275)
                      ...  . ..+..+..+...+...|+.+.+...++.+.+.  .|+...+..++
T Consensus       173 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~--~p~~~~~~~~l  222 (225)
T 2vq2_A          173 YQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQAN--FPYSEELQTVL  222 (225)
T ss_dssp             HHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHH
T ss_pred             HHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh--CCCCHHHHHHh
Confidence            765  3 44557778888889999999999999998764  36665554443

>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=99.60  E-value=6.5e-13  Score=102.56  Aligned_cols=200  Identities=9%  Similarity=-0.001  Sum_probs=166.1

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHH
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYI   82 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~   82 (275)
                      ..+...|++++|.+.|+.+...... +...+..+...+...|++++|.+.|++..+.. +.+...+..+...+...|+++
T Consensus        45 ~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~  122 (252)
T 2ho1_A           45 LGYLQRGNTEQAKVPLRKALEIDPS-SADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGFLYEQKRYE  122 (252)
T ss_dssp             HHHHHTTCTGGGHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCChHHHHHHHHHHHhcCCC-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHHhHHH
Confidence            4577899999999999999886433 67889999999999999999999999998753 235678889999999999999


Q ss_pred             HHHHHHHHHHHcCCCC-CHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHh
Q 023915           83 LAYRTMVDMHRKGHQP-EEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDN  161 (275)
Q Consensus        83 ~a~~~~~~m~~~g~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  161 (275)
                      +|..+++++.+.+..| +...+..+...+.+.|++++|...++........ +...+..+...+...|++++|...+++.
T Consensus       123 ~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~~  201 (252)
T 2ho1_A          123 EAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLNRN-QPSVALEMADLLYKEREYVPARQYYDLF  201 (252)
T ss_dssp             HHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            9999999998744455 4567888999999999999999999998765432 3567888999999999999999999997


Q ss_pred             hcC--CChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHH
Q 023915          162 SES--ISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHI  207 (275)
Q Consensus       162 ~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~  207 (275)
                      ...  .....+..+...+...|++++|...++.+.+..  |+...+..
T Consensus       202 ~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~--p~~~~~~~  247 (252)
T 2ho1_A          202 AQGGGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLY--PGSLEYQE  247 (252)
T ss_dssp             HTTSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTSHHHHH
T ss_pred             HHhCcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC--CCCHHHHH
Confidence            762  334467788899999999999999999998853  55554443

>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=99.59  E-value=4.5e-12  Score=99.24  Aligned_cols=214  Identities=12%  Similarity=-0.016  Sum_probs=179.2

Q ss_pred             hhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHc----cCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHc--
Q 023915            4 AFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCR----TGDMESVMHVMRKLDELAISPDYNTFHILIKYFCK--   77 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~--   77 (275)
                      .+.+.|++++|.+.|+...+.+   +...+..+-..|..    .+++++|++.|++..+.+   +...+..+...|..  
T Consensus        15 ~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~   88 (273)
T 1ouv_A           15 KSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHLLGNLYYSGQ   88 (273)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTS
T ss_pred             HHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHhCCC
Confidence            4667899999999999988732   55778888888999    999999999999998876   67788888888998  


Q ss_pred             --cCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhc----cCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHh----
Q 023915           78 --EKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGK----MRAHSEALSVYNMLRYSKRSMCKALHEKILHILIS----  147 (275)
Q Consensus        78 --~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~----  147 (275)
                        .+++++|...|++..+.+   +..++..+-..|..    .+++++|...|+.....+   +...+..+-..|..    
T Consensus        89 ~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~  162 (273)
T 1ouv_A           89 GVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTILGSLYDAGRGT  162 (273)
T ss_dssp             SSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSS
T ss_pred             CcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHHHHHHHcCCCC
Confidence              999999999999998875   66788888888988    999999999999888765   34456677777777    


Q ss_pred             ccchHHHHHHHHHhhcCCChhHHHHHHHHHHh----cCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHh----chhH
Q 023915          148 GKLLKDAYVVVKDNSESISHPAIKKFASAFVR----LGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAE----REKK  219 (275)
Q Consensus       148 ~~~~~~a~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~----~~~~  219 (275)
                      .+++++|...+++..+...+..+..+...|..    .+++++|...|+...+.+  | ...+..+-..|. .    .++.
T Consensus       163 ~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~--~-~~a~~~l~~~~~-~g~~~~~~~  238 (273)
T 1ouv_A          163 PKDLKKALASYDKACDLKDSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE--N-GGGCFNLGAMQY-NGEGVTRNE  238 (273)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT--C-HHHHHHHHHHHH-TTSSSSCCS
T ss_pred             CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC--C-HHHHHHHHHHHH-cCCCcccCH
Confidence            89999999999998887777788888899999    999999999999988864  2 556666766665 5    6788


Q ss_pred             HHHHHHHHHHhhCC
Q 023915          220 ELLLKLLEWMTGQG  233 (275)
Q Consensus       220 ~~a~~l~~~m~~~~  233 (275)
                      ++|.+.|++..+.|
T Consensus       239 ~~A~~~~~~a~~~~  252 (273)
T 1ouv_A          239 KQAIENFKKGCKLG  252 (273)
T ss_dssp             TTHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHcC
Confidence            88999999887754

>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=99.58  E-value=3.6e-12  Score=109.12  Aligned_cols=247  Identities=8%  Similarity=-0.044  Sum_probs=186.1

Q ss_pred             CcHHHHHHHHHHHHhcCCCCc------HHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHH
Q 023915            9 GCFEEAKQLAGDFEAKYDKYD------VVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYI   82 (275)
Q Consensus         9 g~~~~a~~~~~~m~~~g~~p~------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~   82 (275)
                      |++++|..+|+.+.+..+...      ..+|..+...+...|++++|.+.|++..+.  .|+...+..+...+...|+++
T Consensus       216 ~~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~  293 (537)
T 3fp2_A          216 DLLTKSTDMYHSLLSANTVDDPLRENAALALCYTGIFHFLKNNLLDAQVLLQESINL--HPTPNSYIFLALTLADKENSQ  293 (537)
T ss_dssp             HHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHHHHHTCCSSCCH
T ss_pred             HHHHHHHHHHHHHHHHCCCcchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHhcCHH
Confidence            588999999999887643311      335777778888899999999999999874  477788888899999999999


Q ss_pred             HHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhh
Q 023915           83 LAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNS  162 (275)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~  162 (275)
                      .|...+++..+.. +.+..++..+...+...|++++|...++........ +...+..+...+...|++++|...+++..
T Consensus       294 ~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~~~  371 (537)
T 3fp2_A          294 EFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLNPE-NVYPYIQLACLLYKQGKFTESEAFFNETK  371 (537)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CSHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            9999999988764 345678889999999999999999999988765433 33567888889999999999999999876


Q ss_pred             c--CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCC-----CCChhhHHHHHHHHHHhc----------hhHHHHHHH
Q 023915          163 E--SISHPAIKKFASAFVRLGNINLVNDVMKAIHATGY-----RIDQGIFHIAIARYIAER----------EKKELLLKL  225 (275)
Q Consensus       163 ~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~-----~p~~~~y~~li~~~~~~~----------~~~~~a~~l  225 (275)
                      .  ...+..+..+...+...|++++|...|+...+..-     ......+......+. ..          |++++|...
T Consensus       372 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~-~~~~~~~~~~~~~~~~~A~~~  450 (537)
T 3fp2_A          372 LKFPTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILA-RQSSQDPTQLDEEKFNAAIKL  450 (537)
T ss_dssp             HHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHH-HHHTC----CCHHHHHHHHHH
T ss_pred             HhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHH-HHhhccchhhhHhHHHHHHHH
Confidence            6  23344778888999999999999999998776421     011112223333443 45          889999999


Q ss_pred             HHHHhhCCCCCChhhHHHHHHHHHHhhHHHHHHHHh
Q 023915          226 LEWMTGQGYVVDSSTRNLILKNSHLFGRQLIADILS  261 (275)
Q Consensus       226 ~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~~~~~~  261 (275)
                      +++..+.. +.+...+..+...+.+.|+...+....
T Consensus       451 ~~~a~~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~  485 (537)
T 3fp2_A          451 LTKACELD-PRSEQAKIGLAQLKLQMEKIDEAIELF  485 (537)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHH
Confidence            99887642 345678888888888888555554443

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.58  E-value=1.9e-12  Score=100.98  Aligned_cols=230  Identities=9%  Similarity=-0.056  Sum_probs=177.3

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCh--hhHHHHHHHHHccCC
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDY--NTFHILIKYFCKEKM   80 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~--~t~~~li~~~~~~~~   80 (275)
                      ..+.+.|++++|...|+...+..+. +...+..+..++...|++++|++.|++..+.+-.|+.  ..|..+...+...|+
T Consensus        11 ~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~~~~~~   89 (272)
T 3u4t_A           11 DFLFKNNNYAEAIEVFNKLEAKKYN-SPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKILMKKGQ   89 (272)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHHTTCC-CSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHhcCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHHccc
Confidence            3577899999999999999987543 5668999999999999999999999999884422222  238899999999999


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHH
Q 023915           81 YILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKD  160 (275)
Q Consensus        81 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  160 (275)
                      ++.|...|++..+.. +.+..++..+...|...|++++|...|+........ +...+..+-..+...+++++|...+++
T Consensus        90 ~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~  167 (272)
T 3u4t_A           90 DSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPTTT-DPKVFYELGQAYYYNKEYVKADSSFVK  167 (272)
T ss_dssp             HHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSSCC-CHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcCCC-cHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999998764 345678999999999999999999999988765332 344555555234445599999999999


Q ss_pred             hhcC-C-ChhHHHHHHHHHHhcCC---hhHHHHHHHHHHHc-CCCCCh------hhHHHHHHHHHHhchhHHHHHHHHHH
Q 023915          161 NSES-I-SHPAIKKFASAFVRLGN---INLVNDVMKAIHAT-GYRIDQ------GIFHIAIARYIAEREKKELLLKLLEW  228 (275)
Q Consensus       161 ~~~~-~-~~~~~~~li~~~~~~~~---~~~a~~~~~~m~~~-g~~p~~------~~y~~li~~~~~~~~~~~~a~~l~~~  228 (275)
                      .... + ....+..+...+...|+   +++|...++...+. .-.|+.      .+|..+-..|. ..|++++|.+.+++
T Consensus       168 a~~~~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~~~~~~A~~~~~~  246 (272)
T 3u4t_A          168 VLELKPNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYT-INRDKVKADAAWKN  246 (272)
T ss_dssp             HHHHSTTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHH-HTTCHHHHHHHHHH
T ss_pred             HHHhCccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHH-HcCCHHHHHHHHHH
Confidence            7762 2 34466677788888888   88898888887664 122432      46666777765 67999999999999


Q ss_pred             HhhCCCCCCh
Q 023915          229 MTGQGYVVDS  238 (275)
Q Consensus       229 m~~~~~~p~~  238 (275)
                      ..+.  .|+.
T Consensus       247 al~~--~p~~  254 (272)
T 3u4t_A          247 ILAL--DPTN  254 (272)
T ss_dssp             HHHH--CTTC
T ss_pred             HHhc--CccH
Confidence            8764  3543

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.57  E-value=2e-12  Score=100.89  Aligned_cols=224  Identities=11%  Similarity=-0.090  Sum_probs=175.1

Q ss_pred             hhhcCcHHHHHHHHHHHHhcCCC---CcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCH
Q 023915            5 FCRGGCFEEAKQLAGDFEAKYDK---YDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMY   81 (275)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~g~~---p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~   81 (275)
                      ....|++++|++.|+.+.+....   .+..+|..+...+...|++++|.+.|++..+.. +.+..+|..+...+...|++
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            45679999999999999986421   246789999999999999999999999998753 23577899999999999999


Q ss_pred             HHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHh
Q 023915           82 ILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDN  161 (275)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  161 (275)
                      +.|...|++..+.. +.+..++..+...|.+.|++++|...|+.........  ......+..+...|++++|...+++.
T Consensus        94 ~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~--~~~~~~~~~~~~~~~~~~A~~~~~~~  170 (275)
T 1xnf_A           94 DAAYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDDPND--PFRSLWLYLAEQKLDEKQAKEVLKQH  170 (275)
T ss_dssp             HHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC--HHHHHHHHHHHHHHCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCC--hHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            99999999999863 3457789999999999999999999999987653332  23344445556779999999999776


Q ss_pred             hc-CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCC--C-ChhhHHHHHHHHHHhchhHHHHHHHHHHHhhCC
Q 023915          162 SE-SISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYR--I-DQGIFHIAIARYIAEREKKELLLKLLEWMTGQG  233 (275)
Q Consensus       162 ~~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~--p-~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~~  233 (275)
                      .. .+..+....+...+...++.++|...+.........  | +...+..+...|. ..|++++|...|++.....
T Consensus       171 ~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~-~~g~~~~A~~~~~~al~~~  245 (275)
T 1xnf_A          171 FEKSDKEQWGWNIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYL-SLGDLDSATALFKLAVANN  245 (275)
T ss_dssp             HHHSCCCSTHHHHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHTTC
T ss_pred             HhcCCcchHHHHHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHH-HcCCHHHHHHHHHHHHhCC
Confidence            55 333333445777788888889999998877653211  1 1467777887776 7799999999999998753

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.56  E-value=2.3e-12  Score=99.45  Aligned_cols=218  Identities=8%  Similarity=-0.061  Sum_probs=177.7

Q ss_pred             cHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCC--CCC----HHh
Q 023915           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGH--QPE----EEL  102 (275)
Q Consensus        29 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~--~~~----~~~  102 (275)
                      ....|..+-..+...|++++|++.|++..+..  ++...+..+...+...|+++.|...+++..+...  .|+    ..+
T Consensus         4 ~a~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~   81 (258)
T 3uq3_A            4 MADKEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKS   81 (258)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHH
Confidence            35678889999999999999999999999877  8888999999999999999999999999886431  122    578


Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhcCCC--hhHHHHHHHHHHhc
Q 023915          103 CSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSESIS--HPAIKKFASAFVRL  180 (275)
Q Consensus       103 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~li~~~~~~  180 (275)
                      +..+...+.+.|++++|...|+........         -..+...|++++|...+++......  +..+..+...+...
T Consensus        82 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~---------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~  152 (258)
T 3uq3_A           82 FARIGNAYHKLGDLKKTIEYYQKSLTEHRT---------ADILTKLRNAEKELKKAEAEAYVNPEKAEEARLEGKEYFTK  152 (258)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCCC---------HHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHhcCch---------hHHHHHHhHHHHHHHHHHHHHHcCcchHHHHHHHHHHHHHh
Confidence            899999999999999999999998764433         2356677899999999998776322  23677888999999


Q ss_pred             CChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhchhHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHHhhHHHHHHHH
Q 023915          181 GNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTGQGYVVDSSTRNLILKNSHLFGRQLIADIL  260 (275)
Q Consensus       181 ~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~~~~~  260 (275)
                      |++++|...++...+.. +.+..+|..+...|. ..|++++|...+++..+.. +.+...+..+-..+.+.|+...+...
T Consensus       153 ~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~-~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~  229 (258)
T 3uq3_A          153 SDWPNAVKAYTEMIKRA-PEDARGYSNRAAALA-KLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIAVKEYASALET  229 (258)
T ss_dssp             TCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHH-HhCCHHHHHHHHHHHHHhC-HHHHHHHHHHHHHHHHHhhHHHHHHH
Confidence            99999999999988864 335677888888876 7799999999999987753 34578888888999998855444443

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.56  E-value=1.1e-12  Score=99.46  Aligned_cols=198  Identities=10%  Similarity=-0.035  Sum_probs=133.9

Q ss_pred             CCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCC-ChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHH
Q 023915           27 KYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP-DYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSS  105 (275)
Q Consensus        27 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~  105 (275)
                      +++...+..+-..+.+.|++++|...|++..+.  .| +...+..+...+.+.|++++|...+++..+.. +-+...+..
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~   78 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKE--NPQDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMV   78 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--SSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHH
Confidence            346677788888888888888888888887763  34 35567777788888888888888888887753 334567777


Q ss_pred             HHHHHhcc-----------CCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhc-CCChhHHHHH
Q 023915          106 LIFHLGKM-----------RAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSE-SISHPAIKKF  173 (275)
Q Consensus       106 li~~~~~~-----------g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~l  173 (275)
                      +-..+.+.           |++++|...|+......+. +...+..+-..+...|++++|+..|++... ...+..+..+
T Consensus        79 lg~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~P~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~l  157 (217)
T 2pl2_A           79 LSEAYVALYRQAEDRERGKGYLEQALSVLKDAERVNPR-YAPLHLQRGLVYALLGERDKAEASLKQALALEDTPEIRSAL  157 (217)
T ss_dssp             HHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCHHHHHHH
T ss_pred             HHHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCChHHHHHHHHHHHhcccchHHHHHH
Confidence            88888888           8888888888877654333 344677777788888888888888887654 2344467778


Q ss_pred             HHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhchhHHHHHHHHHHHh
Q 023915          174 ASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMT  230 (275)
Q Consensus       174 i~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~m~  230 (275)
                      ...|...|++++|...|+...+.. +-+...+..+...+. ..|++++|...+++..
T Consensus       158 a~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~la~~~~-~~g~~~~A~~~~~~~~  212 (217)
T 2pl2_A          158 AELYLSMGRLDEALAQYAKALEQA-PKDLDLRVRYASALL-LKGKAEEAARAAALEH  212 (217)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHT-C---------------
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHH-HccCHHHHHHHHHHHh
Confidence            888888888888888888877753 224456666666664 7788888888887654

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.54  E-value=3.1e-12  Score=98.00  Aligned_cols=200  Identities=13%  Similarity=0.011  Sum_probs=118.1

Q ss_pred             CCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHH
Q 023915           27 KYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSL  106 (275)
Q Consensus        27 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~l  106 (275)
                      ..+...|..+...+...|++++|...|++..+.. +.+...+..+...+.+.|+++.|...+++..+.. +.+..++..+
T Consensus        20 ~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l   97 (243)
T 2q7f_A           20 HMASMTGGQQMGRGSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGA   97 (243)
T ss_dssp             ----------------------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHH
Confidence            3455666777777777777777777777776532 2345566677777777777777777777776653 3345667777


Q ss_pred             HHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhc--CCChhHHHHHHHHHHhcCChh
Q 023915          107 IFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSE--SISHPAIKKFASAFVRLGNIN  184 (275)
Q Consensus       107 i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~  184 (275)
                      ...+...|++++|.+.++........ +...+..+...+...|++++|...+++...  ...+..+..+...+...|+++
T Consensus        98 a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  176 (243)
T 2q7f_A           98 GNVYVVKEMYKEAKDMFEKALRAGME-NGDLFYMLGTVLVKLEQPKLALPYLQRAVELNENDTEARFQFGMCLANEGMLD  176 (243)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHTCC-SHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHcCCHH
Confidence            77777777777777777776654322 344566677777777777777777777654  223446666777777777777


Q ss_pred             HHHHHHHHHHHcCCCCChhhHHHHHHHHHHhchhHHHHHHHHHHHhh
Q 023915          185 LVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTG  231 (275)
Q Consensus       185 ~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~  231 (275)
                      +|...++...+.. +.+..++..+...|. ..|++++|.+.+++..+
T Consensus       177 ~A~~~~~~~~~~~-~~~~~~~~~la~~~~-~~~~~~~A~~~~~~~~~  221 (243)
T 2q7f_A          177 EALSQFAAVTEQD-PGHADAFYNAGVTYA-YKENREKALEMLDKAID  221 (243)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHH-HTTCTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-cccHHHHHHHHHHHH-HccCHHHHHHHHHHHHc
Confidence            7777777766643 224556666666665 56777777777777765

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.53  E-value=4.3e-12  Score=96.09  Aligned_cols=185  Identities=12%  Similarity=0.068  Sum_probs=126.1

Q ss_pred             hhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCC-hhhHHHHHHHHHcc----
Q 023915            4 AFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKE----   78 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~----   78 (275)
                      .+.+.|++++|...|+...+..+. +...|..+-..+.+.|++++|+..|++..+.  .|+ ...+..+...+.+.    
T Consensus        14 ~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~~~~~   90 (217)
T 2pl2_A           14 QLYALGRYDAALTLFERALKENPQ-DPEALYWLARTQLKLGLVNPALENGKTLVAR--TPRYLGGYMVLSEAYVALYRQA   90 (217)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTTSSS-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHTC
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHhhhhh
Confidence            466778888888888888776443 6677788888888888888888888887763  354 45677777778888    


Q ss_pred             -------CCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccch
Q 023915           79 -------KMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLL  151 (275)
Q Consensus        79 -------~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~  151 (275)
                             |++++|...+++..+.. +-+...+..+-..+...|++++|...|++.....  .+...+..+-..+...|++
T Consensus        91 ~~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~la~~~~~~g~~  167 (217)
T 2pl2_A           91 EDRERGKGYLEQALSVLKDAERVN-PRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSALAELYLSMGRL  167 (217)
T ss_dssp             SSHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCH
T ss_pred             hhhcccccCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHHHHHHHHHcCCH
Confidence                   88888888888877653 2345677777788888888888888888777665  5566777788888888888


Q ss_pred             HHHHHHHHHhhc--CCChhHHHHHHHHHHhcCChhHHHHHHHHHH
Q 023915          152 KDAYVVVKDNSE--SISHPAIKKFASAFVRLGNINLVNDVMKAIH  194 (275)
Q Consensus       152 ~~a~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  194 (275)
                      ++|...+++...  ..++..+..+...+...|++++|...++...
T Consensus       168 ~~A~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~~  212 (217)
T 2pl2_A          168 DEALAQYAKALEQAPKDLDLRVRYASALLLKGKAEEAARAAALEH  212 (217)
T ss_dssp             HHHHHHHHHHHHHSTTCHHHHHHHHHHHTC---------------
T ss_pred             HHHHHHHHHHHHhCCCChHHHHHHHHHHHHccCHHHHHHHHHHHh
Confidence            888888887655  2334466777778888888888888776543

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.50  E-value=3.3e-12  Score=97.83  Aligned_cols=191  Identities=14%  Similarity=0.048  Sum_probs=153.7

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHH
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYI   82 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~   82 (275)
                      ..+.+.|++++|...|+...+.... +...+..+...+...|++++|++.|++..+.. +.+...+..+...+...|+++
T Consensus        31 ~~~~~~~~~~~A~~~~~~~l~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~  108 (243)
T 2q7f_A           31 GRGSEFGDYEKAAEAFTKAIEENKE-DAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAGNVYVVKEMYK  108 (243)
T ss_dssp             -----------CCTTHHHHHTTCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHhhCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHHHHHHhccHH
Confidence            3567889999999999999886443 67889999999999999999999999988753 235678889999999999999


Q ss_pred             HHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhh
Q 023915           83 LAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNS  162 (275)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~  162 (275)
                      .|...++++.+.. +.+...+..+...+.+.|++++|...++........ +...+..+...+...|++++|...+++..
T Consensus       109 ~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  186 (243)
T 2q7f_A          109 EAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELNEN-DTEARFQFGMCLANEGMLDEALSQFAAVT  186 (243)
T ss_dssp             HHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            9999999998764 456778899999999999999999999998765332 45578888999999999999999999876


Q ss_pred             c--CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcC
Q 023915          163 E--SISHPAIKKFASAFVRLGNINLVNDVMKAIHATG  197 (275)
Q Consensus       163 ~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g  197 (275)
                      .  ...+..+..+...|...|++++|...++...+..
T Consensus       187 ~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  223 (243)
T 2q7f_A          187 EQDPGHADAFYNAGVTYAYKENREKALEMLDKAIDIQ  223 (243)
T ss_dssp             HHCTTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHC
T ss_pred             HhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHccC
Confidence            6  2334578889999999999999999999988853

>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=99.49  E-value=5e-11  Score=97.83  Aligned_cols=236  Identities=9%  Similarity=0.016  Sum_probs=182.9

Q ss_pred             hhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCC-HHHHHHHHHHHhhcCCCC-ChhhHHHHHHHHHccCCH
Q 023915            4 AFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGD-MESVMHVMRKLDELAISP-DYNTFHILIKYFCKEKMY   81 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~-~~~a~~~~~~m~~~g~~p-~~~t~~~li~~~~~~~~~   81 (275)
                      .+.+.|++++|++.|+........ +...|+.+-.++...|+ +++|++.|++..+.  .| +...|..+-..+.+.|++
T Consensus       106 ~~~~~g~~~~Al~~~~~al~l~P~-~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l--~P~~~~a~~~~g~~~~~~g~~  182 (382)
T 2h6f_A          106 VLQRDERSERAFKLTRDAIELNAA-NYTVWHFRRVLLKSLQKDLHEEMNYITAIIEE--QPKNYQVWHHRRVLVEWLRDP  182 (382)
T ss_dssp             HHHHTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCC
T ss_pred             HHHHCCChHHHHHHHHHHHHhCcc-CHHHHHHHHHHHHHcccCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHccCH
Confidence            466789999999999999987554 67889999999999997 99999999999884  45 456788999999999999


Q ss_pred             HHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHh-ccchHHH-----H
Q 023915           82 ILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILIS-GKLLKDA-----Y  155 (275)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~-~~~~~~a-----~  155 (275)
                      ++|+..|+++.+.. +-+..+|..+-.++.+.|++++|+..|+.+....+. +...|+.+-..+.. .|..++|     +
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-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISNTTGYNDRAVLEREV  260 (382)
T ss_dssp             TTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCSCSHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCcchHHHHHHHH
Confidence            99999999999864 446779999999999999999999999998876544 44578888888888 6665777     4


Q ss_pred             HHHHHhhc--CCChhHHHHHHHHHHhcC--ChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhc-------h-hHHHHH
Q 023915          156 VVVKDNSE--SISHPAIKKFASAFVRLG--NINLVNDVMKAIHATGYRIDQGIFHIAIARYIAER-------E-KKELLL  223 (275)
Q Consensus       156 ~~~~~~~~--~~~~~~~~~li~~~~~~~--~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~-------~-~~~~a~  223 (275)
                      ..+++...  ..+...|+.+...+...|  ++++|.+.+..+ +. -..+...+..+...|....       + ..++|.
T Consensus       261 ~~~~~Al~l~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~-~p~~~~al~~La~~~~~~~~~~~~~~~~~~~~A~  338 (382)
T 2h6f_A          261 QYTLEMIKLVPHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QP-SHSSPYLIAFLVDIYEDMLENQCDNKEDILNKAL  338 (382)
T ss_dssp             HHHHHHHHHSTTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TT-TCCCHHHHHHHHHHHHHHHHTTCSSHHHHHHHHH
T ss_pred             HHHHHHHHHCCCCHHHHHHHHHHHHccCccchHHHHHHHHHh-cc-CCCCHHHHHHHHHHHHHHhcccccchHHHHHHHH
Confidence            77777654  333447777788888888  689999998887 32 2334567788888876432       2 358899


Q ss_pred             HHHHHH-hhCCCCCC-hhhHHHHHHHH
Q 023915          224 KLLEWM-TGQGYVVD-SSTRNLILKNS  248 (275)
Q Consensus       224 ~l~~~m-~~~~~~p~-~~t~~~li~~~  248 (275)
                      ++++++ .+  +.|. ...|..+...+
T Consensus       339 ~~~~~l~~~--~DP~r~~~w~~~~~~l  363 (382)
T 2h6f_A          339 ELCEILAKE--KDTIRKEYWRYIGRSL  363 (382)
T ss_dssp             HHHHHHHHT--TCGGGHHHHHHHHHHH
T ss_pred             HHHHHHHHH--hCchhHHHHHHHHHHH
Confidence            999998 44  3454 34555555444

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.48  E-value=1.2e-11  Score=96.41  Aligned_cols=213  Identities=10%  Similarity=0.003  Sum_probs=162.2

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHH
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYI   82 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~   82 (275)
                      ..+...|++++|...|+........ +..+|..+...+...|++++|.+.|++..+.. +.+...+..+...+.+.|+++
T Consensus        51 ~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~  128 (275)
T 1xnf_A           51 VLYDSLGLRALARNDFSQALAIRPD-MPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDK  128 (275)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC-ccccHHHHHHHHHHHHhccHH
Confidence            4677899999999999999987544 78899999999999999999999999998842 224678889999999999999


Q ss_pred             HHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhh
Q 023915           83 LAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNS  162 (275)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~  162 (275)
                      +|...|+++.+.  .|+.......+..+...|++++|...++........ +...+ .+...+...++.++|...+.+..
T Consensus       129 ~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~-~~~~~~~~~~~~~~a~~~~~~~~  204 (275)
T 1xnf_A          129 LAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSDK-EQWGW-NIVEFYLGNISEQTLMERLKADA  204 (275)
T ss_dssp             HHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSCC-CSTHH-HHHHHHTTSSCHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHh--CCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCc-chHHH-HHHHHHHHhcCHHHHHHHHHHHh
Confidence            999999999875  455555555556667789999999999877654322 22233 46677778888899999999876


Q ss_pred             cCCC------hhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhchhHHHHHHHH
Q 023915          163 ESIS------HPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLL  226 (275)
Q Consensus       163 ~~~~------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~~a~~l~  226 (275)
                      ....      ...+..+...|...|++++|...|+......  |+...  ....++. ..|++++|.+-+
T Consensus       205 ~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--p~~~~--~~~~~~~-~l~~~~~a~~~~  269 (275)
T 1xnf_A          205 TDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN--VHNFV--EHRYALL-ELSLLGQDQDDL  269 (275)
T ss_dssp             CSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--CTTCH--HHHHHHH-HHHHHHHC----
T ss_pred             cccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC--chhHH--HHHHHHH-HHHHHHhhHHHH
Confidence            6332      3467788899999999999999999988753  53322  2233443 568888777665

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.47  E-value=1.5e-10  Score=92.29  Aligned_cols=215  Identities=7%  Similarity=-0.007  Sum_probs=168.2

Q ss_pred             HHHHHHHHHHHhcCCCCcHHhHHHHHHHHH-------ccCCH-------HHHHHHHHHHhhcCCCCC-hhhHHHHHHHHH
Q 023915           12 EEAKQLAGDFEAKYDKYDVVLLNSMLCAYC-------RTGDM-------ESVMHVMRKLDELAISPD-YNTFHILIKYFC   76 (275)
Q Consensus        12 ~~a~~~~~~m~~~g~~p~~~~~~~li~~~~-------~~g~~-------~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~   76 (275)
                      ++|..+|+......+. +...|..+...+.       +.|++       ++|..+|++..+. +.|+ ...|..+...+.
T Consensus        33 ~~a~~~~~~al~~~p~-~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~-~~p~~~~~~~~~~~~~~  110 (308)
T 2ond_A           33 KRVMFAYEQCLLVLGH-HPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAIST-LLKKNMLLYFAYADYEE  110 (308)
T ss_dssp             HHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTT-TTTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCC-CHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHH-hCcccHHHHHHHHHHHH
Confidence            7888999999886433 6778888877775       35886       8999999998873 2465 457899999999


Q ss_pred             ccCCHHHHHHHHHHHHHcCCCCC-HH-hHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHH-HHhccchHH
Q 023915           77 KEKMYILAYRTMVDMHRKGHQPE-EE-LCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHI-LISGKLLKD  153 (275)
Q Consensus        77 ~~~~~~~a~~~~~~m~~~g~~~~-~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~-~~~~~~~~~  153 (275)
                      +.|+++.|..+|++..+.  .|+ .. +|..+...+.+.|++++|..+|+........ +...|...... +...|+.++
T Consensus       111 ~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~-~~~~~~~~a~~~~~~~~~~~~  187 (308)
T 2ond_A          111 SRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDART-RHHVYVTAALMEYYCSKDKSV  187 (308)
T ss_dssp             HTTCHHHHHHHHHHHHTS--SSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTTC-CTHHHHHHHHHHHHTSCCHHH
T ss_pred             hcCCHHHHHHHHHHHHhc--cccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHHcCCHHH
Confidence            999999999999999874  554 33 7999999999999999999999998876433 23344433322 223799999


Q ss_pred             HHHHHHHhhc--CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcC-CCCC--hhhHHHHHHHHHHhchhHHHHHHHHHH
Q 023915          154 AYVVVKDNSE--SISHPAIKKFASAFVRLGNINLVNDVMKAIHATG-YRID--QGIFHIAIARYIAEREKKELLLKLLEW  228 (275)
Q Consensus       154 a~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g-~~p~--~~~y~~li~~~~~~~~~~~~a~~l~~~  228 (275)
                      |..+|++...  ...+..+..++..+.+.|++++|..+|+...... +.|+  ...|..++..+. ..|+.+.|..++++
T Consensus       188 A~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~-~~g~~~~a~~~~~~  266 (308)
T 2ond_A          188 AFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFES-NIGDLASILKVEKR  266 (308)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHH-HHSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHH-HcCCHHHHHHHHHH
Confidence            9999998765  3445578889999999999999999999998863 4553  456777776654 67999999999999


Q ss_pred             HhhC
Q 023915          229 MTGQ  232 (275)
Q Consensus       229 m~~~  232 (275)
                      +.+.
T Consensus       267 a~~~  270 (308)
T 2ond_A          267 RFTA  270 (308)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8763

>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=99.46  E-value=2.3e-10  Score=89.46  Aligned_cols=206  Identities=11%  Similarity=-0.061  Sum_probs=171.9

Q ss_pred             cHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHc----cCCHHHHHHHHHHHHHcCCCCCHHhHH
Q 023915           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCK----EKMYILAYRTMVDMHRKGHQPEEELCS  104 (275)
Q Consensus        29 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~----~~~~~~a~~~~~~m~~~g~~~~~~~~~  104 (275)
                      +..++..+-..+...|++++|++.|++..+.   -+...+..+...+..    .+++++|...|++..+.+   +..++.
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            5677888888999999999999999999883   345677788888999    999999999999999876   677888


Q ss_pred             HHHHHHhc----cCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHh----ccchHHHHHHHHHhhcCCChhHHHHHHHH
Q 023915          105 SLIFHLGK----MRAHSEALSVYNMLRYSKRSMCKALHEKILHILIS----GKLLKDAYVVVKDNSESISHPAIKKFASA  176 (275)
Q Consensus       105 ~li~~~~~----~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~li~~  176 (275)
                      .+-..|..    .+++++|...|+.....+   +...+..+-..|..    .+++++|...+++..+..++..+..+-..
T Consensus        79 ~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~  155 (273)
T 1ouv_A           79 LLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLNDGDGCTILGSL  155 (273)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcCcHHHHHHHHHH
Confidence            89999998    999999999999988765   45577788888888    99999999999998887777788888888


Q ss_pred             HHh----cCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHh----chhHHHHHHHHHHHhhCCCCCChhhHHHHHHHH
Q 023915          177 FVR----LGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAE----REKKELLLKLLEWMTGQGYVVDSSTRNLILKNS  248 (275)
Q Consensus       177 ~~~----~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~----~~~~~~a~~l~~~m~~~~~~p~~~t~~~li~~~  248 (275)
                      |..    .+++++|...|+...+.+   +...+..+-..|. .    .+++++|...+++..+.+-   ...+..+-..|
T Consensus       156 ~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~-~g~~~~~~~~~A~~~~~~a~~~~~---~~a~~~l~~~~  228 (273)
T 1ouv_A          156 YDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYH-HGEGATKNFKEALARYSKACELEN---GGGCFNLGAMQ  228 (273)
T ss_dssp             HHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HTCSSCCCHHHHHHHHHHHHHTTC---HHHHHHHHHHH
T ss_pred             HHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCccHHHHHHHHHHHHhCCC---HHHHHHHHHHH
Confidence            888    899999999999988864   4566777777775 5    7899999999999887642   45555555555


Q ss_pred             HH
Q 023915          249 HL  250 (275)
Q Consensus       249 ~~  250 (275)
                      ..
T Consensus       229 ~~  230 (273)
T 1ouv_A          229 YN  230 (273)
T ss_dssp             HT
T ss_pred             Hc
Confidence            54

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.46  E-value=1.9e-11  Score=97.00  Aligned_cols=167  Identities=14%  Similarity=0.134  Sum_probs=101.4

Q ss_pred             cHHhHHHHHHHHHccCCHHHHHHHHHHHhhc-------CCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHc------C
Q 023915           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDEL-------AISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRK------G   95 (275)
Q Consensus        29 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-------g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~------g   95 (275)
                      +..++..+...+...|++++|..+|+++.+.       .......++..+...+...|+++.|...+++..+.      +
T Consensus        26 ~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~  105 (311)
T 3nf1_A           26 RLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGK  105 (311)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCC
Confidence            3456666777777777777777777766652       12223445666666777777777777777776543      2


Q ss_pred             CCC-CHHhHHHHHHHHhccCCHHHHHHHHHHHHhcc-------ccccHHhHHHHHHHHHhccchHHHHHHHHHhhcC---
Q 023915           96 HQP-EEELCSSLIFHLGKMRAHSEALSVYNMLRYSK-------RSMCKALHEKILHILISGKLLKDAYVVVKDNSES---  164 (275)
Q Consensus        96 ~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-------~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~---  164 (275)
                      -.| ...++..+...|...|++++|...++......       .+.....+..+...+...|++++|...+++....   
T Consensus       106 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~  185 (311)
T 3nf1_A          106 DHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQT  185 (311)
T ss_dssp             TCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHH
Confidence            222 23456666677777777777777777655431       1223345566666677777777777777665432   


Q ss_pred             ---CChh----HHHHHHHHHHhcCChhHHHHHHHHHHH
Q 023915          165 ---ISHP----AIKKFASAFVRLGNINLVNDVMKAIHA  195 (275)
Q Consensus       165 ---~~~~----~~~~li~~~~~~~~~~~a~~~~~~m~~  195 (275)
                         ...+    .+..+...|...|++++|...++...+
T Consensus       186 ~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  223 (311)
T 3nf1_A          186 KLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILT  223 (311)
T ss_dssp             TSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence               1111    455566677777777777777766554

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.42  E-value=4e-11  Score=101.49  Aligned_cols=211  Identities=10%  Similarity=-0.056  Sum_probs=165.8

Q ss_pred             cHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCH-HHHHHHHHHHhhcCCCCC-hhhHHHHHHHHHccCCHHHHHHH
Q 023915           10 CFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDM-ESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYILAYRT   87 (275)
Q Consensus        10 ~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~-~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~~a~~~   87 (275)
                      .++++++.+++..... ..+...+..+-.++...|++ ++|++.|++..+.  .|+ ...|..+...|.+.|++++|...
T Consensus        83 ~~~~al~~l~~~~~~~-~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~g~~~~A~~~  159 (474)
T 4abn_A           83 EMEKTLQQMEEVLGSA-QVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKL--EPELVEAWNQLGEVYWKKGDVTSAHTC  159 (474)
T ss_dssp             HHHHHHHHHHHHHTTC-CCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHHHHHHHHHHhccC-chhHHHHHHHHHHHHhccccHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            4667777777665543 23778888999999999999 9999999998874  354 67888999999999999999999


Q ss_pred             HHHHHHcCCCCCHHhHHHHHHHHhcc---------CCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhc--------cc
Q 023915           88 MVDMHRKGHQPEEELCSSLIFHLGKM---------RAHSEALSVYNMLRYSKRSMCKALHEKILHILISG--------KL  150 (275)
Q Consensus        88 ~~~m~~~g~~~~~~~~~~li~~~~~~---------g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~--------~~  150 (275)
                      |++..+.  .|+...+..+-..|...         |++++|...|++....... +...|..+-..|...        |+
T Consensus       160 ~~~al~~--~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~~~~g~  236 (474)
T 4abn_A          160 FSGALTH--CKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMDVL-DGRSWYILGNAYLSLYFNTGQNPKI  236 (474)
T ss_dssp             HHHHHTT--CCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHTTCCHHH
T ss_pred             HHHHHhh--CCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHhhccccch
Confidence            9998875  47778888899999998         9999999999988765433 355778888888888        89


Q ss_pred             hHHHHHHHHHhhc-C----CChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCC-hhhHHHHHHHHHHhchhHHHHHH
Q 023915          151 LKDAYVVVKDNSE-S----ISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRID-QGIFHIAIARYIAEREKKELLLK  224 (275)
Q Consensus       151 ~~~a~~~~~~~~~-~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~y~~li~~~~~~~~~~~~a~~  224 (275)
                      +++|...|++... .    ..+..+..+...|...|++++|...|+...+..  |+ ...+..+-..+. ..|++++|.+
T Consensus       237 ~~~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~--p~~~~a~~~l~~~~~-~lg~~~eAi~  313 (474)
T 4abn_A          237 SQQALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALD--PAWPEPQQREQQLLE-FLSRLTSLLE  313 (474)
T ss_dssp             HHHHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHH-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHH-HHHHHHHHHH
Confidence            9999999998766 3    345578888899999999999999999887753  44 445666666654 6688888877


Q ss_pred             HHHHH
Q 023915          225 LLEWM  229 (275)
Q Consensus       225 l~~~m  229 (275)
                      .+.++
T Consensus       314 ~~~~~  318 (474)
T 4abn_A          314 SKGKT  318 (474)
T ss_dssp             HTTTC
T ss_pred             Hhccc
Confidence            65444

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.40  E-value=1.2e-11  Score=102.45  Aligned_cols=254  Identities=11%  Similarity=-0.031  Sum_probs=188.3

Q ss_pred             hhhhcCcHHHHHHHHHHHHhcCCCCcH----HhHHHHHHHHHccCCHHHHHHHHHHHhhc----CC-CCChhhHHHHHHH
Q 023915            4 AFCRGGCFEEAKQLAGDFEAKYDKYDV----VLLNSMLCAYCRTGDMESVMHVMRKLDEL----AI-SPDYNTFHILIKY   74 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~g~~p~~----~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~-~p~~~t~~~li~~   74 (275)
                      .+...|++++|...|+...+.+.. +.    ..|..+...+...|++++|.+.|++..+.    +- .....++..+...
T Consensus        57 ~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~  135 (411)
T 4a1s_A           57 RLCNAGDCRAGVAFFQAAIQAGTE-DLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGNLGNT  135 (411)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhCcHHHHHHHHHHHHHhccc-ChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHHHHHH
Confidence            567889999999999999987443 32    57889999999999999999999987653    21 2234578888899


Q ss_pred             HHccCCHHHHHHHHHHHHHc----CCCC-CHHhHHHHHHHHhccCC-----------------HHHHHHHHHHHHhc---
Q 023915           75 FCKEKMYILAYRTMVDMHRK----GHQP-EEELCSSLIFHLGKMRA-----------------HSEALSVYNMLRYS---  129 (275)
Q Consensus        75 ~~~~~~~~~a~~~~~~m~~~----g~~~-~~~~~~~li~~~~~~g~-----------------~~~a~~~~~~m~~~---  129 (275)
                      |...|+++.|...+++..+.    +-.| ...++..+...|...|+                 +++|...+++....   
T Consensus       136 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~  215 (411)
T 4a1s_A          136 LKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMRD  215 (411)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999987753    2122 24478888899999999                 99999998876542   


Q ss_pred             --cccccHHhHHHHHHHHHhccchHHHHHHHHHhhc----CCChh----HHHHHHHHHHhcCChhHHHHHHHHHHHcC--
Q 023915          130 --KRSMCKALHEKILHILISGKLLKDAYVVVKDNSE----SISHP----AIKKFASAFVRLGNINLVNDVMKAIHATG--  197 (275)
Q Consensus       130 --~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~----~~~~~----~~~~li~~~~~~~~~~~a~~~~~~m~~~g--  197 (275)
                        ........+..+-..+...|++++|...+++...    .....    .+..+...|...|++++|...++......  
T Consensus       216 ~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~  295 (411)
T 4a1s_A          216 LGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVE  295 (411)
T ss_dssp             HTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHH
Confidence              1222334677888899999999999999998654    12222    67788899999999999999998876531  


Q ss_pred             --CC-CChhhHHHHHHHHHHhchhHHHHHHHHHHHhhC----CCC-CChhhHHHHHHHHHHhhHHHHHHH
Q 023915          198 --YR-IDQGIFHIAIARYIAEREKKELLLKLLEWMTGQ----GYV-VDSSTRNLILKNSHLFGRQLIADI  259 (275)
Q Consensus       198 --~~-p~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~----~~~-p~~~t~~~li~~~~~~g~~~~~~~  259 (275)
                        -. ....++..+...|. ..|++++|...+++....    +-. ....++..+-..+.+.|+...+..
T Consensus       296 ~~~~~~~~~~~~~la~~~~-~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~  364 (411)
T 4a1s_A          296 LGEREVEAQSCYSLGNTYT-LLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALK  364 (411)
T ss_dssp             TTCHHHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHHH-HcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHH
Confidence              11 11356777777775 779999999999987643    111 124577777788888884444433

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.40  E-value=3.5e-11  Score=95.44  Aligned_cols=227  Identities=13%  Similarity=0.032  Sum_probs=160.6

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhc-------CCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhc------CCCC-ChhhH
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAK-------YDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDEL------AISP-DYNTF   68 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~-------g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~------g~~p-~~~t~   68 (275)
                      ..+...|++++|..+|+...+.       .......++..+...+...|++++|.+.|++..+.      +-.| ...++
T Consensus        35 ~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  114 (311)
T 3nf1_A           35 IQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKDHPAVAATL  114 (311)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHH
Confidence            4677899999999999998873       23335678899999999999999999999998764      2223 35678


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHc------CCCC-CHHhHHHHHHHHhccCCHHHHHHHHHHHHhc------c-cccc
Q 023915           69 HILIKYFCKEKMYILAYRTMVDMHRK------GHQP-EEELCSSLIFHLGKMRAHSEALSVYNMLRYS------K-RSMC  134 (275)
Q Consensus        69 ~~li~~~~~~~~~~~a~~~~~~m~~~------g~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~------~-~~~~  134 (275)
                      ..+...+...|+++.|...+++..+.      +-.| ...++..+...+...|++++|...++.....      + .+..
T Consensus       115 ~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~  194 (311)
T 3nf1_A          115 NNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNV  194 (311)
T ss_dssp             HHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHH
T ss_pred             HHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHH
Confidence            89999999999999999999998864      3333 3457888999999999999999999988754      1 2233


Q ss_pred             HHhHHHHHHHHHhccchHHHHHHHHHhhcCC--------C--h-h------HHHHHHHHHHhcCChhHHHHHHHHHHHcC
Q 023915          135 KALHEKILHILISGKLLKDAYVVVKDNSESI--------S--H-P------AIKKFASAFVRLGNINLVNDVMKAIHATG  197 (275)
Q Consensus       135 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~--------~--~-~------~~~~li~~~~~~~~~~~a~~~~~~m~~~g  197 (275)
                      ...+..+...+...|++++|...+++.....        .  . .      .+..+...+...+.+.++...+.......
T Consensus       195 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~  274 (311)
T 3nf1_A          195 AKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDS  274 (311)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCCC---------C
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCC
Confidence            4577888999999999999999999866411        0  0 1      12223344445556666666666655422


Q ss_pred             CCCChhhHHHHHHHHHHhchhHHHHHHHHHHHhh
Q 023915          198 YRIDQGIFHIAIARYIAEREKKELLLKLLEWMTG  231 (275)
Q Consensus       198 ~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~  231 (275)
                       +.+..++..+...|. ..|++++|.+.+++..+
T Consensus       275 -~~~~~~~~~la~~~~-~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          275 -PTVTTTLKNLGALYR-RQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             -HHHHHHHHHHHHHHH-HHTCHHHHHHHHHHHHH
T ss_pred             -chHHHHHHHHHHHHH-HCCCHHHHHHHHHHHHH
Confidence             224457788888876 77999999999998754

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.38  E-value=5.2e-11  Score=95.17  Aligned_cols=258  Identities=9%  Similarity=-0.072  Sum_probs=189.5

Q ss_pred             hhhhcCcHHHHHHHHHHHHhcCCCCc---HHhHHHHHHHHHccCCHHHHHHHHHHHhhc----CCCCC-hhhHHHHHHHH
Q 023915            4 AFCRGGCFEEAKQLAGDFEAKYDKYD---VVLLNSMLCAYCRTGDMESVMHVMRKLDEL----AISPD-YNTFHILIKYF   75 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~g~~p~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p~-~~t~~~li~~~   75 (275)
                      .+...|++++|...|+...+......   ...|..+...+...|++++|.+.+++..+.    +-.|. ..++..+...+
T Consensus        14 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~   93 (338)
T 3ro2_A           14 RLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTL   93 (338)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH
T ss_pred             HHHHhccHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHHH
Confidence            56788999999999999998743311   467889999999999999999999887642    22222 45678888999


Q ss_pred             HccCCHHHHHHHHHHHHHcCC-CCC----HHhHHHHHHHHhccCC--------------------HHHHHHHHHHHHhc-
Q 023915           76 CKEKMYILAYRTMVDMHRKGH-QPE----EELCSSLIFHLGKMRA--------------------HSEALSVYNMLRYS-  129 (275)
Q Consensus        76 ~~~~~~~~a~~~~~~m~~~g~-~~~----~~~~~~li~~~~~~g~--------------------~~~a~~~~~~m~~~-  129 (275)
                      ...|+++.|...+++..+... .++    ..++..+...+...|+                    +++|...++..... 
T Consensus        94 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~~~  173 (338)
T 3ro2_A           94 KVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLSLV  173 (338)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999765321 122    3477888889999999                    99999998876532 


Q ss_pred             ---c-ccccHHhHHHHHHHHHhccchHHHHHHHHHhhc----CCChh----HHHHHHHHHHhcCChhHHHHHHHHHHHc-
Q 023915          130 ---K-RSMCKALHEKILHILISGKLLKDAYVVVKDNSE----SISHP----AIKKFASAFVRLGNINLVNDVMKAIHAT-  196 (275)
Q Consensus       130 ---~-~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~----~~~~~----~~~~li~~~~~~~~~~~a~~~~~~m~~~-  196 (275)
                         + .......+..+...+...|++++|...+++...    ...++    .+..+...+...|++++|...++...+. 
T Consensus       174 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  253 (338)
T 3ro2_A          174 TALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLA  253 (338)
T ss_dssp             HHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH
T ss_pred             HhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence               1 222344677788889999999999999988654    22222    5677888999999999999999886653 


Q ss_pred             ---CCCCC-hhhHHHHHHHHHHhchhHHHHHHHHHHHhhC----CCC-CChhhHHHHHHHHHHhhHHHHHHHHhc
Q 023915          197 ---GYRID-QGIFHIAIARYIAEREKKELLLKLLEWMTGQ----GYV-VDSSTRNLILKNSHLFGRQLIADILSK  262 (275)
Q Consensus       197 ---g~~p~-~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~----~~~-p~~~t~~~li~~~~~~g~~~~~~~~~~  262 (275)
                         +-.+. ..++..+...|. ..|++++|...+++....    +-. ....++..+-..+.+.|+...+....+
T Consensus       254 ~~~~~~~~~~~~~~~la~~~~-~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~  327 (338)
T 3ro2_A          254 RQLKDRAVEAQSCYSLGNTYT-LLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAE  327 (338)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HhhcchhHHHHHHHHHHHHHH-HhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHH
Confidence               11111 346666777765 779999999999887543    111 124577778888888886555554443

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.37  E-value=2.6e-10  Score=88.83  Aligned_cols=226  Identities=9%  Similarity=-0.042  Sum_probs=166.1

Q ss_pred             HHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCC-hhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCC--HHhHHHH
Q 023915           30 VVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPE--EELCSSL  106 (275)
Q Consensus        30 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~--~~~~~~l  106 (275)
                      ...+...-..+...|++++|++.|++..+.  .|+ ...+..+...+...|+++.|...+++..+.+-.|+  ..+|..+
T Consensus         3 ~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~l   80 (272)
T 3u4t_A            3 DDVEFRYADFLFKNNNYAEAIEVFNKLEAK--KYNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYY   80 (272)
T ss_dssp             --CHHHHHHHHHTTTCHHHHHHHHHHHHHT--TCCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHH
Confidence            345566677888999999999999999874  354 44888999999999999999999999998432222  2348889


Q ss_pred             HHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhcC-C-ChhHHHHHHHHHHhcCChh
Q 023915          107 IFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSES-I-SHPAIKKFASAFVRLGNIN  184 (275)
Q Consensus       107 i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-~-~~~~~~~li~~~~~~~~~~  184 (275)
                      ...+.+.|++++|...|+........ ....+..+-..+...|++++|...+++.... + .+..+..+...+...++++
T Consensus        81 g~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~  159 (272)
T 3u4t_A           81 GKILMKKGQDSLAIQQYQAAVDRDTT-RLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPTTTDPKVFYELGQAYYYNKEYV  159 (272)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHSTT-CTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSSCCCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHcccHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHccCHHHHHHHHHHHhhcCCCcHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999998865433 3457889999999999999999999998763 2 3335556663445556999


Q ss_pred             HHHHHHHHHHHcCCCCC-hhhHHHHHHHHHHhchh---HHHHHHHHHHHhhCC-CCCC------hhhHHHHHHHHHHhhH
Q 023915          185 LVNDVMKAIHATGYRID-QGIFHIAIARYIAEREK---KELLLKLLEWMTGQG-YVVD------SSTRNLILKNSHLFGR  253 (275)
Q Consensus       185 ~a~~~~~~m~~~g~~p~-~~~y~~li~~~~~~~~~---~~~a~~l~~~m~~~~-~~p~------~~t~~~li~~~~~~g~  253 (275)
                      +|...|+...+..  |+ ...+..+...+. ..++   +++|...+++..+.. -.|+      ..+|..+-..+...|+
T Consensus       160 ~A~~~~~~a~~~~--p~~~~~~~~~~~~~~-~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  236 (272)
T 3u4t_A          160 KADSSFVKVLELK--PNIYIGYLWRARANA-AQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRD  236 (272)
T ss_dssp             HHHHHHHHHHHHS--TTCHHHHHHHHHHHH-HHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHhC--ccchHHHHHHHHHHH-HcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCC
Confidence            9999999988853  44 456666666655 4465   666777777765431 1233      2567777777888885


Q ss_pred             HHHHHHHh
Q 023915          254 QLIADILS  261 (275)
Q Consensus       254 ~~~~~~~~  261 (275)
                      ...|....
T Consensus       237 ~~~A~~~~  244 (272)
T 3u4t_A          237 KVKADAAW  244 (272)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            55544443

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.37  E-value=6.9e-11  Score=97.32  Aligned_cols=255  Identities=9%  Similarity=-0.074  Sum_probs=187.2

Q ss_pred             hhhhcCcHHHHHHHHHHHHhcCCCCc---HHhHHHHHHHHHccCCHHHHHHHHHHHhhc----CCCCC-hhhHHHHHHHH
Q 023915            4 AFCRGGCFEEAKQLAGDFEAKYDKYD---VVLLNSMLCAYCRTGDMESVMHVMRKLDEL----AISPD-YNTFHILIKYF   75 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~g~~p~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p~-~~t~~~li~~~   75 (275)
                      .+.+.|++++|...|+.....+....   ..+|..+...+...|++++|...|++..+.    +-.|. ..++..+...+
T Consensus        18 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~   97 (406)
T 3sf4_A           18 RLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTL   97 (406)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHhccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHH
Confidence            56788999999999999998744311   367889999999999999999999887542    22232 45678888999


Q ss_pred             HccCCHHHHHHHHHHHHHcCC-CCC----HHhHHHHHHHHhccCC--------------------HHHHHHHHHHHHhc-
Q 023915           76 CKEKMYILAYRTMVDMHRKGH-QPE----EELCSSLIFHLGKMRA--------------------HSEALSVYNMLRYS-  129 (275)
Q Consensus        76 ~~~~~~~~a~~~~~~m~~~g~-~~~----~~~~~~li~~~~~~g~--------------------~~~a~~~~~~m~~~-  129 (275)
                      ...|+++.|...+++..+... .++    ..++..+...|...|+                    +++|...++..... 
T Consensus        98 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~  177 (406)
T 3sf4_A           98 KVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLSLV  177 (406)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHH
Confidence            999999999999998875311 112    3478888889999999                    99999998876542 


Q ss_pred             ---c-ccccHHhHHHHHHHHHhccchHHHHHHHHHhhc----CCChh----HHHHHHHHHHhcCChhHHHHHHHHHHHc-
Q 023915          130 ---K-RSMCKALHEKILHILISGKLLKDAYVVVKDNSE----SISHP----AIKKFASAFVRLGNINLVNDVMKAIHAT-  196 (275)
Q Consensus       130 ---~-~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~----~~~~~----~~~~li~~~~~~~~~~~a~~~~~~m~~~-  196 (275)
                         + .......+..+-..+...|++++|...+++...    .+.++    .+..+...|...|++++|...++..... 
T Consensus       178 ~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  257 (406)
T 3sf4_A          178 TALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLA  257 (406)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHH
Confidence               1 222344677888899999999999999988654    22222    6777888999999999999999887653 


Q ss_pred             ---CCCCC-hhhHHHHHHHHHHhchhHHHHHHHHHHHhhC----CCCCC-hhhHHHHHHHHHHhhHHHHHHH
Q 023915          197 ---GYRID-QGIFHIAIARYIAEREKKELLLKLLEWMTGQ----GYVVD-SSTRNLILKNSHLFGRQLIADI  259 (275)
Q Consensus       197 ---g~~p~-~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~----~~~p~-~~t~~~li~~~~~~g~~~~~~~  259 (275)
                         +-.+. ..++..+...|. ..|++++|...+++....    +-.+. ..++..+-..+...|+...+..
T Consensus       258 ~~~~~~~~~~~~~~~la~~~~-~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~  328 (406)
T 3sf4_A          258 RQLKDRAVEAQSCYSLGNTYT-LLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAMH  328 (406)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HhCcCchHHHHHHHHHHHHHH-HhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence               11111 346777777775 779999999999887542    21111 5567777778888884444433

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.34  E-value=4.7e-10  Score=82.19  Aligned_cols=163  Identities=11%  Similarity=-0.030  Sum_probs=107.4

Q ss_pred             cHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCC-hhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHH
Q 023915           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLI  107 (275)
Q Consensus        29 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li  107 (275)
                      +...|..+-..+.+.|++++|++.|++..+.  .|+ ..++..+...+.+.|+++.|...+....... +-+...+..+.
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~   80 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKA--DPNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILG   80 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHH
Confidence            5567777777788888888888888777663  343 4566677777777788888877777776553 23445666666


Q ss_pred             HHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhc--CCChhHHHHHHHHHHhcCChhH
Q 023915          108 FHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSE--SISHPAIKKFASAFVRLGNINL  185 (275)
Q Consensus       108 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~  185 (275)
                      ..+...++++.+...+......... +...+..+-..+...|++++|++.|++...  ...+..+..+...|.+.|++++
T Consensus        81 ~~~~~~~~~~~a~~~~~~a~~~~~~-~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~lg~~~~~~g~~~~  159 (184)
T 3vtx_A           81 SANFMIDEKQAAIDALQRAIALNTV-YADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIRAYQSIGLAYEGKGLRDE  159 (184)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCcc-chHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhhHHHHHHHHHHHCCCHHH
Confidence            6777777777777777766543222 233555666666677777777777766544  2233356666666777777777


Q ss_pred             HHHHHHHHHH
Q 023915          186 VNDVMKAIHA  195 (275)
Q Consensus       186 a~~~~~~m~~  195 (275)
                      |...|++..+
T Consensus       160 A~~~~~~al~  169 (184)
T 3vtx_A          160 AVKYFKKALE  169 (184)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            7777766655

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.34  E-value=5.2e-11  Score=100.78  Aligned_cols=186  Identities=12%  Similarity=-0.001  Sum_probs=157.9

Q ss_pred             hhhhhcCcH-HHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHcc---
Q 023915            3 SAFCRGGCF-EEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKE---   78 (275)
Q Consensus         3 ~~~~~~g~~-~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~---   78 (275)
                      ..+...|++ ++|.+.|+...+.... +...|..+-.+|.+.|++++|.+.|++..+.  .|+...+..+...+...   
T Consensus       110 ~~~~~~g~~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~lg~~~~~~~~~  186 (474)
T 4abn_A          110 KALNVTPDYSPEAEVLLSKAVKLEPE-LVEAWNQLGEVYWKKGDVTSAHTCFSGALTH--CKNKVSLQNLSMVLRQLQTD  186 (474)
T ss_dssp             HHHTSSSSCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT--CCCHHHHHHHHHHHTTCCCS
T ss_pred             HHHHhccccHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCHHHHHHHHHHHHHhccC
Confidence            356778999 9999999999987544 6789999999999999999999999999884  58888899999999999   


Q ss_pred             ------CCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhcc--------CCHHHHHHHHHHHHhcccc--ccHHhHHHHH
Q 023915           79 ------KMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKM--------RAHSEALSVYNMLRYSKRS--MCKALHEKIL  142 (275)
Q Consensus        79 ------~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~--------g~~~~a~~~~~~m~~~~~~--~~~~~~~~li  142 (275)
                            |++++|...|++..+.. +-+...|..+..+|...        |++++|...|+........  .+...|..+-
T Consensus       187 ~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~lg  265 (474)
T 4abn_A          187 SGDEHSRHVMDSVRQAKLAVQMD-VLDGRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKVDRKASSNPDLHLNRA  265 (474)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHCGGGGGCHHHHHHHH
T ss_pred             ChhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhCCCcccCHHHHHHHH
Confidence                  99999999999998864 34577899999999988        9999999999998875431  4566888999


Q ss_pred             HHHHhccchHHHHHHHHHhhc--CCChhHHHHHHHHHHhcCChhHHHHHHHH
Q 023915          143 HILISGKLLKDAYVVVKDNSE--SISHPAIKKFASAFVRLGNINLVNDVMKA  192 (275)
Q Consensus       143 ~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~  192 (275)
                      ..|...|++++|.+.|++...  ...+..+..+...+...|++++|.+.+..
T Consensus       266 ~~~~~~g~~~~A~~~~~~al~l~p~~~~a~~~l~~~~~~lg~~~eAi~~~~~  317 (474)
T 4abn_A          266 TLHKYEESYGEALEGFSQAAALDPAWPEPQQREQQLLEFLSRLTSLLESKGK  317 (474)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHTTT
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            999999999999999999765  33444678888888899999888876543

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.32  E-value=1.2e-09  Score=80.07  Aligned_cols=169  Identities=7%  Similarity=-0.069  Sum_probs=138.8

Q ss_pred             ChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHH
Q 023915           64 DYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILH  143 (275)
Q Consensus        64 ~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~  143 (275)
                      +...|..+-..|.+.|++++|+..|++..+.. +-+..++..+...|.+.|++++|...+.......... ...+..+-.
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~~~   81 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLDTTS-AEAYYILGS   81 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCC-HHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCchh-HHHHHHHHH
Confidence            56679999999999999999999999998764 3456789999999999999999999999887654443 446677778


Q ss_pred             HHHhccchHHHHHHHHHhhc--CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhchhHHH
Q 023915          144 ILISGKLLKDAYVVVKDNSE--SISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKEL  221 (275)
Q Consensus       144 ~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~~  221 (275)
                      .+...++++.|...+.+...  ...+..+..+...|...|++++|.+.|+...+.. +-+..+|..+-..|. ..|++++
T Consensus        82 ~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~-~~g~~~~  159 (184)
T 3vtx_A           82 ANFMIDEKQAAIDALQRAIALNTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYE-GKGLRDE  159 (184)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH-HTTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHH-HCCCHHH
Confidence            88899999999999998765  3344577888999999999999999999988864 235567888888876 7799999


Q ss_pred             HHHHHHHHhhCCCCCCh
Q 023915          222 LLKLLEWMTGQGYVVDS  238 (275)
Q Consensus       222 a~~l~~~m~~~~~~p~~  238 (275)
                      |.+.|++..+.  .|+.
T Consensus       160 A~~~~~~al~~--~p~~  174 (184)
T 3vtx_A          160 AVKYFKKALEK--EEKK  174 (184)
T ss_dssp             HHHHHHHHHHT--THHH
T ss_pred             HHHHHHHHHhC--CccC
Confidence            99999998763  4543

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.32  E-value=1e-09  Score=87.52  Aligned_cols=181  Identities=10%  Similarity=0.019  Sum_probs=146.5

Q ss_pred             HHHHHHHHHHHHh-cCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChh--hHHHHHHHHHccCCHHHHHHH
Q 023915           11 FEEAKQLAGDFEA-KYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYN--TFHILIKYFCKEKMYILAYRT   87 (275)
Q Consensus        11 ~~~a~~~~~~m~~-~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~--t~~~li~~~~~~~~~~~a~~~   87 (275)
                      .++|..+|+...+ ..+. +...|..+...+.+.|++++|.++|++..+  +.|+..  .|..+...+.+.|+++.|..+
T Consensus        80 ~~~A~~~~~rAl~~~~p~-~~~~~~~~~~~~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~~~~~~~~~~~~~~~A~~~  156 (308)
T 2ond_A           80 SDEAANIYERAISTLLKK-NMLLYFAYADYEESRMKYEKVHSIYNRLLA--IEDIDPTLVYIQYMKFARRAEGIKSGRMI  156 (308)
T ss_dssp             HHHHHHHHHHHHTTTTTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHT--SSSSCTHHHHHHHHHHHHHHHCHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHh--ccccCccHHHHHHHHHHHHhcCHHHHHHH
Confidence            3999999999987 3332 567899999999999999999999999988  557543  799999999999999999999


Q ss_pred             HHHHHHcCCCCCHHhHHHHHHHH-hccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhcC--
Q 023915           88 MVDMHRKGHQPEEELCSSLIFHL-GKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSES--  164 (275)
Q Consensus        88 ~~~m~~~g~~~~~~~~~~li~~~-~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~--  164 (275)
                      |++..+.. +++...|....... ...|+.++|..+|+......+ -+...|..++..+...|++++|..+|++....  
T Consensus       157 ~~~a~~~~-p~~~~~~~~~a~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~  234 (308)
T 2ond_A          157 FKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYG-DIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGS  234 (308)
T ss_dssp             HHHHHTST-TCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSS
T ss_pred             HHHHHhcC-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccC
Confidence            99998764 33444554433332 236999999999998876533 25668889999999999999999999998774  


Q ss_pred             CC----hhHHHHHHHHHHhcCChhHHHHHHHHHHHc
Q 023915          165 IS----HPAIKKFASAFVRLGNINLVNDVMKAIHAT  196 (275)
Q Consensus       165 ~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  196 (275)
                      .+    ...+..++..+.+.|+.+.|..+++...+.
T Consensus       235 l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~~~  270 (308)
T 2ond_A          235 LPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             SCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            12    236788889999999999999999998875

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.31  E-value=8.5e-10  Score=90.60  Aligned_cols=224  Identities=11%  Similarity=-0.040  Sum_probs=151.6

Q ss_pred             hhhhcCcHHHHHHHHHHHHhc----CCCC-cHHhHHHHHHHHHccCCHHHHHHHHHHHhhcC--C---CC-ChhhHHHHH
Q 023915            4 AFCRGGCFEEAKQLAGDFEAK----YDKY-DVVLLNSMLCAYCRTGDMESVMHVMRKLDELA--I---SP-DYNTFHILI   72 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~----g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g--~---~p-~~~t~~~li   72 (275)
                      .+...|++++|...|+.....    +-.+ ...+|..+-..+...|++++|++.+++..+.-  .   .| ...+++.+.
T Consensus       112 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg  191 (383)
T 3ulq_A          112 YELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHSLFA  191 (383)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHHHHH
Confidence            355678888898888888753    1122 34578888888888889888888888776521  1   11 234677788


Q ss_pred             HHHHccCCHHHHHHHHHHHHHc----CCCCC-HHhHHHHHHHHhccCCHHHHHHHHHHHHh-----ccccccHHhHHHHH
Q 023915           73 KYFCKEKMYILAYRTMVDMHRK----GHQPE-EELCSSLIFHLGKMRAHSEALSVYNMLRY-----SKRSMCKALHEKIL  142 (275)
Q Consensus        73 ~~~~~~~~~~~a~~~~~~m~~~----g~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~~~~~~~~~~~~li  142 (275)
                      ..|...|++++|...+++..+.    +-.+. ..++..+-..|...|++++|...+++...     ...+....++..+-
T Consensus       192 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~  271 (383)
T 3ulq_A          192 TNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFLIT  271 (383)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHHHHH
Confidence            8888889999988888887643    11111 23677788888888899888888887765     22233455677788


Q ss_pred             HHHHhccchHHHHHHHHHhhc----CCChh---HHHHHHHHHHhcCC---hhHHHHHHHHHHHcCCCCChh-hHHHHHHH
Q 023915          143 HILISGKLLKDAYVVVKDNSE----SISHP---AIKKFASAFVRLGN---INLVNDVMKAIHATGYRIDQG-IFHIAIAR  211 (275)
Q Consensus       143 ~~~~~~~~~~~a~~~~~~~~~----~~~~~---~~~~li~~~~~~~~---~~~a~~~~~~m~~~g~~p~~~-~y~~li~~  211 (275)
                      ..+...|++++|...+++...    .+++.   .+..+-..|...|+   +++|..+++..   +..|+.. .+..+-..
T Consensus       272 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~---~~~~~~~~~~~~la~~  348 (383)
T 3ulq_A          272 QIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK---MLYADLEDFAIDVAKY  348 (383)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC---cCHHHHHHHHHHHHHH
Confidence            888888888888888887544    12222   34556677777777   55666665543   3344433 45555555


Q ss_pred             HHHhchhHHHHHHHHHHHhh
Q 023915          212 YIAEREKKELLLKLLEWMTG  231 (275)
Q Consensus       212 ~~~~~~~~~~a~~l~~~m~~  231 (275)
                      |. ..|++++|.+.+++..+
T Consensus       349 y~-~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          349 YH-ERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HH-HTTCHHHHHHHHHHHHH
T ss_pred             HH-HCCCHHHHHHHHHHHHH
Confidence            54 67888888888887643

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.30  E-value=3.7e-08  Score=83.57  Aligned_cols=209  Identities=10%  Similarity=0.016  Sum_probs=91.4

Q ss_pred             cCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHc----cCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHc----cC
Q 023915            8 GGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCR----TGDMESVMHVMRKLDELAISPDYNTFHILIKYFCK----EK   79 (275)
Q Consensus         8 ~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~----~~   79 (275)
                      .++.++|.+.|+...+.|   +...+..|-..|..    .+++++|++.|++..+.|   +...+..|-..|..    .+
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            344444444444444432   33333334444443    344444444444444432   22233333333433    44


Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhc----cCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHh----ccch
Q 023915           80 MYILAYRTMVDMHRKGHQPEEELCSSLIFHLGK----MRAHSEALSVYNMLRYSKRSMCKALHEKILHILIS----GKLL  151 (275)
Q Consensus        80 ~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~----~~~~  151 (275)
                      +.++|...|++..+.|   +...+..+-..|.+    .++.++|.+.|+.....+.   ...+..+-..|..    .++.
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---NVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATSGD---ELGQLHLADMYYFGIGVTQDY  239 (490)
T ss_dssp             CHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHTSSSCCCH
T ss_pred             CHHHHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCCC---HHHHHHHHHHHHcCCCCCCCH
Confidence            4555555555444432   23344444444444    4555555555554443321   1223333333332    4455


Q ss_pred             HHHHHHHHHhhcCCChhHHHHHHHHHHh----cCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhc-----hhHHHH
Q 023915          152 KDAYVVVKDNSESISHPAIKKFASAFVR----LGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAER-----EKKELL  222 (275)
Q Consensus       152 ~~a~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~-----~~~~~a  222 (275)
                      ++|..+|++..+.+.+..+..+-..|..    .++.++|...|+...+.|   +...+..+-..|. ..     ++.++|
T Consensus       240 ~~A~~~~~~a~~~~~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~-~~~~g~~~~~~~A  315 (490)
T 2xm6_A          240 TQSRVLFSQSAEQGNSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYD-KGAEGVAKNREQA  315 (490)
T ss_dssp             HHHHHHHHHHHTTTCHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHH-HCBTTBCCCHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHH-cCCCCCcCCHHHH
Confidence            5555555554444444444444444444    455555555555544432   2223333333332 22     455555


Q ss_pred             HHHHHHHhhC
Q 023915          223 LKLLEWMTGQ  232 (275)
Q Consensus       223 ~~l~~~m~~~  232 (275)
                      ..++++..+.
T Consensus       316 ~~~~~~a~~~  325 (490)
T 2xm6_A          316 ISWYTKSAEQ  325 (490)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHHhc
Confidence            5555555444

>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=99.30  E-value=9.5e-10  Score=80.07  Aligned_cols=163  Identities=8%  Similarity=-0.015  Sum_probs=111.5

Q ss_pred             HHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHH
Q 023915           30 VVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFH  109 (275)
Q Consensus        30 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~  109 (275)
                      ...|..+...+...|++++|.+.|+++.+.. +.+...+..+...+...|+++.|...+++..+.. +.+...+..+...
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            3456777778888888888888888876532 2355677788888888888888888888887653 3456677777788


Q ss_pred             HhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhcC--CChhHHHHHHHHHHhcCChhHHH
Q 023915          110 LGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSES--ISHPAIKKFASAFVRLGNINLVN  187 (275)
Q Consensus       110 ~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~a~  187 (275)
                      +...|++++|.+.++....... .+...+..+...+...|++++|...+++....  ..+..+..+...+...|++++|.
T Consensus        86 ~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~  164 (186)
T 3as5_A           86 YVQVQKYDLAVPLLIKVAEANP-INFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPNEGKVHRAIAFSYEQMGRHEEAL  164 (186)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHhcCc-HhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCHHHHH
Confidence            8888888888888887765432 23345556666666677777777776665442  22335556666666666666666


Q ss_pred             HHHHHHHH
Q 023915          188 DVMKAIHA  195 (275)
Q Consensus       188 ~~~~~m~~  195 (275)
                      ..++...+
T Consensus       165 ~~~~~~~~  172 (186)
T 3as5_A          165 PHFKKANE  172 (186)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            66666554

>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=99.29  E-value=2e-10  Score=89.56  Aligned_cols=225  Identities=12%  Similarity=-0.035  Sum_probs=152.9

Q ss_pred             hhcCcHHHHHHHHHHHHhc-------CCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhc------CCCC-ChhhHHHH
Q 023915            6 CRGGCFEEAKQLAGDFEAK-------YDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDEL------AISP-DYNTFHIL   71 (275)
Q Consensus         6 ~~~g~~~~a~~~~~~m~~~-------g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~------g~~p-~~~t~~~l   71 (275)
                      ...|++++|...|++..+.       .......++..+...+...|++++|++.|++..+.      +-.| ...++..+
T Consensus        12 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l   91 (283)
T 3edt_B           12 SGLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNL   91 (283)
T ss_dssp             -CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHH
Confidence            3456666666666665542       22335678999999999999999999999998764      2223 35678899


Q ss_pred             HHHHHccCCHHHHHHHHHHHHHc------CCCC-CHHhHHHHHHHHhccCCHHHHHHHHHHHHhc------c-ccccHHh
Q 023915           72 IKYFCKEKMYILAYRTMVDMHRK------GHQP-EEELCSSLIFHLGKMRAHSEALSVYNMLRYS------K-RSMCKAL  137 (275)
Q Consensus        72 i~~~~~~~~~~~a~~~~~~m~~~------g~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~------~-~~~~~~~  137 (275)
                      ...+...|+++.|...+++..+.      .-.| ...++..+...|...|++++|...+++....      + .+....+
T Consensus        92 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  171 (283)
T 3edt_B           92 AVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKT  171 (283)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHH
Confidence            99999999999999999998764      1123 3567888999999999999999999988754      1 2223557


Q ss_pred             HHHHHHHHHhccchHHHHHHHHHhhcC----------C-ChhHHHHHHHHHHhcCChhHHHHHHHHH---HHcC-CCC-C
Q 023915          138 HEKILHILISGKLLKDAYVVVKDNSES----------I-SHPAIKKFASAFVRLGNINLVNDVMKAI---HATG-YRI-D  201 (275)
Q Consensus       138 ~~~li~~~~~~~~~~~a~~~~~~~~~~----------~-~~~~~~~li~~~~~~~~~~~a~~~~~~m---~~~g-~~p-~  201 (275)
                      +..+-..+...|++++|...+++....          + ....+..+...+...+....+.......   ...+ ..| .
T Consensus       172 ~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  251 (283)
T 3edt_B          172 KNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPTV  251 (283)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCCCHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHHH
Confidence            888899999999999999999886541          1 1113333333444333333322221111   1111 112 2


Q ss_pred             hhhHHHHHHHHHHhchhHHHHHHHHHHHhh
Q 023915          202 QGIFHIAIARYIAEREKKELLLKLLEWMTG  231 (275)
Q Consensus       202 ~~~y~~li~~~~~~~~~~~~a~~l~~~m~~  231 (275)
                      ..++..+...|. ..|++++|..++++..+
T Consensus       252 ~~~~~~la~~~~-~~g~~~~A~~~~~~al~  280 (283)
T 3edt_B          252 NTTLRSLGALYR-RQGKLEAAHTLEDCASR  280 (283)
T ss_dssp             HHHHHHHHHHHH-HTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHH-HcCCHHHHHHHHHHHHH
Confidence            346777777775 77999999999998765

>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=99.28  E-value=5.2e-10  Score=87.19  Aligned_cols=222  Identities=12%  Similarity=0.017  Sum_probs=148.7

Q ss_pred             HccCCHHHHHHHHHHHhhc-------CCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHc------CCCC-CHHhHHHH
Q 023915           41 CRTGDMESVMHVMRKLDEL-------AISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRK------GHQP-EEELCSSL  106 (275)
Q Consensus        41 ~~~g~~~~a~~~~~~m~~~-------g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~------g~~~-~~~~~~~l  106 (275)
                      ...|++++|+++|++..+.       .-+....++..+...+...|+++.|...+++..+.      +-.| ...++..+
T Consensus        12 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l   91 (283)
T 3edt_B           12 SGLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNL   91 (283)
T ss_dssp             -CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHH
Confidence            3567777777777666542       22334567889999999999999999999998865      3233 34588899


Q ss_pred             HHHHhccCCHHHHHHHHHHHHhcc-------ccccHHhHHHHHHHHHhccchHHHHHHHHHhhcC------CChh----H
Q 023915          107 IFHLGKMRAHSEALSVYNMLRYSK-------RSMCKALHEKILHILISGKLLKDAYVVVKDNSES------ISHP----A  169 (275)
Q Consensus       107 i~~~~~~g~~~~a~~~~~~m~~~~-------~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~------~~~~----~  169 (275)
                      ...|...|++++|...++......       .+.....+..+-..+...|++++|...+++....      +..+    .
T Consensus        92 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  171 (283)
T 3edt_B           92 AVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKT  171 (283)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHH
Confidence            999999999999999999876541       2334567888899999999999999999986653      2222    5


Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHc-------CCCCChhhHHHHHHHHHHhchh------HHHHHHHHHHHhhCCCCC
Q 023915          170 IKKFASAFVRLGNINLVNDVMKAIHAT-------GYRIDQGIFHIAIARYIAEREK------KELLLKLLEWMTGQGYVV  236 (275)
Q Consensus       170 ~~~li~~~~~~~~~~~a~~~~~~m~~~-------g~~p~~~~y~~li~~~~~~~~~------~~~a~~l~~~m~~~~~~p  236 (275)
                      +..+...|...|++++|...++...+.       ...|....+...+..+....+.      +..+...++.... ..+.
T Consensus       172 ~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~  250 (283)
T 3edt_B          172 KNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKV-DSPT  250 (283)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCC-CCHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCC-CCHH
Confidence            677889999999999999999987763       2233333333333332212121      2222222222211 1223


Q ss_pred             ChhhHHHHHHHHHHhhHHHHHHHHhcc
Q 023915          237 DSSTRNLILKNSHLFGRQLIADILSKQ  263 (275)
Q Consensus       237 ~~~t~~~li~~~~~~g~~~~~~~~~~~  263 (275)
                      ...++..+...|...|+...|....+.
T Consensus       251 ~~~~~~~la~~~~~~g~~~~A~~~~~~  277 (283)
T 3edt_B          251 VNTTLRSLGALYRRQGKLEAAHTLEDC  277 (283)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            456788889999999977666665544

>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=99.28  E-value=2.3e-09  Score=87.95  Aligned_cols=214  Identities=9%  Similarity=-0.009  Sum_probs=170.4

Q ss_pred             HHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCC-hhhHHHHHHHHHccCC-HHHHHHHHHHHHHcCCCCCHHhHHHHH
Q 023915           30 VVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKM-YILAYRTMVDMHRKGHQPEEELCSSLI  107 (275)
Q Consensus        30 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~-~~~a~~~~~~m~~~g~~~~~~~~~~li  107 (275)
                      ...|+.+-..+.+.|++++|++.|++..+  +.|+ ...|+.+...+.+.|+ +++|+..|++..+.. +-+...|..+-
T Consensus        97 ~~a~~~lg~~~~~~g~~~~Al~~~~~al~--l~P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~-P~~~~a~~~~g  173 (382)
T 2h6f_A           97 RDVYDYFRAVLQRDERSERAFKLTRDAIE--LNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRR  173 (382)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHH--hCccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC-CCCHHHHHHHH
Confidence            45788888899999999999999999987  4465 5678889999999996 999999999999864 34667999999


Q ss_pred             HHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhc--CCChhHHHHHHHHHHh-cCChh
Q 023915          108 FHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSE--SISHPAIKKFASAFVR-LGNIN  184 (275)
Q Consensus       108 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~li~~~~~-~~~~~  184 (275)
                      .++.+.|++++|+..|+........ +...|..+-.++...|++++|+..+++...  ..+...|+.+..++.. .|..+
T Consensus       174 ~~~~~~g~~~eAl~~~~kal~ldP~-~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P~~~~a~~~lg~~l~~l~~~~~  252 (382)
T 2h6f_A          174 VLVEWLRDPSQELEFIADILNQDAK-NYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVRNNSVWNQRYFVISNTTGYND  252 (382)
T ss_dssp             HHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCSCS
T ss_pred             HHHHHccCHHHHHHHHHHHHHhCcc-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCcch
Confidence            9999999999999999998865433 345788888899999999999999999876  3344578888888888 66657


Q ss_pred             HH-----HHHHHHHHHcCCCCC-hhhHHHHHHHHHHhch--hHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHHhh
Q 023915          185 LV-----NDVMKAIHATGYRID-QGIFHIAIARYIAERE--KKELLLKLLEWMTGQGYVVDSSTRNLILKNSHLFG  252 (275)
Q Consensus       185 ~a-----~~~~~~m~~~g~~p~-~~~y~~li~~~~~~~~--~~~~a~~l~~~m~~~~~~p~~~t~~~li~~~~~~g  252 (275)
                      +|     ...++.....  .|+ ...|+.+-..+. ..|  ++++|.+.+.++  ..-+.+...+..+...|.+.|
T Consensus       253 eA~~~~el~~~~~Al~l--~P~~~~a~~~l~~ll~-~~g~~~~~~a~~~~~~~--~~~p~~~~al~~La~~~~~~~  323 (382)
T 2h6f_A          253 RAVLEREVQYTLEMIKL--VPHNESAWNYLKGILQ-DRGLSKYPNLLNQLLDL--QPSHSSPYLIAFLVDIYEDML  323 (382)
T ss_dssp             HHHHHHHHHHHHHHHHH--STTCHHHHHHHHHHHT-TTCGGGCHHHHHHHHHH--TTTCCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHH-ccCccchHHHHHHHHHh--ccCCCCHHHHHHHHHHHHHHh
Confidence            77     4777777664  354 456776666664 555  688899999888  333445677888888888764

>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=99.28  E-value=5.1e-10  Score=81.54  Aligned_cols=157  Identities=15%  Similarity=0.134  Sum_probs=133.3

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHH
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYI   82 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~   82 (275)
                      ..+...|++++|.+.|+.+..... .+...+..+...+...|++++|.+.+++..+.. +.+...+..+...+...|+++
T Consensus        16 ~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~   93 (186)
T 3as5_A           16 ISHAKAGRYSQAVMLLEQVYDADA-FDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTYVQVQKYD   93 (186)
T ss_dssp             HHHHHHTCHHHHHHHHTTTCCTTS-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHhCc-cChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHH
Confidence            356788999999999999876543 367889999999999999999999999988752 235677888999999999999


Q ss_pred             HHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhh
Q 023915           83 LAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNS  162 (275)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~  162 (275)
                      .|...+++..+.. +.+...+..+...+.+.|++++|...++....... .+...+..+...+...|++++|...+++..
T Consensus        94 ~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~~~  171 (186)
T 3as5_A           94 LAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRP-NEGKVHRAIAFSYEQMGRHEEALPHFKKAN  171 (186)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCc-cchHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            9999999998763 45677888999999999999999999999876543 345678889999999999999999999865


Q ss_pred             c
Q 023915          163 E  163 (275)
Q Consensus       163 ~  163 (275)
                      .
T Consensus       172 ~  172 (186)
T 3as5_A          172 E  172 (186)
T ss_dssp             H
T ss_pred             H
Confidence            4

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.27  E-value=4.7e-08  Score=82.99  Aligned_cols=225  Identities=8%  Similarity=-0.126  Sum_probs=176.5

Q ss_pred             cCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHc----cCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHc----cC
Q 023915            8 GGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCR----TGDMESVMHVMRKLDELAISPDYNTFHILIKYFCK----EK   79 (275)
Q Consensus         8 ~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~----~~   79 (275)
                      .+++++|...|+...+.|   +...+..|-..|..    .+++++|.+.|++..+.|   +...+..|-..|..    .+
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            789999999999988764   56778888888888    899999999999988865   45566677777877    78


Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhc----cCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHh----ccch
Q 023915           80 MYILAYRTMVDMHRKGHQPEEELCSSLIFHLGK----MRAHSEALSVYNMLRYSKRSMCKALHEKILHILIS----GKLL  151 (275)
Q Consensus        80 ~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~----~~~~  151 (275)
                      ++++|...|++..+.|   +...+..+-..|..    .++.++|.+.|+.....+   +...+..+-..|..    .++.
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            9999999999998876   45667777777776    789999999999887664   34566677777777    7899


Q ss_pred             HHHHHHHHHhhcCCChhHHHHHHHHHHh----cCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHh----chhHHHHH
Q 023915          152 KDAYVVVKDNSESISHPAIKKFASAFVR----LGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAE----REKKELLL  223 (275)
Q Consensus       152 ~~a~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~----~~~~~~a~  223 (275)
                      ++|...|++..+.+++..+..+...|..    .+++++|...|+...+.|   +...+..+-..|. .    .++.++|.
T Consensus       204 ~~A~~~~~~a~~~~~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~-~g~~~~~d~~~A~  279 (490)
T 2xm6_A          204 AISAQWYRKSATSGDELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NSIAQFRLGYILE-QGLAGAKEPLKAL  279 (490)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHH-HTTTSSCCHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-CCCCCCCCHHHHH
Confidence            9999999998888888888888888886    789999999999988764   3455555555554 4    57889999


Q ss_pred             HHHHHHhhCCCCCChhhHHHHHHHHHHh
Q 023915          224 KLLEWMTGQGYVVDSSTRNLILKNSHLF  251 (275)
Q Consensus       224 ~l~~~m~~~~~~p~~~t~~~li~~~~~~  251 (275)
                      ++|++..+.|   +...+..+-..+...
T Consensus       280 ~~~~~a~~~~---~~~a~~~Lg~~y~~~  304 (490)
T 2xm6_A          280 EWYRKSAEQG---NSDGQYYLAHLYDKG  304 (490)
T ss_dssp             HHHHHHHTTT---CHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHcC---CHHHHHHHHHHHHcC
Confidence            9999988765   333444444444443

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.25  E-value=1.5e-10  Score=95.81  Aligned_cols=228  Identities=12%  Similarity=-0.014  Sum_probs=171.4

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhc----CC-CCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhc----CCCC-ChhhHHHHH
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAK----YD-KYDVVLLNSMLCAYCRTGDMESVMHVMRKLDEL----AISP-DYNTFHILI   72 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~----g~-~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p-~~~t~~~li   72 (275)
                      ..|...|++++|...|++....    +- .....++..+-..|...|++++|.+.|++..+.    +-.| ...++..+.
T Consensus        94 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~  173 (411)
T 4a1s_A           94 NAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLG  173 (411)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHH
Confidence            3567889999999999987653    11 224567889999999999999999999987653    1122 244788888


Q ss_pred             HHHHccCC-----------------HHHHHHHHHHHHHc----CCCC-CHHhHHHHHHHHhccCCHHHHHHHHHHHHhcc
Q 023915           73 KYFCKEKM-----------------YILAYRTMVDMHRK----GHQP-EEELCSSLIFHLGKMRAHSEALSVYNMLRYSK  130 (275)
Q Consensus        73 ~~~~~~~~-----------------~~~a~~~~~~m~~~----g~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  130 (275)
                      ..|...|+                 ++.|...+++..+.    +-.+ ...++..+...|...|++++|...+++.....
T Consensus       174 ~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  253 (411)
T 4a1s_A          174 NVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIA  253 (411)
T ss_dssp             HHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHH
Confidence            99999999                 99999999887542    2222 23477888899999999999999999876532


Q ss_pred             c-----cccHHhHHHHHHHHHhccchHHHHHHHHHhhc----CCC----hhHHHHHHHHHHhcCChhHHHHHHHHHHHc-
Q 023915          131 R-----SMCKALHEKILHILISGKLLKDAYVVVKDNSE----SIS----HPAIKKFASAFVRLGNINLVNDVMKAIHAT-  196 (275)
Q Consensus       131 ~-----~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~----~~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-  196 (275)
                      .     ......+..+...+...|++++|...+++...    ...    ...+..+...|...|++++|...++..... 
T Consensus       254 ~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  333 (411)
T 4a1s_A          254 REFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIA  333 (411)
T ss_dssp             HHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence            1     11233677888899999999999999988654    222    235677889999999999999999987653 


Q ss_pred             ---CCCC-ChhhHHHHHHHHHHhchhHHHHHHHHHHHhh
Q 023915          197 ---GYRI-DQGIFHIAIARYIAEREKKELLLKLLEWMTG  231 (275)
Q Consensus       197 ---g~~p-~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~  231 (275)
                         +-.+ ...++..+...|. ..|++++|.+.+++..+
T Consensus       334 ~~~~~~~~~~~~~~~la~~~~-~~g~~~~A~~~~~~al~  371 (411)
T 4a1s_A          334 QELGDRIGEARACWSLGNAHS-AIGGHERALKYAEQHLQ  371 (411)
T ss_dssp             HHHTCHHHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHH
T ss_pred             HHCCChHHHHHHHHHHHHHHH-HhccHHHHHHHHHHHHH
Confidence               1111 1236777777775 77999999999998765

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.24  E-value=7e-09  Score=88.94  Aligned_cols=214  Identities=7%  Similarity=-0.006  Sum_probs=161.5

Q ss_pred             HHHHHHHHHHHhcCCCCcHHhHHHHHHHHHc-------cCCHH-------HHHHHHHHHhhcCCCC-ChhhHHHHHHHHH
Q 023915           12 EEAKQLAGDFEAKYDKYDVVLLNSMLCAYCR-------TGDME-------SVMHVMRKLDELAISP-DYNTFHILIKYFC   76 (275)
Q Consensus        12 ~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~-------~g~~~-------~a~~~~~~m~~~g~~p-~~~t~~~li~~~~   76 (275)
                      ++|..+|++.....+. +...|......+.+       .|+++       +|.++|++..+. +.| +...|..++..+.
T Consensus       255 ~~a~~~y~~al~~~p~-~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~-~~p~~~~l~~~~~~~~~  332 (530)
T 2ooe_A          255 KRVMFAYEQCLLVLGH-HPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAIST-LLKKNMLLYFAYADYEE  332 (530)
T ss_dssp             HHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTT-TCSSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHH-hCcccHHHHHHHHHHHH
Confidence            3667788887775332 67788888887775       78987       899999998763 235 4678889999999


Q ss_pred             ccCCHHHHHHHHHHHHHcCCCCCH--HhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHH-HHHHhccchHH
Q 023915           77 KEKMYILAYRTMVDMHRKGHQPEE--ELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKIL-HILISGKLLKD  153 (275)
Q Consensus        77 ~~~~~~~a~~~~~~m~~~g~~~~~--~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li-~~~~~~~~~~~  153 (275)
                      +.|+++.|..+|++..+.  .|+.  ..|...+..+.+.|+.++|.++|+......... ...|.... -.+...|+.++
T Consensus       333 ~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~~~~-~~~~~~~a~~~~~~~~~~~~  409 (530)
T 2ooe_A          333 SRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDARTR-HHVYVTAALMEYYCSKDKSV  409 (530)
T ss_dssp             HTTCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCTTCC-THHHHHHHHHHHHHTCCHHH
T ss_pred             hcCCHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhccCCc-hHHHHHHHHHHHHHcCChhH
Confidence            999999999999999984  5542  478889999999999999999999988654322 22222221 22346899999


Q ss_pred             HHHHHHHhhc--CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcC-CCCC--hhhHHHHHHHHHHhchhHHHHHHHHHH
Q 023915          154 AYVVVKDNSE--SISHPAIKKFASAFVRLGNINLVNDVMKAIHATG-YRID--QGIFHIAIARYIAEREKKELLLKLLEW  228 (275)
Q Consensus       154 a~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g-~~p~--~~~y~~li~~~~~~~~~~~~a~~l~~~  228 (275)
                      |..+|+....  ..++..+..++..+.+.|+.++|..+|+.....+ ..|+  ...|...+.-. ...|+.+.+..++++
T Consensus       410 A~~~~e~al~~~p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e-~~~G~~~~~~~~~~r  488 (530)
T 2ooe_A          410 AFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFE-SNIGDLASILKVEKR  488 (530)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHH-HHSSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHH-HHcCCHHHHHHHHHH
Confidence            9999998665  3345578889999999999999999999988863 2332  23666666543 467889999999988


Q ss_pred             Hhh
Q 023915          229 MTG  231 (275)
Q Consensus       229 m~~  231 (275)
                      +.+
T Consensus       489 ~~~  491 (530)
T 2ooe_A          489 RFT  491 (530)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            865

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.22  E-value=6.1e-10  Score=91.62  Aligned_cols=249  Identities=9%  Similarity=-0.021  Sum_probs=181.3

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhc----CCCC-cHHhHHHHHHHHHccCCHHHHHHHHHHHhhcC-CCCC----hhhHHHHH
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAK----YDKY-DVVLLNSMLCAYCRTGDMESVMHVMRKLDELA-ISPD----YNTFHILI   72 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~----g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g-~~p~----~~t~~~li   72 (275)
                      ..+...|++++|...|+.....    +-.| ...++..+...+...|++++|...+++..+.. -.++    ..++..+.
T Consensus        55 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~  134 (406)
T 3sf4_A           55 NAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLG  134 (406)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHH
Confidence            4577889999999999986542    2222 25578889999999999999999998876531 0112    44788888


Q ss_pred             HHHHccCC--------------------HHHHHHHHHHHHHc----CCCCC-HHhHHHHHHHHhccCCHHHHHHHHHHHH
Q 023915           73 KYFCKEKM--------------------YILAYRTMVDMHRK----GHQPE-EELCSSLIFHLGKMRAHSEALSVYNMLR  127 (275)
Q Consensus        73 ~~~~~~~~--------------------~~~a~~~~~~m~~~----g~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~  127 (275)
                      ..+...|+                    ++.|...+++..+.    +..|. ..++..+...|...|++++|...+++..
T Consensus       135 ~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al  214 (406)
T 3sf4_A          135 NVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRL  214 (406)
T ss_dssp             HHHHHHHHTCC-------CCCCHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHH
T ss_pred             HHHHHcCCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            89999999                    99999999887642    22222 3477888899999999999999999876


Q ss_pred             hcc-----ccccHHhHHHHHHHHHhccchHHHHHHHHHhhc----CCCh----hHHHHHHHHHHhcCChhHHHHHHHHHH
Q 023915          128 YSK-----RSMCKALHEKILHILISGKLLKDAYVVVKDNSE----SISH----PAIKKFASAFVRLGNINLVNDVMKAIH  194 (275)
Q Consensus       128 ~~~-----~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~----~~~~----~~~~~li~~~~~~~~~~~a~~~~~~m~  194 (275)
                      ...     .......+..+-..+...|++++|...+++...    ...+    ..+..+...|...|++++|...++...
T Consensus       215 ~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~  294 (406)
T 3sf4_A          215 LIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHL  294 (406)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHH
Confidence            431     112233678888899999999999999988654    2222    256778899999999999999998876


Q ss_pred             Hc----CCCCC-hhhHHHHHHHHHHhchhHHHHHHHHHHHhhC----CCCC-ChhhHHHHHHHHHHhh
Q 023915          195 AT----GYRID-QGIFHIAIARYIAEREKKELLLKLLEWMTGQ----GYVV-DSSTRNLILKNSHLFG  252 (275)
Q Consensus       195 ~~----g~~p~-~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~----~~~p-~~~t~~~li~~~~~~g  252 (275)
                      +.    +-.+. ..++..+-..|. ..|++++|.+.+++..+.    +-.+ ...++..+-..+...|
T Consensus       295 ~~~~~~~~~~~~~~~~~~la~~~~-~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g  361 (406)
T 3sf4_A          295 AIAQELNDRIGEGRACWSLGNAYT-ALGNHDQAMHFAEKHLEISREVGDKSGELTARLNLSDLQMVLG  361 (406)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHH-HHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhcCCcHHHHHHHHHHHHHHH-HcCCHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHHhh
Confidence            53    21111 346667777765 679999999999886542    2222 2456666666776666

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.21  E-value=4.1e-09  Score=86.40  Aligned_cols=222  Identities=8%  Similarity=-0.027  Sum_probs=149.9

Q ss_pred             hhhcCcHHHHHHHHHHHHhcCC-CC----cHHhHHHHHHHHHccCCHHHHHHHHHHHhhc----C-CCC-ChhhHHHHHH
Q 023915            5 FCRGGCFEEAKQLAGDFEAKYD-KY----DVVLLNSMLCAYCRTGDMESVMHVMRKLDEL----A-ISP-DYNTFHILIK   73 (275)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~g~-~p----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g-~~p-~~~t~~~li~   73 (275)
                      +...|++++|...|+....... .+    ...++..+-..|...|+++.|+..+++..+.    + ..+ ...+++.+..
T Consensus       111 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~  190 (378)
T 3q15_A          111 EFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFVIAG  190 (378)
T ss_dssp             HHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHHH
T ss_pred             HHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHHHHH
Confidence            4577889999999888875311 11    2456788888888889999988888877642    1 111 2456778888


Q ss_pred             HHHccCCHHHHHHHHHHHHHc----CCCC-CHHhHHHHHHHHhccCCHHHHHHHHHHHHh-----ccccccHHhHHHHHH
Q 023915           74 YFCKEKMYILAYRTMVDMHRK----GHQP-EEELCSSLIFHLGKMRAHSEALSVYNMLRY-----SKRSMCKALHEKILH  143 (275)
Q Consensus        74 ~~~~~~~~~~a~~~~~~m~~~----g~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~~~~~~~~~~~~li~  143 (275)
                      .|...|+++.|...|++..+.    +-.+ ...++..+-..|...|++++|...+++...     ..... ..++..+-.
T Consensus       191 ~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~-~~~~~~la~  269 (378)
T 3q15_A          191 NYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLL-PKVLFGLSW  269 (378)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGH-HHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhH-HHHHHHHHH
Confidence            888889999998888887643    2111 124677788888888999999888887765     33333 567777888


Q ss_pred             HHHhccchHHHHHHHHHhhcC----CChh---HHHHHHHHHHhcCC---hhHHHHHHHHHHHcCCCCChh-hHHHHHHHH
Q 023915          144 ILISGKLLKDAYVVVKDNSES----ISHP---AIKKFASAFVRLGN---INLVNDVMKAIHATGYRIDQG-IFHIAIARY  212 (275)
Q Consensus       144 ~~~~~~~~~~a~~~~~~~~~~----~~~~---~~~~li~~~~~~~~---~~~a~~~~~~m~~~g~~p~~~-~y~~li~~~  212 (275)
                      .+.+.|++++|...+++....    +++.   .+..+-..|...++   +.+|...++.   .+..|+.. .+..+-..|
T Consensus       270 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~---~~~~~~~~~~~~~la~~y  346 (378)
T 3q15_A          270 TLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEK---KNLHAYIEACARSAAAVF  346 (378)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHH---TTCHHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHh---CCChhHHHHHHHHHHHHH
Confidence            888889999998888876541    1211   34455556666677   5566655544   33344433 444555555


Q ss_pred             HHhchhHHHHHHHHHHHhh
Q 023915          213 IAEREKKELLLKLLEWMTG  231 (275)
Q Consensus       213 ~~~~~~~~~a~~l~~~m~~  231 (275)
                      . ..|++++|.+.|++..+
T Consensus       347 ~-~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          347 E-SSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             H-HTTCHHHHHHHHHHHHH
T ss_pred             H-HCCCHHHHHHHHHHHHH
Confidence            4 67888888888887643

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.21  E-value=9.2e-10  Score=87.86  Aligned_cols=229  Identities=9%  Similarity=-0.036  Sum_probs=170.4

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhc----CCCC-cHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCC-CCC----hhhHHHHH
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAK----YDKY-DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAI-SPD----YNTFHILI   72 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~----g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~-~p~----~~t~~~li   72 (275)
                      ..+...|++++|.+.++.....    +..| ...++..+...+...|++++|.+.+++..+..- .++    ..++..+.
T Consensus        51 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~  130 (338)
T 3ro2_A           51 NAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLG  130 (338)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHH
Confidence            4577889999999999886543    2222 356788999999999999999999988765311 112    34788888


Q ss_pred             HHHHccCC--------------------HHHHHHHHHHHHHc----CCCC-CHHhHHHHHHHHhccCCHHHHHHHHHHHH
Q 023915           73 KYFCKEKM--------------------YILAYRTMVDMHRK----GHQP-EEELCSSLIFHLGKMRAHSEALSVYNMLR  127 (275)
Q Consensus        73 ~~~~~~~~--------------------~~~a~~~~~~m~~~----g~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~  127 (275)
                      ..+...|+                    ++.|...+++....    +..| ...++..+...+...|++++|...++...
T Consensus       131 ~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~  210 (338)
T 3ro2_A          131 NVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRL  210 (338)
T ss_dssp             HHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            89999999                    99999999887542    2222 23477888889999999999999999876


Q ss_pred             hcc-----ccccHHhHHHHHHHHHhccchHHHHHHHHHhhc----CCCh----hHHHHHHHHHHhcCChhHHHHHHHHHH
Q 023915          128 YSK-----RSMCKALHEKILHILISGKLLKDAYVVVKDNSE----SISH----PAIKKFASAFVRLGNINLVNDVMKAIH  194 (275)
Q Consensus       128 ~~~-----~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~----~~~~----~~~~~li~~~~~~~~~~~a~~~~~~m~  194 (275)
                      ...     .......+..+...+...|++++|...+++...    ...+    ..+..+...|...|++++|...++...
T Consensus       211 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~  290 (338)
T 3ro2_A          211 LIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHL  290 (338)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            431     122233677888899999999999999988654    2222    256778889999999999999998876


Q ss_pred             Hc----CCCCC-hhhHHHHHHHHHHhchhHHHHHHHHHHHhhC
Q 023915          195 AT----GYRID-QGIFHIAIARYIAEREKKELLLKLLEWMTGQ  232 (275)
Q Consensus       195 ~~----g~~p~-~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~  232 (275)
                      +.    +-.+. ..++..+...|. ..|++++|...+++....
T Consensus       291 ~~~~~~~~~~~~~~~~~~la~~~~-~~g~~~~A~~~~~~a~~~  332 (338)
T 3ro2_A          291 AIAQELKDRIGEGRACWSLGNAYT-ALGNHDQAMHFAEKHLEI  332 (338)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHH-HHTCHHHHHHHHHHHHHC
T ss_pred             HHHHhcCCcHHHHHHHHHHHHHHH-HcCChHHHHHHHHHHHHH
Confidence            53    21111 336667777775 779999999999988653

>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=99.21  E-value=2e-09  Score=95.20  Aligned_cols=163  Identities=15%  Similarity=0.102  Sum_probs=137.4

Q ss_pred             cHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCC-hhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHH
Q 023915           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLI  107 (275)
Q Consensus        29 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li  107 (275)
                      +...|+.|-..+.+.|++++|++.|++..+  +.|+ ..+|..+-..|.+.|++++|+..|++..+.. +-+..+|..+-
T Consensus         8 ~a~al~nLG~~~~~~G~~~eAi~~~~kAl~--l~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~-P~~~~a~~nLg   84 (723)
T 4gyw_A            8 HADSLNNLANIKREQGNIEEAVRLYRKALE--VFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYSNMG   84 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            456899999999999999999999999887  4465 5678899999999999999999999998763 23467899999


Q ss_pred             HHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhc--CCChhHHHHHHHHHHhcCChhH
Q 023915          108 FHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSE--SISHPAIKKFASAFVRLGNINL  185 (275)
Q Consensus       108 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~  185 (275)
                      .+|.+.|++++|.+.|++..+.... ....|..+-..+...|++++|++.|++..+  ...+..+..+...|...|++++
T Consensus        85 ~~l~~~g~~~~A~~~~~kAl~l~P~-~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~~~~a~~~L~~~l~~~g~~~~  163 (723)
T 4gyw_A           85 NTLKEMQDVQGALQCYTRAIQINPA-FADAHSNLASIHKDSGNIPEAIASYRTALKLKPDFPDAYCNLAHCLQIVCDWTD  163 (723)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCCTT
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHhhhhhHHHhcccHHH
Confidence            9999999999999999988765433 355788899999999999999999998765  3345588899999999999999


Q ss_pred             HHHHHHHHHH
Q 023915          186 VNDVMKAIHA  195 (275)
Q Consensus       186 a~~~~~~m~~  195 (275)
                      |.+.+++..+
T Consensus       164 A~~~~~kal~  173 (723)
T 4gyw_A          164 YDERMKKLVS  173 (723)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9988887654

>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=99.19  E-value=2.2e-08  Score=92.23  Aligned_cols=217  Identities=16%  Similarity=0.145  Sum_probs=126.8

Q ss_pred             hcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHH
Q 023915            7 RGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYR   86 (275)
Q Consensus         7 ~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~   86 (275)
                      ..+++++|.++.+...      +..+|..+-.++...|++++|++.|.+.      -|...|.-++.++.+.|++++|.+
T Consensus      1088 ~i~nldrAiE~Aervn------~p~vWsqLAKAql~~G~~kEAIdsYiKA------dD~say~eVa~~~~~lGkyEEAIe 1155 (1630)
T 1xi4_A         1088 HIGNLDRAYEFAERCN------EPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVK 1155 (1630)
T ss_pred             HHhhHHHHHHHHHhcC------CHHHHHHHHHHHHhCCCHHHHHHHHHhc------CChHHHHHHHHHHHHcCCHHHHHH
Confidence            5566777777766442      4566777777777777777777777443      445556667777777777777777


Q ss_pred             HHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhcCCC
Q 023915           87 TMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSESIS  166 (275)
Q Consensus        87 ~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~  166 (275)
                      .+...++..  ++....+.+..+|++.++++....+.+       .++...|..+-..|-..|++++|..+|...     
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--RESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV----- 1221 (1630)
T ss_pred             HHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHHh-------CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh-----
Confidence            776655543  332233346666666666664332221       112233444555555666666666666653     


Q ss_pred             hhHHHHHHHHHHhcCChhHHHHHHHHHHHc------------------------CCCCChhhHHHHHHHHHHhchhHHHH
Q 023915          167 HPAIKKFASAFVRLGNINLVNDVMKAIHAT------------------------GYRIDQGIFHIAIARYIAEREKKELL  222 (275)
Q Consensus       167 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------------------------g~~p~~~~y~~li~~~~~~~~~~~~a  222 (275)
                       +.|..+...|++.|+++.|.+.++.-...                        ++..+...+..++..|- ..|.+++|
T Consensus      1222 -~ny~rLA~tLvkLge~q~AIEaarKA~n~~aWkev~~acve~~Ef~LA~~cgl~Iiv~~deLeeli~yYe-~~G~feEA 1299 (1630)
T 1xi4_A         1222 -SNFGRLASTLVHLGEYQAAVDGARKANSTRTWKEVCFACVDGKEFRLAQMCGLHIVVHADELEELINYYQ-DRGYFEEL 1299 (1630)
T ss_pred             -hHHHHHHHHHHHhCCHHHHHHHHHHhCCHHHHHHHHHHHhhhhHHHHHHHHHHhhhcCHHHHHHHHHHHH-HcCCHHHH
Confidence             35556666666666666665555432110                        12234556667777664 77889999


Q ss_pred             HHHHHHHhhCCCCCChhhHHHHHHHHHHhh
Q 023915          223 LKLLEWMTGQGYVVDSSTRNLILKNSHLFG  252 (275)
Q Consensus       223 ~~l~~~m~~~~~~p~~~t~~~li~~~~~~g  252 (275)
                      ..+++.-.... +-....|.-+-..+.+..
T Consensus      1300 I~LlE~aL~Le-raH~gmftELaiLyaKy~ 1328 (1630)
T 1xi4_A         1300 ITMLEAALGLE-RAHMGMFTELAILYSKFK 1328 (1630)
T ss_pred             HHHHHHHhccC-hhHhHHHHHHHHHHHhCC
Confidence            99887655433 233456666666666666

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.15  E-value=4.5e-08  Score=79.86  Aligned_cols=251  Identities=12%  Similarity=-0.006  Sum_probs=171.4

Q ss_pred             hhhhcCcHHHHHHHHHHHHhcCCCCcH----HhHHHHHHHHHccCCHHHHHHHHHHHhhcCC-CCC----hhhHHHHHHH
Q 023915            4 AFCRGGCFEEAKQLAGDFEAKYDKYDV----VLLNSMLCAYCRTGDMESVMHVMRKLDELAI-SPD----YNTFHILIKY   74 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~g~~p~~----~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~-~p~----~~t~~~li~~   74 (275)
                      .+...|++++|...+++........+.    .+++.+-..+...|++++|.+.+++.....- .++    ..++..+...
T Consensus        23 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~  102 (373)
T 1hz4_A           23 VAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEI  102 (373)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH
Confidence            355789999999999998775433232    2567777888899999999999988765210 111    2335677788


Q ss_pred             HHccCCHHHHHHHHHHHHHc----CCC--CC-HHhHHHHHHHHhccCCHHHHHHHHHHHHhcc----ccccHHhHHHHHH
Q 023915           75 FCKEKMYILAYRTMVDMHRK----GHQ--PE-EELCSSLIFHLGKMRAHSEALSVYNMLRYSK----RSMCKALHEKILH  143 (275)
Q Consensus        75 ~~~~~~~~~a~~~~~~m~~~----g~~--~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~----~~~~~~~~~~li~  143 (275)
                      +...|+++.|...+++..+.    +..  |. ...+..+-..+...|++++|...+++.....    .......+..+-.
T Consensus       103 ~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~  182 (373)
T 1hz4_A          103 LFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQ  182 (373)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHHHH
Confidence            89999999999999988753    222  32 3456667888899999999999999876432    2123346777888


Q ss_pred             HHHhccchHHHHHHHHHhhc----CCChhHHH-----HHHHHHHhcCChhHHHHHHHHHHHcCCCCC---hhhHHHHHHH
Q 023915          144 ILISGKLLKDAYVVVKDNSE----SISHPAIK-----KFASAFVRLGNINLVNDVMKAIHATGYRID---QGIFHIAIAR  211 (275)
Q Consensus       144 ~~~~~~~~~~a~~~~~~~~~----~~~~~~~~-----~li~~~~~~~~~~~a~~~~~~m~~~g~~p~---~~~y~~li~~  211 (275)
                      .+...|++++|...+++...    ...+..+.     .....+...|++++|...++........+.   ...+..+...
T Consensus       183 ~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la~~  262 (373)
T 1hz4_A          183 CSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARA  262 (373)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHHHHHH
Confidence            88999999999999988653    12222222     233457789999999999988765332111   2245566666


Q ss_pred             HHHhchhHHHHHHHHHHHhh----CCCCCCh-hhHHHHHHHHHHhhHHH
Q 023915          212 YIAEREKKELLLKLLEWMTG----QGYVVDS-STRNLILKNSHLFGRQL  255 (275)
Q Consensus       212 ~~~~~~~~~~a~~l~~~m~~----~~~~p~~-~t~~~li~~~~~~g~~~  255 (275)
                      +. ..|++++|...+++...    .|..++. ..+..+-.++...|+..
T Consensus       263 ~~-~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  310 (373)
T 1hz4_A          263 QI-LLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKS  310 (373)
T ss_dssp             HH-HTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHH
T ss_pred             HH-HcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHH
Confidence            65 66999999999987743    2333333 25555666677777333

>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=99.15  E-value=2.9e-08  Score=75.18  Aligned_cols=204  Identities=11%  Similarity=-0.043  Sum_probs=141.5

Q ss_pred             cHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHH
Q 023915           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIF  108 (275)
Q Consensus        29 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~  108 (275)
                      |+..+...-..+...|++++|++.|++..+..-.++...+..+...+.+.|++++|...+++..+.. +-+..++..+..
T Consensus         6 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~   84 (228)
T 4i17_A            6 DPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKN-YNLANAYIGKSA   84 (228)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-CSHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhC-cchHHHHHHHHH
Confidence            5677888888888899999999999988875433667777778888889999999999999888653 224567888888


Q ss_pred             HHhccCCHHHHHHHHHHHHhcccccc-H-----HhHHHHHHHHHhccchHHHHHHHHHhhcCCCh----hHHHHHHHHHH
Q 023915          109 HLGKMRAHSEALSVYNMLRYSKRSMC-K-----ALHEKILHILISGKLLKDAYVVVKDNSESISH----PAIKKFASAFV  178 (275)
Q Consensus       109 ~~~~~g~~~~a~~~~~~m~~~~~~~~-~-----~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~----~~~~~li~~~~  178 (275)
                      .|.+.|++++|...++......+... .     ..|..+-..+...|++++|...+++.....+.    ..+..+...|.
T Consensus        85 ~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~  164 (228)
T 4i17_A           85 AYRDMKNNQEYIATLTEGIKAVPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDVTSKKWKTDALYSLGVLFY  164 (228)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSSCHHHHHHHHHHHHHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhcCCCcccHHHHHHHHHHHH
Confidence            88999999999999988775433211 1     34666777778889999999999987764332    34555555554


Q ss_pred             hcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhchhHHHHHHHHHHHhhCCCCCChhhHHHH
Q 023915          179 RLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTGQGYVVDSSTRNLI  244 (275)
Q Consensus       179 ~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~~~~p~~~t~~~l  244 (275)
                      ..|     ..+++.+...+ ..+...|......   ..+.+++|...+++..+.  .|+......+
T Consensus       165 ~~~-----~~~~~~a~~~~-~~~~~~~~~~~~~---~~~~~~~A~~~~~~a~~l--~p~~~~~~~~  219 (228)
T 4i17_A          165 NNG-----ADVLRKATPLA-SSNKEKYASEKAK---ADAAFKKAVDYLGEAVTL--SPNRTEIKQM  219 (228)
T ss_dssp             HHH-----HHHHHHHGGGT-TTCHHHHHHHHHH---HHHHHHHHHHHHHHHHHH--CTTCHHHHHH
T ss_pred             HHH-----HHHHHHHHhcc-cCCHHHHHHHHHH---HHHHHHHHHHHHHHHhhc--CCCCHHHHHH
Confidence            443     33445554443 2344555555433   347788899999988764  4654443333

>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=99.15  E-value=3.4e-09  Score=72.74  Aligned_cols=128  Identities=14%  Similarity=0.032  Sum_probs=68.5

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHh
Q 023915           32 LLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLG  111 (275)
Q Consensus        32 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  111 (275)
                      .|..+...+...|++++|.++|+++.+.+ +.+...+..+...+...|+++.|...++++.+.+ +.+...+..+...+.
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            34455555555566666666665555432 1234445555555555666666666666655443 233445555555566


Q ss_pred             ccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhh
Q 023915          112 KMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNS  162 (275)
Q Consensus       112 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~  162 (275)
                      +.|++++|.+.++.+...... +...+..+...+...|++++|...++++.
T Consensus        81 ~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~  130 (136)
T 2fo7_A           81 KQGDYDEAIEYYQKALELDPR-SAEAWYNLGNAYYKQGDYDEAIEYYQKAL  130 (136)
T ss_dssp             TTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHHccHHHHHHHHHHHH
Confidence            666666666666655443221 23345555555666666666666665543

>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=99.13  E-value=3.8e-09  Score=93.41  Aligned_cols=155  Identities=13%  Similarity=0.016  Sum_probs=133.7

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCC-hhhHHHHHHHHHccCCH
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMY   81 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~   81 (275)
                      ..|.+.|++++|++.|++..+.... +...|+.+-.+|.+.|++++|++.|++..+  +.|+ ...|..+...+.+.|++
T Consensus        17 ~~~~~~G~~~eAi~~~~kAl~l~P~-~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~--l~P~~~~a~~nLg~~l~~~g~~   93 (723)
T 4gyw_A           17 NIKREQGNIEEAVRLYRKALEVFPE-FAAAHSNLASVLQQQGKLQEALMHYKEAIR--ISPTFADAYSNMGNTLKEMQDV   93 (723)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCCH
Confidence            4577899999999999999987544 678999999999999999999999999987  4465 56899999999999999


Q ss_pred             HHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHh
Q 023915           82 ILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDN  161 (275)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  161 (275)
                      ++|++.|++..+.. +-+..+|..+-.+|.+.|++++|++.|++..+.... ....+..+...+...|++++|.+.+++.
T Consensus        94 ~~A~~~~~kAl~l~-P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~-~~~a~~~L~~~l~~~g~~~~A~~~~~ka  171 (723)
T 4gyw_A           94 QGALQCYTRAIQIN-PAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPD-FPDAYCNLAHCLQIVCDWTDYDERMKKL  171 (723)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCCTTHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-ChHHHhhhhhHHHhcccHHHHHHHHHHH
Confidence            99999999998763 334679999999999999999999999988765433 3457888999999999999999888875


Q ss_pred             h
Q 023915          162 S  162 (275)
Q Consensus       162 ~  162 (275)
                      .
T Consensus       172 l  172 (723)
T 4gyw_A          172 V  172 (723)
T ss_dssp             H
T ss_pred             H
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=99.13  E-value=4e-08  Score=90.57  Aligned_cols=214  Identities=9%  Similarity=0.075  Sum_probs=162.6

Q ss_pred             hhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHH
Q 023915            4 AFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYIL   83 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~   83 (275)
                      .+...|.+++|..+|+...     -.....+.++.   ..+++++|.++.++..      +..+|..+..++.+.|++++
T Consensus      1058 Iai~lglyEEAf~IYkKa~-----~~~~A~~VLie---~i~nldrAiE~Aervn------~p~vWsqLAKAql~~G~~kE 1123 (1630)
T 1xi4_A         1058 IAISNELFEEAFAIFRKFD-----VNTSAVQVLIE---HIGNLDRAYEFAERCN------EPAVWSQLAKAQLQKGMVKE 1123 (1630)
T ss_pred             HHHhCCCHHHHHHHHHHcC-----CHHHHHHHHHH---HHhhHHHHHHHHHhcC------CHHHHHHHHHHHHhCCCHHH
Confidence            5677899999999999863     13333455544   6688999999988652      35678899999999999999


Q ss_pred             HHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhc
Q 023915           84 AYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSE  163 (275)
Q Consensus        84 a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  163 (275)
                      |...|.+.      -|...|..++.+|.+.|++++|.+.+....+....+  ...+.+..+|++.+++++....+    .
T Consensus      1124 AIdsYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~~e~--~Idt~LafaYAKl~rleele~fI----~ 1191 (1630)
T 1xi4_A         1124 AIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKARES--YVETELIFALAKTNRLAELEEFI----N 1191 (1630)
T ss_pred             HHHHHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhcccc--cccHHHHHHHHhhcCHHHHHHHH----h
Confidence            99999663      566788999999999999999999999876654332  23445889999999988644443    3


Q ss_pred             CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhchhHHHHHHHHHHHhhCCCCCChhhHHH
Q 023915          164 SISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTGQGYVVDSSTRNL  243 (275)
Q Consensus       164 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~~~~p~~~t~~~  243 (275)
                      .+..+.+..+-..|...|++++|...|...         ..|..+...|+ +.|++++|.+.+++..      +..+|..
T Consensus      1192 ~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLv-kLge~q~AIEaarKA~------n~~aWke 1255 (1630)
T 1xi4_A         1192 GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLV-HLGEYQAAVDGARKAN------STRTWKE 1255 (1630)
T ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHH-HhCCHHHHHHHHHHhC------CHHHHHH
Confidence            455667778999999999999999999874         48889999987 7789999999988662      3455555


Q ss_pred             HHHHHHHhhHHHHHHH
Q 023915          244 ILKNSHLFGRQLIADI  259 (275)
Q Consensus       244 li~~~~~~g~~~~~~~  259 (275)
                      +-.+|...|...+|..
T Consensus      1256 v~~acve~~Ef~LA~~ 1271 (1630)
T 1xi4_A         1256 VCFACVDGKEFRLAQM 1271 (1630)
T ss_pred             HHHHHhhhhHHHHHHH
Confidence            5555555554444433

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.12  E-value=7.3e-09  Score=85.01  Aligned_cols=220  Identities=13%  Similarity=-0.009  Sum_probs=157.4

Q ss_pred             HHHHHHccCCHHHHHHHHHHHhhc----CCCC-ChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCC-CC-----CHHhHH
Q 023915           36 MLCAYCRTGDMESVMHVMRKLDEL----AISP-DYNTFHILIKYFCKEKMYILAYRTMVDMHRKGH-QP-----EEELCS  104 (275)
Q Consensus        36 li~~~~~~g~~~~a~~~~~~m~~~----g~~p-~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~-~~-----~~~~~~  104 (275)
                      .-..+...|++++|++.|++..+.    +-.| ...++..+...|...|+++.|...+++..+.-- .+     ...+++
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            455677899999999999998763    2122 345788899999999999999999999875311 11     134788


Q ss_pred             HHHHHHhccCCHHHHHHHHHHHHhc----c-ccccHHhHHHHHHHHHhccchHHHHHHHHHhhc----CCC-h---hHHH
Q 023915          105 SLIFHLGKMRAHSEALSVYNMLRYS----K-RSMCKALHEKILHILISGKLLKDAYVVVKDNSE----SIS-H---PAIK  171 (275)
Q Consensus       105 ~li~~~~~~g~~~~a~~~~~~m~~~----~-~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~----~~~-~---~~~~  171 (275)
                      .+-..|...|++++|...|+.....    + ......++..+-..|...|++++|...+++...    ... +   ..+.
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            8889999999999999999987643    1 222234778888999999999999999998655    122 2   2677


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHc----CCCCChhhHHHHHHHHHHhchh---HHHHHHHHHHHhhCCCCCC-hhhHHH
Q 023915          172 KFASAFVRLGNINLVNDVMKAIHAT----GYRIDQGIFHIAIARYIAEREK---KELLLKLLEWMTGQGYVVD-SSTRNL  243 (275)
Q Consensus       172 ~li~~~~~~~~~~~a~~~~~~m~~~----g~~p~~~~y~~li~~~~~~~~~---~~~a~~l~~~m~~~~~~p~-~~t~~~  243 (275)
                      .+...|...|++++|...++...+.    +-+.....+..+-..|. ..|+   +++|..++++.   +..|+ ...+..
T Consensus       269 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~-~~~~~~~~~~al~~~~~~---~~~~~~~~~~~~  344 (383)
T 3ulq_A          269 LITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYL-SGPDEEAIQGFFDFLESK---MLYADLEDFAID  344 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT-SSCCHHHHHHHHHHHHHT---TCHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHh-CCCcHHHHHHHHHHHHHC---cCHHHHHHHHHH
Confidence            8889999999999999999886653    11111223455555543 5666   66777777665   33443 456777


Q ss_pred             HHHHHHHhhHHHHHHH
Q 023915          244 ILKNSHLFGRQLIADI  259 (275)
Q Consensus       244 li~~~~~~g~~~~~~~  259 (275)
                      +-..|...|+...|..
T Consensus       345 la~~y~~~g~~~~A~~  360 (383)
T 3ulq_A          345 VAKYYHERKNFQKASA  360 (383)
T ss_dssp             HHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHCCCHHHHHH
Confidence            7888888885444443

>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=99.10  E-value=5.2e-08  Score=73.78  Aligned_cols=148  Identities=9%  Similarity=-0.002  Sum_probs=119.2

Q ss_pred             CChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHH
Q 023915           63 PDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKIL  142 (275)
Q Consensus        63 p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li  142 (275)
                      .|...+......+.+.|++++|...|++..+..-.++...+..+..++.+.|++++|.+.|+......+. ....+..+-
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~   83 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYN-LANAYIGKS   83 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCS-HHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcc-hHHHHHHHH
Confidence            3557788888899999999999999999998764477788888999999999999999999998865443 455788899


Q ss_pred             HHHHhccchHHHHHHHHHhhc-CCC-h-------hHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCC---hhhHHHHHH
Q 023915          143 HILISGKLLKDAYVVVKDNSE-SIS-H-------PAIKKFASAFVRLGNINLVNDVMKAIHATGYRID---QGIFHIAIA  210 (275)
Q Consensus       143 ~~~~~~~~~~~a~~~~~~~~~-~~~-~-------~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~---~~~y~~li~  210 (275)
                      ..+...|++++|...+++... .+. +       ..|..+-..+...|++++|...|+...+.  .|+   ...|..+-.
T Consensus        84 ~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~l~~  161 (228)
T 4i17_A           84 AAYRDMKNNQEYIATLTEGIKAVPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSKKWKTDALYSLGV  161 (228)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHHHHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCCcccHHHHHHHHH
Confidence            999999999999999999776 232 3       23666778888999999999999998774  465   345555555


Q ss_pred             HHH
Q 023915          211 RYI  213 (275)
Q Consensus       211 ~~~  213 (275)
                      .|.
T Consensus       162 ~~~  164 (228)
T 4i17_A          162 LFY  164 (228)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            554

>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=99.08  E-value=1.6e-08  Score=69.29  Aligned_cols=121  Identities=17%  Similarity=0.118  Sum_probs=60.9

Q ss_pred             hhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHH
Q 023915            4 AFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYIL   83 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~   83 (275)
                      .+...|++++|.++|+.+.+.+.. +...+..+...+...|++++|...|+++.+.+ +.+...+..+...+...|+++.
T Consensus        10 ~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~   87 (136)
T 2fo7_A           10 AYYKQGDYDEAIEYYQKALELDPR-SAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDE   87 (136)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHH
T ss_pred             HHHHcCcHHHHHHHHHHHHHcCCc-chhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHHHHhcCHHH
Confidence            344455555555555555544322 34445555555555555555555555554432 1223344455555555555555


Q ss_pred             HHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHH
Q 023915           84 AYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLR  127 (275)
Q Consensus        84 a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  127 (275)
                      |...++++.+.. +.+..++..+...+.+.|++++|...++++.
T Consensus        88 A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~  130 (136)
T 2fo7_A           88 AIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKAL  130 (136)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHH
Confidence            555555555432 2234445555555555555555555555543

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.07  E-value=1.4e-08  Score=80.32  Aligned_cols=205  Identities=12%  Similarity=0.007  Sum_probs=147.9

Q ss_pred             cHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhc----CCCCC-hhhHHHHHHHHHccCCHHHH
Q 023915           10 CFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDEL----AISPD-YNTFHILIKYFCKEKMYILA   84 (275)
Q Consensus        10 ~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p~-~~t~~~li~~~~~~~~~~~a   84 (275)
                      ++++|...|+..               ...|...|++++|.+.|.+..+.    |-.++ ..+|+.+...|.+.|++++|
T Consensus        32 ~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A   96 (292)
T 1qqe_A           32 KFEEAADLCVQA---------------ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNA   96 (292)
T ss_dssp             HHHHHHHHHHHH---------------HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             cHHHHHHHHHHH---------------HHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHH
Confidence            488888887776               44677889999999999887653    32232 56899999999999999999


Q ss_pred             HHHHHHHHHc----CCCCC-HHhHHHHHHHHhcc-CCHHHHHHHHHHHHhccccc-----cHHhHHHHHHHHHhccchHH
Q 023915           85 YRTMVDMHRK----GHQPE-EELCSSLIFHLGKM-RAHSEALSVYNMLRYSKRSM-----CKALHEKILHILISGKLLKD  153 (275)
Q Consensus        85 ~~~~~~m~~~----g~~~~-~~~~~~li~~~~~~-g~~~~a~~~~~~m~~~~~~~-----~~~~~~~li~~~~~~~~~~~  153 (275)
                      +..+++..+.    |-.+. ..++..+-..|... |++++|...|++........     ...++..+-..+...|++++
T Consensus        97 ~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~  176 (292)
T 1qqe_A           97 VDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIE  176 (292)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHH
Confidence            9999988753    21111 35788899999996 99999999999876532211     13468888999999999999


Q ss_pred             HHHHHHHhhcCC-Chh--------HHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChh------hHHHHHHHHH-Hhch
Q 023915          154 AYVVVKDNSESI-SHP--------AIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQG------IFHIAIARYI-AERE  217 (275)
Q Consensus       154 a~~~~~~~~~~~-~~~--------~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~------~y~~li~~~~-~~~~  217 (275)
                      |+..|++..... ..+        .+..+...+...|++++|...|+...+.  .|+..      .+..+...+- ...+
T Consensus       177 A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l--~p~~~~~~~~~~l~~l~~~~~~~~~~  254 (292)
T 1qqe_A          177 ASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSE--DPNFADSRESNFLKSLIDAVNEGDSE  254 (292)
T ss_dssp             HHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC-----------HHHHHHHHHHHHTTCTT
T ss_pred             HHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCCCCcHHHHHHHHHHHHHHcCCHH
Confidence            999999876521 111        3566778889999999999999887653  34322      3445565553 1346


Q ss_pred             hHHHHHHHHHHHhh
Q 023915          218 KKELLLKLLEWMTG  231 (275)
Q Consensus       218 ~~~~a~~l~~~m~~  231 (275)
                      ++++|...|+.+..
T Consensus       255 ~~~~A~~~~~~~~~  268 (292)
T 1qqe_A          255 QLSEHCKEFDNFMR  268 (292)
T ss_dssp             THHHHHHHHTTSSC
T ss_pred             HHHHHHHHhccCCc
Confidence            78888888877644

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.07  E-value=2e-08  Score=79.32  Aligned_cols=197  Identities=11%  Similarity=-0.020  Sum_probs=136.6

Q ss_pred             HHHHHHHHHHhcCCCCcHHhHHHHHHHHHcc--C-CHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHH
Q 023915           13 EAKQLAGDFEAKYDKYDVVLLNSMLCAYCRT--G-DMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMV   89 (275)
Q Consensus        13 ~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~--g-~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~   89 (275)
                      +|.+++.+..+. .+++...| .+.    +.  + ++++|.+.|++.               ...|...|++++|...|+
T Consensus         3 ~a~~~~~~a~k~-~~~~~~~~-~~~----~~~~~~~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~~~~   61 (292)
T 1qqe_A            3 DPVELLKRAEKK-GVPSSGFM-KLF----SGSDSYKFEEAADLCVQA---------------ATIYRLRKELNLAGDSFL   61 (292)
T ss_dssp             CHHHHHHHHHHH-SSCCCTHH-HHH----SCCSHHHHHHHHHHHHHH---------------HHHHHHTTCTHHHHHHHH
T ss_pred             cHHHHHHHHHHH-hCcCCCcc-hhc----CCCCCccHHHHHHHHHHH---------------HHHHHHcCCHHHHHHHHH
Confidence            466777776664 23222223 222    32  2 488888888776               345778899999999998


Q ss_pred             HHHHc----CCCCC-HHhHHHHHHHHhccCCHHHHHHHHHHHHhccc----c-ccHHhHHHHHHHHHhc-cchHHHHHHH
Q 023915           90 DMHRK----GHQPE-EELCSSLIFHLGKMRAHSEALSVYNMLRYSKR----S-MCKALHEKILHILISG-KLLKDAYVVV  158 (275)
Q Consensus        90 ~m~~~----g~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~----~-~~~~~~~~li~~~~~~-~~~~~a~~~~  158 (275)
                      +..+.    |-.++ ..+|+.+-.+|.+.|++++|...++.......    . ....+++.+-..|... |++++|+..+
T Consensus        62 ~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~  141 (292)
T 1qqe_A           62 KAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCY  141 (292)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHH
Confidence            87653    32222 45888899999999999999998887654321    1 1234677888888886 9999999999


Q ss_pred             HHhhc----CCCh----hHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChh------hHHHHHHHHHHhchhHHHHHH
Q 023915          159 KDNSE----SISH----PAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQG------IFHIAIARYIAEREKKELLLK  224 (275)
Q Consensus       159 ~~~~~----~~~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~------~y~~li~~~~~~~~~~~~a~~  224 (275)
                      ++...    ...+    ..+..+...|...|++++|...|+...+........      .|..+...+. ..|++++|..
T Consensus       142 ~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~-~~g~~~~A~~  220 (292)
T 1qqe_A          142 ELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQL-AATDAVAAAR  220 (292)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHH-HTTCHHHHHH
T ss_pred             HHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHH-HcCCHHHHHH
Confidence            88654    2222    256778889999999999999999888753222211      4555555665 6688999999


Q ss_pred             HHHHHhh
Q 023915          225 LLEWMTG  231 (275)
Q Consensus       225 l~~~m~~  231 (275)
                      .|++...
T Consensus       221 ~~~~al~  227 (292)
T 1qqe_A          221 TLQEGQS  227 (292)
T ss_dssp             HHHGGGC
T ss_pred             HHHHHHh
Confidence            9998765

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.06  E-value=6.4e-08  Score=78.96  Aligned_cols=227  Identities=11%  Similarity=-0.062  Sum_probs=159.6

Q ss_pred             hhhhcCcHHHHHHHHHHHHhcCC-CCc----HHhHHHHHHHHHccCCHHHHHHHHHHHhhc----CCC--CC-hhhHHHH
Q 023915            4 AFCRGGCFEEAKQLAGDFEAKYD-KYD----VVLLNSMLCAYCRTGDMESVMHVMRKLDEL----AIS--PD-YNTFHIL   71 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~g~-~p~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~--p~-~~t~~~l   71 (275)
                      .+...|++++|.+.+++...... .++    ..+++.+-..+...|++++|.+.+++..+.    +..  |. ...+..+
T Consensus        62 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l  141 (373)
T 1hz4_A           62 VLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIR  141 (373)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHH
T ss_pred             HHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHH
Confidence            46678999999999998775311 111    234677888899999999999999887653    222  32 3456678


Q ss_pred             HHHHHccCCHHHHHHHHHHHHHcCCCC----CHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccc--cHHhHH----HH
Q 023915           72 IKYFCKEKMYILAYRTMVDMHRKGHQP----EEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSM--CKALHE----KI  141 (275)
Q Consensus        72 i~~~~~~~~~~~a~~~~~~m~~~g~~~----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~--~~~~~~----~l  141 (275)
                      ...+...|+++.|...+++..+..-..    ...++..+...+...|++++|...+++.......+  ......    ..
T Consensus       142 a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~  221 (373)
T 1hz4_A          142 AQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVR  221 (373)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHH
Confidence            888999999999999999987643221    23467778888999999999999999876432111  111111    23


Q ss_pred             HHHHHhccchHHHHHHHHHhhcCCCh------hHHHHHHHHHHhcCChhHHHHHHHHHHHc----CCCCChh-hHHHHHH
Q 023915          142 LHILISGKLLKDAYVVVKDNSESISH------PAIKKFASAFVRLGNINLVNDVMKAIHAT----GYRIDQG-IFHIAIA  210 (275)
Q Consensus       142 i~~~~~~~~~~~a~~~~~~~~~~~~~------~~~~~li~~~~~~~~~~~a~~~~~~m~~~----g~~p~~~-~y~~li~  210 (275)
                      ...+...|++++|...+++.......      ..+..+...+...|++++|...++.....    |..++.. .+..+-.
T Consensus       222 ~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~  301 (373)
T 1hz4_A          222 VIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQ  301 (373)
T ss_dssp             HHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHH
Confidence            34477899999999999987653221      13566778899999999999999886553    3222222 4454555


Q ss_pred             HHHHhchhHHHHHHHHHHHhh
Q 023915          211 RYIAEREKKELLLKLLEWMTG  231 (275)
Q Consensus       211 ~~~~~~~~~~~a~~l~~~m~~  231 (275)
                      .+. ..|+.++|...+++...
T Consensus       302 ~~~-~~g~~~~A~~~l~~al~  321 (373)
T 1hz4_A          302 LYW-QAGRKSDAQRVLLDALK  321 (373)
T ss_dssp             HHH-HHTCHHHHHHHHHHHHH
T ss_pred             HHH-HhCCHHHHHHHHHHHHH
Confidence            554 67889999998887654

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.04  E-value=7.5e-08  Score=82.55  Aligned_cols=185  Identities=10%  Similarity=0.016  Sum_probs=145.2

Q ss_pred             cCcHH-------HHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCh--hhHHHHHHHHHcc
Q 023915            8 GGCFE-------EAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDY--NTFHILIKYFCKE   78 (275)
Q Consensus         8 ~g~~~-------~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~--~t~~~li~~~~~~   78 (275)
                      .|+++       +|..+|+...+.-.+-+...|..+...+.+.|++++|.++|+...+  +.|+.  ..|...+..+.+.
T Consensus       292 ~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~~~~~~~~~~  369 (530)
T 2ooe_A          292 KGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLA--IEDIDPTLVYIQYMKFARRA  369 (530)
T ss_dssp             TTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--SSSSCHHHHHHHHHHHHHHH
T ss_pred             ccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhC--ccccCchHHHHHHHHHHHHh
Confidence            68876       8999999988621223678999999999999999999999999988  45653  4788899999999


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHhHHHHHH-HHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHH
Q 023915           79 KMYILAYRTMVDMHRKGHQPEEELCSSLIF-HLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVV  157 (275)
Q Consensus        79 ~~~~~a~~~~~~m~~~g~~~~~~~~~~li~-~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~  157 (275)
                      |+++.|..+|++..+.. +.+...|..... .+...|+.++|..+|+......+ -+...|..++..+.+.|+.++|..+
T Consensus       370 ~~~~~A~~~~~~Al~~~-~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~p-~~~~~~~~~~~~~~~~g~~~~Ar~~  447 (530)
T 2ooe_A          370 EGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYG-DIPEYVLAYIDYLSHLNEDNNTRVL  447 (530)
T ss_dssp             HHHHHHHHHHHHHHTCT-TCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHTTTTCHHHHHHH
T ss_pred             cCHHHHHHHHHHHHhcc-CCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHCC-CCHHHHHHHHHHHHhCCCHhhHHHH
Confidence            99999999999998652 222333332222 23468999999999998776532 3456888999999999999999999


Q ss_pred             HHHhhcC-C-Chh----HHHHHHHHHHhcCChhHHHHHHHHHHHc
Q 023915          158 VKDNSES-I-SHP----AIKKFASAFVRLGNINLVNDVMKAIHAT  196 (275)
Q Consensus       158 ~~~~~~~-~-~~~----~~~~li~~~~~~~~~~~a~~~~~~m~~~  196 (275)
                      |++.... + ++.    .|...+......|+.+.+..+++.+.+.
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            9997763 2 222    6777888888999999999999888764

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.01  E-value=9.1e-08  Score=75.31  Aligned_cols=184  Identities=8%  Similarity=-0.037  Sum_probs=120.0

Q ss_pred             HHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCC-CCHHhHHHHHHHHhccCCHHHHHHHHHHHH
Q 023915           49 VMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQ-PEEELCSSLIFHLGKMRAHSEALSVYNMLR  127 (275)
Q Consensus        49 a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  127 (275)
                      |+..|++..+.+ .++..++..+..++...|++++|++++.+....|-. -+...+..++..+.+.|+.+.|.+.++.|.
T Consensus        85 a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~  163 (310)
T 3mv2_B           85 NIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYT  163 (310)
T ss_dssp             CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            455566665544 455566667778888889999999999887665532 345577788888999999999999998887


Q ss_pred             hccc---cccHHhHHHHHHHH----HhccchHHHHHHHHHhhcCCCh-hHHHHHHHHHHhcCChhHHHHHHHHHHHc---
Q 023915          128 YSKR---SMCKALHEKILHIL----ISGKLLKDAYVVVKDNSESISH-PAIKKFASAFVRLGNINLVNDVMKAIHAT---  196 (275)
Q Consensus       128 ~~~~---~~~~~~~~~li~~~----~~~~~~~~a~~~~~~~~~~~~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~---  196 (275)
                      ....   ..+..+...+..++    ...++..+|+.+|+++...... .+...++.++...|++++|+..++.+.+.   
T Consensus       164 ~~~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~~~p~  243 (310)
T 3mv2_B          164 NAIEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQTFPTWKTQLGLLNLHLQQRNIAEAQGIVELLLSDYYS  243 (310)
T ss_dssp             HHSCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTTSCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHSHHHH
T ss_pred             hcCccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhccc
Confidence            6533   11233344444442    2344888999999988765432 23445555888889999999998866543   


Q ss_pred             --CC---CC-ChhhHHHHHHHHHHhchhHHHHHHHHHHHhhCCCCCCh
Q 023915          197 --GY---RI-DQGIFHIAIARYIAEREKKELLLKLLEWMTGQGYVVDS  238 (275)
Q Consensus       197 --g~---~p-~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~~~~p~~  238 (275)
                        +-   .| |..+...+|.... ..|+  ++.+++++++..  .|+.
T Consensus       244 ~~~k~~~~p~~~~~LaN~i~l~~-~lgk--~a~~l~~qL~~~--~P~h  286 (310)
T 3mv2_B          244 VEQKENAVLYKPTFLANQITLAL-MQGL--DTEDLTNQLVKL--DHEH  286 (310)
T ss_dssp             TTTCHHHHSSHHHHHHHHHHHHH-HTTC--TTHHHHHHHHHT--TCCC
T ss_pred             ccccccCCCCCHHHHHHHHHHHH-HhCh--HHHHHHHHHHHh--CCCC
Confidence              00   13 4455533433322 4455  688888888774  3553

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.00  E-value=3.7e-08  Score=77.54  Aligned_cols=180  Identities=8%  Similarity=-0.007  Sum_probs=130.4

Q ss_pred             HHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCC-CChhhHHHHHHHHHccCCHHHHHHHHHHHH
Q 023915           14 AKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAIS-PDYNTFHILIKYFCKEKMYILAYRTMVDMH   92 (275)
Q Consensus        14 a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~-p~~~t~~~li~~~~~~~~~~~a~~~~~~m~   92 (275)
                      |...|++....+ .++..++..+-.++...|++++|++++.+-...|-. -+...+..++..+.+.|+.+.|.+.++.|.
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            556666666544 456666678889999999999999999987664421 255677888999999999999999999998


Q ss_pred             HcCCCC-----CHHhHHHHHHHHh--ccC--CHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhc
Q 023915           93 RKGHQP-----EEELCSSLIFHLG--KMR--AHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSE  163 (275)
Q Consensus        93 ~~g~~~-----~~~~~~~li~~~~--~~g--~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  163 (275)
                      +.  .|     +..+...+..++.  ..|  +...|..+|+++......  ......++.++...|++++|.+.++.+..
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--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQTFPT--WKTQLGLLNLHLQQRNIAEAQGIVELLLS  239 (310)
T ss_dssp             HH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTTSCS--HHHHHHHHHHHHHHTCHHHHHHHHHHHHS
T ss_pred             hc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhCCC--cccHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            75  56     3566666776633  334  899999999998766433  11223344488899999999999987554


Q ss_pred             ------------CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCh
Q 023915          164 ------------SISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQ  202 (275)
Q Consensus       164 ------------~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~  202 (275)
                                  ..++.++..+|......|+  .|.+++.++++.  .|+.
T Consensus       240 ~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~--~P~h  286 (310)
T 3mv2_B          240 DYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKL--DHEH  286 (310)
T ss_dssp             HHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHT--TCCC
T ss_pred             hcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHh--CCCC
Confidence                        2233355455555555676  889999999885  3654

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=98.99  E-value=5.7e-08  Score=75.26  Aligned_cols=189  Identities=8%  Similarity=0.022  Sum_probs=125.7

Q ss_pred             cHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCC----hhhHHHHHHHHHccCCHHHHHHHHHHHHHcCC-CCC-HHh
Q 023915           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD----YNTFHILIKYFCKEKMYILAYRTMVDMHRKGH-QPE-EEL  102 (275)
Q Consensus        29 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~----~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~-~~~-~~~  102 (275)
                      +...+-.+-..+.+.|++++|++.|++..+..  |+    ...+..+...+.+.|+++.|...|+...+..- .|. ..+
T Consensus        14 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~--p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a   91 (261)
T 3qky_A           14 SPQEAFERAMEFYNQGKYDRAIEYFKAVFTYG--RTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQA   91 (261)
T ss_dssp             SHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGC--SCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHH
T ss_pred             CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC--CCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHH
Confidence            45566667777778888888888888887642  43    45666777788888888888888888876531 122 345


Q ss_pred             HHHHHHHHhc--------cCCHHHHHHHHHHHHhccccc-cH-Hh--------------HHHHHHHHHhccchHHHHHHH
Q 023915          103 CSSLIFHLGK--------MRAHSEALSVYNMLRYSKRSM-CK-AL--------------HEKILHILISGKLLKDAYVVV  158 (275)
Q Consensus       103 ~~~li~~~~~--------~g~~~~a~~~~~~m~~~~~~~-~~-~~--------------~~~li~~~~~~~~~~~a~~~~  158 (275)
                      +..+..++.+        .|++++|...|+......+.. .. ..              +..+-..|...|++++|...|
T Consensus        92 ~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  171 (261)
T 3qky_A           92 EYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRYPNHELVDDATQKIRELRAKLARKQYEAARLYERRELYEAAAVTY  171 (261)
T ss_dssp             HHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHCcCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHH
Confidence            6667777777        788888888888776543221 11 11              145567888999999999999


Q ss_pred             HHhhc-CCCh----hHHHHHHHHHHhc----------CChhHHHHHHHHHHHcCCCCChh----hHHHHHHHHHHhchhH
Q 023915          159 KDNSE-SISH----PAIKKFASAFVRL----------GNINLVNDVMKAIHATGYRIDQG----IFHIAIARYIAEREKK  219 (275)
Q Consensus       159 ~~~~~-~~~~----~~~~~li~~~~~~----------~~~~~a~~~~~~m~~~g~~p~~~----~y~~li~~~~~~~~~~  219 (275)
                      ++... .+..    ..+..+..+|...          |++++|...|+.+.+..  |+..    ....+-.. ....+++
T Consensus       172 ~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~a~~~l~~~-~~~~~~~  248 (261)
T 3qky_A          172 EAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIF--PDSPLLRTAEELYTRA-RQRLTEL  248 (261)
T ss_dssp             HHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHC--TTCTHHHHHHHHHHHH-HHHHHHH
T ss_pred             HHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHC--CCChHHHHHHHHHHHH-HHHHHHh
Confidence            98765 2322    2456666777766          88899999999988753  5542    33333333 2344555


Q ss_pred             HHH
Q 023915          220 ELL  222 (275)
Q Consensus       220 ~~a  222 (275)
                      +.+
T Consensus       249 ~~~  251 (261)
T 3qky_A          249 EGD  251 (261)
T ss_dssp             HTC
T ss_pred             hhh
Confidence            543

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=98.99  E-value=3.2e-07  Score=77.12  Aligned_cols=250  Identities=12%  Similarity=-0.031  Sum_probs=159.0

Q ss_pred             cCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHH---HHccCCHHHHHHHHHHHhhcCCCCC-hhhHHHHHHHHHc----cC
Q 023915            8 GGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCA---YCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCK----EK   79 (275)
Q Consensus         8 ~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~---~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~----~~   79 (275)
                      .+++++|.+.|+...+..+. +...+..+..+   +...++.++|++.|++..+.  .|+ ..++..+...+..    .+
T Consensus       151 ~~~y~~A~~~~~kal~~~p~-~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l--~p~~~~~~~~l~~~~~~~~~~~~  227 (472)
T 4g1t_A          151 GNQNERAKVCFEKALEKKPK-NPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRL--NPDNQYLKVLLALKLHKMREEGE  227 (472)
T ss_dssp             TTHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHH--CSSCHHHHHHHHHHHHHCC----
T ss_pred             cccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhc--CCcchHHHHHHHHHHHHHHhhhh
Confidence            35799999999999886543 44455444444   44567788899999887763  354 3445555444443    46


Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHh------------
Q 023915           80 MYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILIS------------  147 (275)
Q Consensus        80 ~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~------------  147 (275)
                      +.+.|.+++++..... +.+..++..+...|.+.|++++|...++......+.. ...+..+-..|..            
T Consensus       228 ~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~-~~~~~~lg~~y~~~~~~~~~~~~~~  305 (472)
T 4g1t_A          228 EEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYIPNN-AYLHCQIGCCYRAKVFQVMNLRENG  305 (472)
T ss_dssp             --CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTC-HHHHHHHHHHHHHHHHHHHHC----
T ss_pred             HHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhCCCh-HHHHHHHHHHHHHHHHHhhhHHHHH
Confidence            7788999999988754 4456788899999999999999999999887654332 3344444333322            


Q ss_pred             -------ccchHHHHHHHHHhhc--CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChh--hHHHHHHHHHHhc
Q 023915          148 -------GKLLKDAYVVVKDNSE--SISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQG--IFHIAIARYIAER  216 (275)
Q Consensus       148 -------~~~~~~a~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~--~y~~li~~~~~~~  216 (275)
                             .+..+.|...+++...  ......+..+...|...|++++|...|+...+....|...  .+..+...+....
T Consensus       306 ~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~  385 (472)
T 4g1t_A          306 MYGKRKLLELIGHAVAHLKKADEANDNLFRVCSILASLHALADQYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQM  385 (472)
T ss_dssp             --CHHHHHHHHHHHHHHHHHHHHHCTTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTS
T ss_pred             HHHHHHHHhhHHHHHHHHHHHhhcCCchhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHC
Confidence                   2335667777777554  3334478888999999999999999999988765333221  2222222222356


Q ss_pred             hhHHHHHHHHHHHhhCC-----------------------CCCChhhHHHHHHHHHHhhHHHHHHHHhc
Q 023915          217 EKKELLLKLLEWMTGQG-----------------------YVVDSSTRNLILKNSHLFGRQLIADILSK  262 (275)
Q Consensus       217 ~~~~~a~~l~~~m~~~~-----------------------~~p~~~t~~~li~~~~~~g~~~~~~~~~~  262 (275)
                      |++++|...|++..+..                       -+.+..+|..+=..+...|+...|....+
T Consensus       386 ~~~~~Ai~~y~kal~i~~~~~~~~~~~~~l~~~~~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A~~~y~  454 (472)
T 4g1t_A          386 KCEDKAIHHFIEGVKINQKSREKEKMKDKLQKIAKMRLSKNGADSEALHVLAFLQELNEKMQQADEDSE  454 (472)
T ss_dssp             SCHHHHHHHHHHHHHSCCCCHHHHHHHHHHHHHHHHHHHHCC-CTTHHHHHHHHHHHHHHCC-------
T ss_pred             CCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            88888988887765421                       12345677777777777775555444443

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=98.96  E-value=2.8e-07  Score=69.14  Aligned_cols=155  Identities=14%  Similarity=-0.023  Sum_probs=77.7

Q ss_pred             HHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccC----CHHHHHHHH
Q 023915           13 EAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEK----MYILAYRTM   88 (275)
Q Consensus        13 ~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~----~~~~a~~~~   88 (275)
                      +|++.|+...+.|   +...+..|-..|...+++++|++.|++..+.|   +...+..|-..|.. +    ++++|...|
T Consensus         4 eA~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~   76 (212)
T 3rjv_A            4 EPGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLA   76 (212)
T ss_dssp             CTTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHH
T ss_pred             hHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHH
Confidence            3455555555543   55556666666666666666666666665543   33444445555555 4    566666666


Q ss_pred             HHHHHcCCCCCHHhHHHHHHHHhc----cCCHHHHHHHHHHHHhcccc-ccHHhHHHHHHHHHh----ccchHHHHHHHH
Q 023915           89 VDMHRKGHQPEEELCSSLIFHLGK----MRAHSEALSVYNMLRYSKRS-MCKALHEKILHILIS----GKLLKDAYVVVK  159 (275)
Q Consensus        89 ~~m~~~g~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~-~~~~~~~~li~~~~~----~~~~~~a~~~~~  159 (275)
                      ++..+.|   +..++..|-..|..    .++.++|.+.|+.....+.. .....+..+-..|..    .++.++|...|+
T Consensus        77 ~~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~  153 (212)
T 3rjv_A           77 EKAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFK  153 (212)
T ss_dssp             HHHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHH
T ss_pred             HHHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHH
Confidence            6665543   33344445555544    45555555555555444331 012233334444444    444555555555


Q ss_pred             HhhcC-CChhHHHHHHHHH
Q 023915          160 DNSES-ISHPAIKKFASAF  177 (275)
Q Consensus       160 ~~~~~-~~~~~~~~li~~~  177 (275)
                      +.... +.+..+..+-..|
T Consensus       154 ~A~~~~~~~~a~~~Lg~~y  172 (212)
T 3rjv_A          154 GSSSLSRTGYAEYWAGMMF  172 (212)
T ss_dssp             HHHHTSCTTHHHHHHHHHH
T ss_pred             HHHHcCCCHHHHHHHHHHH
Confidence            54433 3333333333333

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=98.94  E-value=4.9e-07  Score=67.79  Aligned_cols=178  Identities=11%  Similarity=0.001  Sum_probs=140.1

Q ss_pred             HHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccC----CHHHHHHH
Q 023915           47 ESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMR----AHSEALSV  122 (275)
Q Consensus        47 ~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g----~~~~a~~~  122 (275)
                      .+|++.|++..+.|   +...+..+-..|...+++++|...|++..+.|   +...+..|-..|.. +    +.++|.+.
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            35677788877763   56677788888889999999999999998876   45677778888888 7    89999999


Q ss_pred             HHHHHhccccccHHhHHHHHHHHHh----ccchHHHHHHHHHhhcCCC----hhHHHHHHHHHHh----cCChhHHHHHH
Q 023915          123 YNMLRYSKRSMCKALHEKILHILIS----GKLLKDAYVVVKDNSESIS----HPAIKKFASAFVR----LGNINLVNDVM  190 (275)
Q Consensus       123 ~~~m~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~~~~~~~----~~~~~~li~~~~~----~~~~~~a~~~~  190 (275)
                      |+.....+.   ...+..+-..|..    .+++++|..+|++..+..+    +..+..|-..|..    .+++++|...|
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 AEKAVEAGS---KSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYF  152 (212)
T ss_dssp             HHHHHHTTC---HHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHH
T ss_pred             HHHHHHCCC---HHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHH
Confidence            999876543   3355666666766    7899999999999988777    6788888888888    78999999999


Q ss_pred             HHHHHcCCCCChhhHHHHHHHHHHhch-----hHHHHHHHHHHHhhCCCCC
Q 023915          191 KAIHATGYRIDQGIFHIAIARYIAERE-----KKELLLKLLEWMTGQGYVV  236 (275)
Q Consensus       191 ~~m~~~g~~p~~~~y~~li~~~~~~~~-----~~~~a~~l~~~m~~~~~~p  236 (275)
                      +...+.  .++...+..|-..|....|     +.++|..+|+...+.|...
T Consensus       153 ~~A~~~--~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~~~  201 (212)
T 3rjv_A          153 KGSSSL--SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGFDT  201 (212)
T ss_dssp             HHHHHT--SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHc--CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCCHH
Confidence            998875  2345566667767653333     7899999999998887543

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=98.94  E-value=8.5e-07  Score=74.50  Aligned_cols=190  Identities=14%  Similarity=0.032  Sum_probs=120.5

Q ss_pred             hhhhcCcHHHHHHHHHHHHhc-----C--CCC-cHHhHHHHHHHHHccCCHHHHHHHHHHHhhc-----C-CCC-ChhhH
Q 023915            4 AFCRGGCFEEAKQLAGDFEAK-----Y--DKY-DVVLLNSMLCAYCRTGDMESVMHVMRKLDEL-----A-ISP-DYNTF   68 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~-----g--~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-----g-~~p-~~~t~   68 (275)
                      .+...|+.++|++.|++..+.     +  ..| ...+|+.+-.+|...|++++|...+++..+.     + ..| ...++
T Consensus        60 ~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~~~~~~~~~~~  139 (472)
T 4g1t_A           60 LKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSSPYRIESPELD  139 (472)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCSSCCCCHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcccccchhhHHHH
Confidence            456789999999999876542     1  122 4578999999999999999999999887642     1 112 23455


Q ss_pred             HHHHHHHHc--cCCHHHHHHHHHHHHHcCCCCC-HHhHHHHHHH---HhccCCHHHHHHHHHHHHhccccccHHhHHHHH
Q 023915           69 HILIKYFCK--EKMYILAYRTMVDMHRKGHQPE-EELCSSLIFH---LGKMRAHSEALSVYNMLRYSKRSMCKALHEKIL  142 (275)
Q Consensus        69 ~~li~~~~~--~~~~~~a~~~~~~m~~~g~~~~-~~~~~~li~~---~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li  142 (275)
                      .....++.+  .+++++|...|++..+.  .|+ ...+..+..+   +...++.++|++.++......+. +...+..+-
T Consensus       140 ~~~g~~~~~~~~~~y~~A~~~~~kal~~--~p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~p~-~~~~~~~l~  216 (472)
T 4g1t_A          140 CEEGWTRLKCGGNQNERAKVCFEKALEK--KPKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLNPD-NQYLKVLLA  216 (472)
T ss_dssp             HHHHHHHHHHCTTHHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHCSS-CHHHHHHHH
T ss_pred             HHHHHHHHHHccccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcCCc-chHHHHHHH
Confidence            555445544  45789999999998875  354 3344444433   34456777787777766543322 222333333


Q ss_pred             HHHH----hccchHHHHHHHHHhhc--CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHc
Q 023915          143 HILI----SGKLLKDAYVVVKDNSE--SISHPAIKKFASAFVRLGNINLVNDVMKAIHAT  196 (275)
Q Consensus       143 ~~~~----~~~~~~~a~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  196 (275)
                      ..+.    ..++.++|...+++...  ...+..+..+...|...|++++|...++...+.
T Consensus       217 ~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~  276 (472)
T 4g1t_A          217 LKLHKMREEGEEEGEGEKLVEEALEKAPGVTDVLRSAAKFYRRKDEPDKAIELLKKALEY  276 (472)
T ss_dssp             HHHHHCC------CHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhhHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHh
Confidence            3333    34567778887777554  333446677777888888888888888776664

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=98.94  E-value=7.5e-08  Score=78.86  Aligned_cols=193  Identities=8%  Similarity=-0.034  Sum_probs=144.1

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhcC-----CCC-cHHhHHHHHHHHHccCCHHHHHHHHHHHhhc----CCCC-ChhhHHHH
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAKY-----DKY-DVVLLNSMLCAYCRTGDMESVMHVMRKLDEL----AISP-DYNTFHIL   71 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~g-----~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p-~~~t~~~l   71 (275)
                      ..|...|+++.|...++......     ..+ ...+++.+-..|...|++++|.+.|++..+.    +-.+ ...++..+
T Consensus       149 ~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l  228 (378)
T 3q15_A          149 EAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNI  228 (378)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            35778899999999998877531     111 2567889999999999999999999887753    2111 23467888


Q ss_pred             HHHHHccCCHHHHHHHHHHHHHc----CCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhcc----ccccHHhHHHHHH
Q 023915           72 IKYFCKEKMYILAYRTMVDMHRK----GHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSK----RSMCKALHEKILH  143 (275)
Q Consensus        72 i~~~~~~~~~~~a~~~~~~m~~~----g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~----~~~~~~~~~~li~  143 (275)
                      ...|...|+++.|...+++..+.    +.+....++..+...|.+.|++++|...++......    .+.....+..+-.
T Consensus       229 g~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~  308 (378)
T 3q15_A          229 ANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQA  308 (378)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            89999999999999999998761    223336688889999999999999999999877532    2222334555555


Q ss_pred             HHHhccc---hHHHHHHHHHhhcCCCh-hHHHHHHHHHHhcCChhHHHHHHHHHHH
Q 023915          144 ILISGKL---LKDAYVVVKDNSESISH-PAIKKFASAFVRLGNINLVNDVMKAIHA  195 (275)
Q Consensus       144 ~~~~~~~---~~~a~~~~~~~~~~~~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~  195 (275)
                      .+...++   +.+|+..+++....+.. ..+..+...|...|++++|...|+...+
T Consensus       309 ly~~~~~~~~~~~al~~~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          309 VYKETVDERKIHDLLSYFEKKNLHAYIEACARSAAAVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHhCCCcHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            6666777   88888888874332222 2556788999999999999999987654

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=98.90  E-value=3.5e-07  Score=72.68  Aligned_cols=187  Identities=10%  Similarity=-0.021  Sum_probs=132.3

Q ss_pred             hcCcHHHHHHHHHHHHhc------CCCCcH----HhHHHHHHHHHccCCHHHHHHHHHHHhhc----CCCCC-hhhHHHH
Q 023915            7 RGGCFEEAKQLAGDFEAK------YDKYDV----VLLNSMLCAYCRTGDMESVMHVMRKLDEL----AISPD-YNTFHIL   71 (275)
Q Consensus         7 ~~g~~~~a~~~~~~m~~~------g~~p~~----~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p~-~~t~~~l   71 (275)
                      ..|++++|.+++++..+.      +..++.    ..|+.....|...|++++|.+.|.+..+.    |-.+. ..+|+.+
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            467889999999877652      112332    36777788888889999999988877652    11111 3478888


Q ss_pred             HHHHHccCCHHHHHHHHHHHHHcCC---CCC--HHhHHHHHHHHhccCCHHHHHHHHHHHHhcccc-----ccHHhHHHH
Q 023915           72 IKYFCKEKMYILAYRTMVDMHRKGH---QPE--EELCSSLIFHLGKMRAHSEALSVYNMLRYSKRS-----MCKALHEKI  141 (275)
Q Consensus        72 i~~~~~~~~~~~a~~~~~~m~~~g~---~~~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~-----~~~~~~~~l  141 (275)
                      ...|.+.|+++.|...|++..+.-.   .+.  ..++..+-..|.+ |++++|+..|++.......     ....++..+
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            8888899999999999988764311   122  3467778888888 9999999998876543211     124567778


Q ss_pred             HHHHHhccchHHHHHHHHHhhc----CCChh----HHHHHHHHHHhcCChhHHHHHHHHHH
Q 023915          142 LHILISGKLLKDAYVVVKDNSE----SISHP----AIKKFASAFVRLGNINLVNDVMKAIH  194 (275)
Q Consensus       142 i~~~~~~~~~~~a~~~~~~~~~----~~~~~----~~~~li~~~~~~~~~~~a~~~~~~m~  194 (275)
                      -..+...|++++|+..|++...    ....+    .+..+...+...|++++|...|+...
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            8888899999999999887654    22211    44555667777799999999998876

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.90  E-value=1.6e-07  Score=70.22  Aligned_cols=134  Identities=10%  Similarity=-0.075  Sum_probs=63.4

Q ss_pred             HHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccc
Q 023915           71 LIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKL  150 (275)
Q Consensus        71 li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~  150 (275)
                      +...+.+.|++++|...|++..+.. +-+...+..+-..+...|++++|...|+......+. +...+..+-..|...|.
T Consensus        60 lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~~~  137 (208)
T 3urz_A           60 LALAYKKNRNYDKAYLFYKELLQKA-PNNVDCLEACAEMQVCRGQEKDALRMYEKILQLEAD-NLAANIFLGNYYYLTAE  137 (208)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHHhH
Confidence            4555555555665555555555442 223445555555555566666666666555443222 22234444444433322


Q ss_pred             --hHHHHHHHHHhhcCCChhH--HHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHH
Q 023915          151 --LKDAYVVVKDNSESISHPA--IKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAI  209 (275)
Q Consensus       151 --~~~a~~~~~~~~~~~~~~~--~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li  209 (275)
                        .+.+...++.... +.+..  +...-.++...|++++|...|++..+  +.|+......+.
T Consensus       138 ~~~~~~~~~~~~~~~-~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~--l~P~~~~~~~l~  197 (208)
T 3urz_A          138 QEKKKLETDYKKLSS-PTKMQYARYRDGLSKLFTTRYEKARNSLQKVIL--RFPSTEAQKTLD  197 (208)
T ss_dssp             HHHHHHHHHHC---C-CCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTT--TSCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCchhHHHHHHHHHHHHccCHHHHHHHHHHHHH--hCCCHHHHHHHH
Confidence              2333334433322 22222  12223344456677777777776665  346655444433

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=98.88  E-value=8.4e-07  Score=68.58  Aligned_cols=169  Identities=13%  Similarity=-0.014  Sum_probs=123.1

Q ss_pred             ChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCC---HHhHHHHHHHHhccCCHHHHHHHHHHHHhccc-c-ccHHhH
Q 023915           64 DYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPE---EELCSSLIFHLGKMRAHSEALSVYNMLRYSKR-S-MCKALH  138 (275)
Q Consensus        64 ~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~-~-~~~~~~  138 (275)
                      +...+-.+...+.+.|+++.|...|+++.+.. +-+   ...+..+..+|.+.|++++|...|+......+ . .....+
T Consensus        14 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~   92 (261)
T 3qky_A           14 SPQEAFERAMEFYNQGKYDRAIEYFKAVFTYG-RTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAE   92 (261)
T ss_dssp             SHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGC-SCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHH
Confidence            44566677778889999999999999988753 112   56788888899999999999999998876532 2 224456


Q ss_pred             HHHHHHHHh--------ccchHHHHHHHHHhhc-CCCh-hHH-----------------HHHHHHHHhcCChhHHHHHHH
Q 023915          139 EKILHILIS--------GKLLKDAYVVVKDNSE-SISH-PAI-----------------KKFASAFVRLGNINLVNDVMK  191 (275)
Q Consensus       139 ~~li~~~~~--------~~~~~~a~~~~~~~~~-~~~~-~~~-----------------~~li~~~~~~~~~~~a~~~~~  191 (275)
                      ..+-.++..        .|++++|...|++... .+.. ...                 ..+...|...|++++|...|+
T Consensus        93 ~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~  172 (261)
T 3qky_A           93 YERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRYPNHELVDDATQKIRELRAKLARKQYEAARLYERRELYEAAAVTYE  172 (261)
T ss_dssp             HHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHhcccccccchhHHHHHHHHHHHHHHCcCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHH
Confidence            666777777        8999999999998765 2222 222                 345678889999999999999


Q ss_pred             HHHHcCCCCC----hhhHHHHHHHHHHhc----------hhHHHHHHHHHHHhhCCCCCCh
Q 023915          192 AIHATGYRID----QGIFHIAIARYIAER----------EKKELLLKLLEWMTGQGYVVDS  238 (275)
Q Consensus       192 ~m~~~g~~p~----~~~y~~li~~~~~~~----------~~~~~a~~l~~~m~~~~~~p~~  238 (275)
                      ...+..  |+    ...+..+..+|. ..          |++++|...|++..+.  .|+.
T Consensus       173 ~~l~~~--p~~~~~~~a~~~l~~~~~-~~g~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~  228 (261)
T 3qky_A          173 AVFDAY--PDTPWADDALVGAMRAYI-AYAEQSVRARQPERYRRAVELYERLLQI--FPDS  228 (261)
T ss_dssp             HHHHHC--TTSTTHHHHHHHHHHHHH-HHHHTSCGGGHHHHHHHHHHHHHHHHHH--CTTC
T ss_pred             HHHHHC--CCCchHHHHHHHHHHHHH-HhcccchhhcccchHHHHHHHHHHHHHH--CCCC
Confidence            987753  43    235555666664 33          8889999999988764  3554

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=98.88  E-value=3.4e-08  Score=71.82  Aligned_cols=52  Identities=8%  Similarity=0.049  Sum_probs=24.0

Q ss_pred             hhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHh
Q 023915            5 FCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLD   57 (275)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~   57 (275)
                      +.+.|++++|...|+...+..+. +...+..+-..+.+.|++++|+..|+...
T Consensus        16 ~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~la~~~~~~g~~~~A~~~~~~a~   67 (176)
T 2r5s_A           16 LLQQGEHAQALNVIQTLSDELQS-RGDVKLAKADCLLETKQFELAQELLATIP   67 (176)
T ss_dssp             HHHTTCHHHHHHHHHTSCHHHHT-SHHHHHHHHHHHHHTTCHHHHHHHHTTCC
T ss_pred             HHHcCCHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHhh
Confidence            34445555555555444433211 33444444455555555555555554443

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.85  E-value=1.3e-07  Score=74.46  Aligned_cols=162  Identities=9%  Similarity=0.011  Sum_probs=123.9

Q ss_pred             CcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCC-hhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHH-H
Q 023915           28 YDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCS-S  105 (275)
Q Consensus        28 p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~-~  105 (275)
                      .+...+..+-..+.+.|++++|.+.|++..+.  .|+ ...+..+...+.+.|++++|...+++....  .|+..... .
T Consensus       115 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~~  190 (287)
T 3qou_A          115 REEELXAQQAMQLMQESNYTDALPLLXDAWQL--SNQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQ--DQDTRYQGLV  190 (287)
T ss_dssp             CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--TTSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG--GCSHHHHHHH
T ss_pred             CchhhHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCcchhHHHHHHHHHHHCCCHHHHHHHHHhCchh--hcchHHHHHH
Confidence            35567778888888999999999999998873  354 456778888999999999999999988655  45544332 2


Q ss_pred             HHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhc-CCC---hhHHHHHHHHHHhcC
Q 023915          106 LIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSE-SIS---HPAIKKFASAFVRLG  181 (275)
Q Consensus       106 li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~-~~~---~~~~~~li~~~~~~~  181 (275)
                      ....+.+.++.+.|...++......+. +...+..+-..+...|++++|...+.+... .+.   ...+..+...+...|
T Consensus       191 ~~~~l~~~~~~~~a~~~l~~al~~~P~-~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g  269 (287)
T 3qou_A          191 AQIELLXQAADTPEIQQLQQQVAENPE-DAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALG  269 (287)
T ss_dssp             HHHHHHHHHTSCHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHC
T ss_pred             HHHHHHhhcccCccHHHHHHHHhcCCc-cHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcC
Confidence            333466778888888888877655432 445778888899999999999999998766 333   336788999999999


Q ss_pred             ChhHHHHHHHHHH
Q 023915          182 NINLVNDVMKAIH  194 (275)
Q Consensus       182 ~~~~a~~~~~~m~  194 (275)
                      +.++|...++.-.
T Consensus       270 ~~~~a~~~~r~al  282 (287)
T 3qou_A          270 TGDALASXYRRQL  282 (287)
T ss_dssp             TTCHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHH
Confidence            9999988887644

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.83  E-value=4.1e-07  Score=68.81  Aligned_cols=172  Identities=11%  Similarity=0.092  Sum_probs=95.3

Q ss_pred             hhhhcCcHHHHHHHHHHHHhcCCC-C-cHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChh----hHHHHHHHHHc
Q 023915            4 AFCRGGCFEEAKQLAGDFEAKYDK-Y-DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYN----TFHILIKYFCK   77 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~g~~-p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~----t~~~li~~~~~   77 (275)
                      .+.+.|++++|...|+.+....+. | ....+..+..++.+.|++++|++.|++..+.  .|+..    .+-.+..++.+
T Consensus        13 ~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~--~P~~~~~~~a~~~~g~~~~~   90 (225)
T 2yhc_A           13 QKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRL--NPTHPNIDYVMYMRGLTNMA   90 (225)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCTTHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--CcCCCcHHHHHHHHHHHHHh
Confidence            355566777777777766654322 1 1245556666666677777777777666652  23321    22222222222


Q ss_pred             ------------------cCCHHHHHHHHHHHHHcCCCCCHH-hHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhH
Q 023915           78 ------------------EKMYILAYRTMVDMHRKGHQPEEE-LCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALH  138 (275)
Q Consensus        78 ------------------~~~~~~a~~~~~~m~~~g~~~~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~  138 (275)
                                        .|++++|...|+++.+.  .|+.. ++.....    .      ..+...+        ....
T Consensus        91 ~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~P~~~~a~~a~~~----l------~~~~~~~--------~~~~  150 (225)
T 2yhc_A           91 LDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRG--YPNSQYTTDATKR----L------VFLKDRL--------AKYE  150 (225)
T ss_dssp             HHC--------------CCHHHHHHHHHHHHHHTT--CTTCTTHHHHHHH----H------HHHHHHH--------HHHH
T ss_pred             hhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHH--CcCChhHHHHHHH----H------HHHHHHH--------HHHH
Confidence                              34555555555555543  22211 1111000    0      0000000        0011


Q ss_pred             HHHHHHHHhccchHHHHHHHHHhhc-CCChh----HHHHHHHHHHhcCChhHHHHHHHHHHHcC
Q 023915          139 EKILHILISGKLLKDAYVVVKDNSE-SISHP----AIKKFASAFVRLGNINLVNDVMKAIHATG  197 (275)
Q Consensus       139 ~~li~~~~~~~~~~~a~~~~~~~~~-~~~~~----~~~~li~~~~~~~~~~~a~~~~~~m~~~g  197 (275)
                      ..+-..+...|++++|...|++..+ .+..+    .+..+..+|.+.|++++|...++.+...+
T Consensus       151 ~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~  214 (225)
T 2yhc_A          151 YSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANS  214 (225)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC
Confidence            2455677889999999999998776 33322    46678889999999999999999888754

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.82  E-value=1e-06  Score=66.65  Aligned_cols=184  Identities=11%  Similarity=0.015  Sum_probs=116.7

Q ss_pred             cHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCC----hhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCC-CCH-Hh
Q 023915           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD----YNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQ-PEE-EL  102 (275)
Q Consensus        29 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~----~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~-~~~-~~  102 (275)
                      +...+..+...+.+.|++++|+..|+++.+..  |+    ...+..+..++.+.|+++.|...|++..+..-. +.. .+
T Consensus         3 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~--p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a   80 (225)
T 2yhc_A            3 PPNEIYATAQQKLQDGNWRQAITQLEALDNRY--PFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYV   80 (225)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHH
Confidence            34455666677888999999999999988742  43    246777888999999999999999998875321 111 13


Q ss_pred             HHHHHHHHhc------------------cCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhcC
Q 023915          103 CSSLIFHLGK------------------MRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSES  164 (275)
Q Consensus       103 ~~~li~~~~~------------------~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  164 (275)
                      +..+..++.+                  .|+.++|...|+.+....+.... .+.+....    +..      ....   
T Consensus        81 ~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~P~~~~-a~~a~~~l----~~~------~~~~---  146 (225)
T 2yhc_A           81 MYMRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGYPNSQY-TTDATKRL----VFL------KDRL---  146 (225)
T ss_dssp             HHHHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTTCTTCTT-HHHHHHHH----HHH------HHHH---
T ss_pred             HHHHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHCcCChh-HHHHHHHH----HHH------HHHH---
Confidence            4334444433                  35566666666665543221111 11110000    000      0000   


Q ss_pred             CChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCh----hhHHHHHHHHHHhchhHHHHHHHHHHHhhCC
Q 023915          165 ISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQ----GIFHIAIARYIAEREKKELLLKLLEWMTGQG  233 (275)
Q Consensus       165 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~----~~y~~li~~~~~~~~~~~~a~~l~~~m~~~~  233 (275)
                        ......+...|.+.|++++|...|+.+.+.-  |+.    ..+..+..+|. +.|+.++|.+.++.+...+
T Consensus       147 --~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~a~~~l~~~~~-~~g~~~~A~~~~~~l~~~~  214 (225)
T 2yhc_A          147 --AKYEYSVAEYYTERGAWVAVVNRVEGMLRDY--PDTQATRDALPLMENAYR-QMQMNAQAEKVAKIIAANS  214 (225)
T ss_dssp             --HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS--TTSHHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHCC
T ss_pred             --HHHHHHHHHHHHHcCcHHHHHHHHHHHHHHC--cCCCccHHHHHHHHHHHH-HcCCcHHHHHHHHHHHhhC
Confidence              0011245677889999999999999988853  443    45677777776 7899999999999988763

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=98.81  E-value=2.1e-07  Score=80.42  Aligned_cols=151  Identities=11%  Similarity=-0.061  Sum_probs=112.5

Q ss_pred             cCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCC-hhhHHHHHHHHHccCCHHHHHH
Q 023915            8 GGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYILAYR   86 (275)
Q Consensus         8 ~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~~a~~   86 (275)
                      .|++++|.+.|++..+.... +...|..+-..+.+.|++++|.+.|++..+.  .|+ ...+..+...+.+.|++++|..
T Consensus         2 ~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~   78 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHRPQ-DFVAWLMLADAELGMGDTTAGEMAVQRGLAL--HPGHPEAVARLGRVRWTQQRHAEAAV   78 (568)
T ss_dssp             -------------------C-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT--STTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            47899999999998876433 5788999999999999999999999999874  354 6678899999999999999999


Q ss_pred             HHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhc---cchHHHHHHHHHhhc
Q 023915           87 TMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISG---KLLKDAYVVVKDNSE  163 (275)
Q Consensus        87 ~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~---~~~~~a~~~~~~~~~  163 (275)
                      .+++..+.. +-+...+..+..+|.+.|++++|.+.|+........ +...+..+...+...   |+.++|.+.+++...
T Consensus        79 ~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~  156 (568)
T 2vsy_A           79 LLQQASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPE-EPYITAQLLNWRRRLCDWRALDVLSAQVRAAVA  156 (568)
T ss_dssp             HHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhhccccHHHHHHHHHHHHh
Confidence            999998764 345678999999999999999999999988765433 345778888889899   999999999998765

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=98.78  E-value=2.7e-06  Score=66.96  Aligned_cols=160  Identities=11%  Similarity=-0.010  Sum_probs=93.6

Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHcCC-CCCH----HhHHHHHHHHhccCCHHHHHHHHHHHHhcccc-cc----HHhHH
Q 023915           70 ILIKYFCKEKMYILAYRTMVDMHRKGH-QPEE----ELCSSLIFHLGKMRAHSEALSVYNMLRYSKRS-MC----KALHE  139 (275)
Q Consensus        70 ~li~~~~~~~~~~~a~~~~~~m~~~g~-~~~~----~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~-~~----~~~~~  139 (275)
                      ..+..+...|+++.|...+++..+... .|+.    ..+..+...+...|++++|...|+........ .+    ..+++
T Consensus        80 ~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~  159 (293)
T 3u3w_A           80 DQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIEN  159 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHH
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHH
Confidence            345666777777777777777665321 2221    12334555666667777777777766652111 11    22466


Q ss_pred             HHHHHHHhccchHHHHHHHHHhhc----C-CChh----HHHHHHHHHHhcCChhHHHHHHHHHHHc----CCCCC-hhhH
Q 023915          140 KILHILISGKLLKDAYVVVKDNSE----S-ISHP----AIKKFASAFVRLGNINLVNDVMKAIHAT----GYRID-QGIF  205 (275)
Q Consensus       140 ~li~~~~~~~~~~~a~~~~~~~~~----~-~~~~----~~~~li~~~~~~~~~~~a~~~~~~m~~~----g~~p~-~~~y  205 (275)
                      .+-..|...|++++|...+++...    . ...+    .+..+...|...|++++|...++...+.    +..+. ..+|
T Consensus       160 ~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~  239 (293)
T 3u3w_A          160 AIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLY  239 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHH
Confidence            677777777777777777776552    1 2222    4566677777778888777777765442    22222 3456


Q ss_pred             HHHHHHHHHhch-hHHHHHHHHHHHh
Q 023915          206 HIAIARYIAERE-KKELLLKLLEWMT  230 (275)
Q Consensus       206 ~~li~~~~~~~~-~~~~a~~l~~~m~  230 (275)
                      ..+-..|. ..| .+++|.+.+++..
T Consensus       240 ~~lg~~~~-~~g~~~~~A~~~~~~Al  264 (293)
T 3u3w_A          240 YQRGECLR-KLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHH-HTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHH-HhCCcHHHHHHHHHHHH
Confidence            66666665 445 4566776666553

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=98.78  E-value=7.5e-07  Score=66.42  Aligned_cols=88  Identities=6%  Similarity=-0.094  Sum_probs=41.9

Q ss_pred             HHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCC
Q 023915           36 MLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRA  115 (275)
Q Consensus        36 li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~  115 (275)
                      +-..+...|++++|++.|++..    .|+...+..+...+.+.|+++.|...|++..+.. +.+...+..+..+|.+.|+
T Consensus        12 ~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~   86 (213)
T 1hh8_A           12 EGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEK   86 (213)
T ss_dssp             HHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHccc
Confidence            3334444555555555554432    3444445555555555555555555555544432 2233444445555555555


Q ss_pred             HHHHHHHHHHHHh
Q 023915          116 HSEALSVYNMLRY  128 (275)
Q Consensus       116 ~~~a~~~~~~m~~  128 (275)
                      +++|...|+....
T Consensus        87 ~~~A~~~~~~al~   99 (213)
T 1hh8_A           87 YDLAIKDLKEALI   99 (213)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            5555555554443

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=98.78  E-value=2.1e-07  Score=82.19  Aligned_cols=171  Identities=9%  Similarity=-0.078  Sum_probs=132.1

Q ss_pred             hhcCcHHHHHHHHHHHH--------hcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCC-ChhhHHHHHHHHH
Q 023915            6 CRGGCFEEAKQLAGDFE--------AKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP-DYNTFHILIKYFC   76 (275)
Q Consensus         6 ~~~g~~~~a~~~~~~m~--------~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~t~~~li~~~~   76 (275)
                      ...|++++|++.++...        +.. ..+...+..+-.++.+.|++++|++.|++..+.  .| +...|..+-..+.
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~  478 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDF-SESVELPLMEVRALLDLGDVAKATRKLDDLAER--VGWRWRLVWYRAVAEL  478 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CC-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--HCCCHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhccccccccc-ccchhHHHHHHHHHHhcCCHHHHHHHHHHHhcc--CcchHHHHHHHHHHHH
Confidence            56789999999999987        432 236678888999999999999999999998873  35 4567888888999


Q ss_pred             ccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHH
Q 023915           77 KEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYV  156 (275)
Q Consensus        77 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~  156 (275)
                      +.|++++|...|++..+.. +-+...+..+-.++.+.|++++ .+.|+........ +...|..+-.++...|++++|..
T Consensus       479 ~~g~~~~A~~~~~~al~l~-P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P~-~~~a~~~lg~~~~~~g~~~~A~~  555 (681)
T 2pzi_A          479 LTGDYDSATKHFTEVLDTF-PGELAPKLALAATAELAGNTDE-HKFYQTVWSTNDG-VISAAFGLARARSAEGDRVGAVR  555 (681)
T ss_dssp             HHTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCCc-hHHHHHHHHHHHHHcCCHHHHHH
Confidence            9999999999999998764 3356688889999999999999 9999988765433 34478888889999999999999


Q ss_pred             HHHHhhcC-CC-hhHHHHHHHHHHhcCC
Q 023915          157 VVKDNSES-IS-HPAIKKFASAFVRLGN  182 (275)
Q Consensus       157 ~~~~~~~~-~~-~~~~~~li~~~~~~~~  182 (275)
                      .|++.... +. ...+..+..++...+.
T Consensus       556 ~~~~al~l~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          556 TLDEVPPTSRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HHHTSCTTSTTHHHHHHHHHHHTC----
T ss_pred             HHHhhcccCcccHHHHHHHHHHHHccCC
Confidence            99987663 22 2355556666655444

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=98.78  E-value=5.2e-07  Score=71.15  Aligned_cols=167  Identities=7%  Similarity=0.047  Sum_probs=119.4

Q ss_pred             cHHhHHHHHHHHHccCCHHHHHHHHHHHhhcC-CCCCh----hhHHHHHHHHHccCCHHHHHHHHHHHHHcCCC-CC---
Q 023915           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDELA-ISPDY----NTFHILIKYFCKEKMYILAYRTMVDMHRKGHQ-PE---   99 (275)
Q Consensus        29 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g-~~p~~----~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~-~~---   99 (275)
                      ....+...+..+...|++++|.+++++..+.. ..|+.    ..+..+...+...++++.|...|++..+.... ++   
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            46666677778888899999999998877632 23442    23445667777778999999999998874322 22   


Q ss_pred             -HHhHHHHHHHHhccCCHHHHHHHHHHHHh------ccccccHHhHHHHHHHHHhccchHHHHHHHHHhhc----CCC--
Q 023915          100 -EELCSSLIFHLGKMRAHSEALSVYNMLRY------SKRSMCKALHEKILHILISGKLLKDAYVVVKDNSE----SIS--  166 (275)
Q Consensus       100 -~~~~~~li~~~~~~g~~~~a~~~~~~m~~------~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~----~~~--  166 (275)
                       ..+++.+...|...|++++|...|+....      ........++..+-..|...|++++|...+++...    ..+  
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             23688888889999999999998888763      12222334778888888999999999888887543    111  


Q ss_pred             --hhHHHHHHHHHHhcCC-hhHHHHHHHHHHH
Q 023915          167 --HPAIKKFASAFVRLGN-INLVNDVMKAIHA  195 (275)
Q Consensus       167 --~~~~~~li~~~~~~~~-~~~a~~~~~~m~~  195 (275)
                        ...|..+-..|...|+ +++|...++....
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              2367778888888884 6888888877544

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=98.75  E-value=1.3e-07  Score=66.78  Aligned_cols=114  Identities=8%  Similarity=-0.080  Sum_probs=66.9

Q ss_pred             hhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCC-ChhhHHHHHHHHHccCCHHH
Q 023915            5 FCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP-DYNTFHILIKYFCKEKMYIL   83 (275)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~t~~~li~~~~~~~~~~~   83 (275)
                      +...|++++|++.++........ +...+-.+-..|.+.|++++|++.|++..+.  .| +..+|..+...+.+.|+++.
T Consensus         7 ~~~~~~~e~ai~~~~~a~~~~p~-~~~~~~~la~~y~~~~~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~~~~~~   83 (150)
T 4ga2_A            7 RRSKADVERYIASVQGSTPSPRQ-KSIKGFYFAKLYYEAKEYDLAKKYICTYINV--QERDPKAHRFLGLLYELEENTDK   83 (150)
T ss_dssp             CCCHHHHHHHHHHHHHHSCSHHH-HHTTHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHcChHHHHHHHHHHhcccCcc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCchHH
Confidence            34456666666666665443111 2334455666666777777777777666652  34 34456666666667777777


Q ss_pred             HHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHH
Q 023915           84 AYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSV  122 (275)
Q Consensus        84 a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~  122 (275)
                      |...|++..+.. +-+..++..+...|.+.|+.++|.+.
T Consensus        84 A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~aa~~  121 (150)
T 4ga2_A           84 AVECYRRSVELN-PTQKDLVLKIAELLCKNDVTDGRAKY  121 (150)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCSSSSHHHH
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHH
Confidence            777777666542 22345666666666666666554443

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.73  E-value=4.6e-07  Score=66.93  Aligned_cols=154  Identities=9%  Similarity=-0.051  Sum_probs=94.5

Q ss_pred             hhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhc----CCCC-ChhhHHHHHHHHHccCC
Q 023915            6 CRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDEL----AISP-DYNTFHILIKYFCKEKM   80 (275)
Q Consensus         6 ~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p-~~~t~~~li~~~~~~~~   80 (275)
                      ...|++++|.++++.+.. .......+++.+-..+...|++++|.+.+++..+.    +..| ...++..+...+...|+
T Consensus         3 ~~~g~~~~A~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~   81 (203)
T 3gw4_A            3 FEAHDYALAERQAQALLA-HPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGN   81 (203)
T ss_dssp             ----CHHHHHHHHHHHHT-STTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTC
T ss_pred             cccccHHHHHHHHHHhcC-ChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCC
Confidence            467888888885555543 22235677888888888888888888888877652    2222 23456777777888888


Q ss_pred             HHHHHHHHHHHHHc----CCCC--CHHhHHHHHHHHhccCCHHHHHHHHHHHHhc----cc-cccHHhHHHHHHHHHhcc
Q 023915           81 YILAYRTMVDMHRK----GHQP--EEELCSSLIFHLGKMRAHSEALSVYNMLRYS----KR-SMCKALHEKILHILISGK  149 (275)
Q Consensus        81 ~~~a~~~~~~m~~~----g~~~--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~-~~~~~~~~~li~~~~~~~  149 (275)
                      ++.|...+++..+.    +-.|  ....+..+-..+...|++++|...+++....    +. .....++..+-..+...|
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            88888888876643    2111  1335666777777788888888777765432    11 111223344555555566


Q ss_pred             chHHHHHHHHH
Q 023915          150 LLKDAYVVVKD  160 (275)
Q Consensus       150 ~~~~a~~~~~~  160 (275)
                      ++++|...+++
T Consensus       162 ~~~~A~~~~~~  172 (203)
T 3gw4_A          162 NLLEAQQHWLR  172 (203)
T ss_dssp             CHHHHHHHHHH
T ss_pred             CHHHHHHHHHH
Confidence            66666655554

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=98.73  E-value=9.3e-06  Score=68.16  Aligned_cols=194  Identities=7%  Similarity=-0.076  Sum_probs=136.7

Q ss_pred             cHHhHHHHHHHHHccC---CHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHcc----CCHHHHHHHHHHHHHcCCCCCHH
Q 023915           29 DVVLLNSMLCAYCRTG---DMESVMHVMRKLDELAISPDYNTFHILIKYFCKE----KMYILAYRTMVDMHRKGHQPEEE  101 (275)
Q Consensus        29 ~~~~~~~li~~~~~~g---~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~----~~~~~a~~~~~~m~~~g~~~~~~  101 (275)
                      +...+..|-..|.+.|   +.++|++.|+...+.|- ++...+..|-..|...    +++++|...|+... .   -+..
T Consensus       175 ~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~-~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa-~---g~~~  249 (452)
T 3e4b_A          175 TDICYVELATVYQKKQQPEQQAELLKQMEAGVSRGT-VTAQRVDSVARVLGDATLGTPDEKTAQALLEKIA-P---GYPA  249 (452)
T ss_dssp             CTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTC-SCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG-G---GSTH
T ss_pred             CHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCC-HHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc-C---CCHH
Confidence            3447888888888888   88899999988887763 4444445566666554    78899999998876 3   3344


Q ss_pred             hHHHHHHH-H--hccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhcc-----chHHHHHHHHHhhcCCChhHHHHH
Q 023915          102 LCSSLIFH-L--GKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGK-----LLKDAYVVVKDNSESISHPAIKKF  173 (275)
Q Consensus       102 ~~~~li~~-~--~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~-----~~~~a~~~~~~~~~~~~~~~~~~l  173 (275)
                      .+..+-.. +  ...++.++|...|+.....+   +...+..+-..|. .|     +.++|...|++.. .+.+.....+
T Consensus       250 a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-~g~~~A~~~L  324 (452)
T 3e4b_A          250 SWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV-GREVAADYYL  324 (452)
T ss_dssp             HHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-TTCHHHHHHH
T ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-CCCHHHHHHH
Confidence            55555555 3  45889999999999887666   3334555555555 44     8999999999988 7777777777


Q ss_pred             HHHHHh----cCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHh---chhHHHHHHHHHHHhhCCCC
Q 023915          174 ASAFVR----LGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAE---REKKELLLKLLEWMTGQGYV  235 (275)
Q Consensus       174 i~~~~~----~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~---~~~~~~a~~l~~~m~~~~~~  235 (275)
                      -..|..    ..+.++|...|+...+.|.   ......|-..|...   ..+.++|..+|+...+.|..
T Consensus       325 g~~y~~G~g~~~d~~~A~~~~~~Aa~~g~---~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~~g~~  390 (452)
T 3e4b_A          325 GQIYRRGYLGKVYPQKALDHLLTAARNGQ---NSADFAIAQLFSQGKGTKPDPLNAYVFSQLAKAQDTP  390 (452)
T ss_dssp             HHHHHTTTTSSCCHHHHHHHHHHHHTTTC---TTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHHTTCCH
T ss_pred             HHHHHCCCCCCcCHHHHHHHHHHHHhhCh---HHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHCCCH
Confidence            777766    3488999999988877663   34444555555421   24678899999888887753

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=98.71  E-value=1.4e-05  Score=67.01  Aligned_cols=213  Identities=7%  Similarity=-0.092  Sum_probs=152.8

Q ss_pred             hhhhcC---cHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHcc----CCHHHHHHHHHHHhhcCCCCChhhHHHHHHH-H
Q 023915            4 AFCRGG---CFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRT----GDMESVMHVMRKLDELAISPDYNTFHILIKY-F   75 (275)
Q Consensus         4 ~~~~~g---~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~----g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~-~   75 (275)
                      .|.+.|   +.++|++.|+...+.|.. +...+..|-..|...    +++++|++.|+... .   -+...+..|-.. +
T Consensus       185 ~~~~~g~~~~~~~A~~~~~~aa~~g~~-~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa-~---g~~~a~~~Lg~~~~  259 (452)
T 3e4b_A          185 VYQKKQQPEQQAELLKQMEAGVSRGTV-TAQRVDSVARVLGDATLGTPDEKTAQALLEKIA-P---GYPASWVSLAQLLY  259 (452)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHTTCS-CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG-G---GSTHHHHHHHHHHH
T ss_pred             HHHHcCCcccHHHHHHHHHHHHHCCCH-HHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc-C---CCHHHHHHHHHHHH
Confidence            345567   999999999999988754 666656677777655    79999999999987 3   344455555555 3


Q ss_pred             --HccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccC-----CHHHHHHHHHHHHhccccccHHhHHHHHHHHHh-
Q 023915           76 --CKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMR-----AHSEALSVYNMLRYSKRSMCKALHEKILHILIS-  147 (275)
Q Consensus        76 --~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g-----~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~-  147 (275)
                        ...+++++|...|++..+.|   +...+..|-..|. .|     +.++|.+.|+... .   -+......+-..|.. 
T Consensus       260 ~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-~---g~~~A~~~Lg~~y~~G  331 (452)
T 3e4b_A          260 DFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV-G---REVAADYYLGQIYRRG  331 (452)
T ss_dssp             HSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-T---TCHHHHHHHHHHHHTT
T ss_pred             hCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-C---CCHHHHHHHHHHHHCC
Confidence              56899999999999999877   5566777777776 55     9999999999876 2   233445555556655 


Q ss_pred             ---ccchHHHHHHHHHhhcCCChhHHHHHHHHHHh----cCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhchhHH
Q 023915          148 ---GKLLKDAYVVVKDNSESISHPAIKKFASAFVR----LGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKE  220 (275)
Q Consensus       148 ---~~~~~~a~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~  220 (275)
                         ..+.++|..+|++..+.+.+.....+-..|..    ..+.++|...|+.-.+.|.. +....-..+.... ..++.+
T Consensus       332 ~g~~~d~~~A~~~~~~Aa~~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~~g~~-~a~~~l~~l~~~~-~~~~~~  409 (452)
T 3e4b_A          332 YLGKVYPQKALDHLLTAARNGQNSADFAIAQLFSQGKGTKPDPLNAYVFSQLAKAQDTP-EANDLATQLEAPL-TPAQRA  409 (452)
T ss_dssp             TTSSCCHHHHHHHHHHHHTTTCTTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHHTTCCH-HHHHHHHHHHTTC-CHHHHH
T ss_pred             CCCCcCHHHHHHHHHHHHhhChHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHCCCH-HHHHHHHHHHHhC-CHHHHH
Confidence               34899999999999988888888777777774    45889999999988887743 2222222222222 345666


Q ss_pred             HHHHHHHHHhh
Q 023915          221 LLLKLLEWMTG  231 (275)
Q Consensus       221 ~a~~l~~~m~~  231 (275)
                      +|..+.++-..
T Consensus       410 ~a~~~~~~~~~  420 (452)
T 3e4b_A          410 EGQRLVQQELA  420 (452)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            77777776543

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=98.71  E-value=7.2e-07  Score=77.10  Aligned_cols=151  Identities=12%  Similarity=0.003  Sum_probs=111.4

Q ss_pred             cCCHHHHHHHHHHHhhcCCCCC-hhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHH
Q 023915           43 TGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALS  121 (275)
Q Consensus        43 ~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~  121 (275)
                      .|++++|.+.|++..+.  .|+ ...+..+...+.+.|++++|...+++..+.. +-+...+..+...|.+.|++++|.+
T Consensus         2 ~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~   78 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRH--RPQDFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAV   78 (568)
T ss_dssp             ---------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             CccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            47889999999988763  354 6778899999999999999999999998753 3356788999999999999999999


Q ss_pred             HHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhc--CCChhHHHHHHHHHHhc---CChhHHHHHHHHHHHc
Q 023915          122 VYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSE--SISHPAIKKFASAFVRL---GNINLVNDVMKAIHAT  196 (275)
Q Consensus       122 ~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~li~~~~~~---~~~~~a~~~~~~m~~~  196 (275)
                      .+++....... +...+..+-..+...|++++|.+.+++...  ......+..+...+...   |+.++|.+.+++..+.
T Consensus        79 ~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~  157 (568)
T 2vsy_A           79 LLQQASDAAPE-HPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQ  157 (568)
T ss_dssp             HHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhc
Confidence            99988765433 355788889999999999999999999766  33445778888999999   9999999999998876


Q ss_pred             C
Q 023915          197 G  197 (275)
Q Consensus       197 g  197 (275)
                      +
T Consensus       158 ~  158 (568)
T 2vsy_A          158 G  158 (568)
T ss_dssp             T
T ss_pred             C
Confidence            4

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.70  E-value=1.2e-06  Score=68.97  Aligned_cols=160  Identities=8%  Similarity=-0.023  Sum_probs=92.4

Q ss_pred             ChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHH
Q 023915           64 DYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILH  143 (275)
Q Consensus        64 ~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~  143 (275)
                      +...+..+...+.+.|+++.|...|++..+.. +-+...+..+...+.+.|++++|...++........+ .........
T Consensus       116 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~p~~-~~~~~~~~~  193 (287)
T 3qou_A          116 EEELXAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQDQDT-RYQGLVAQI  193 (287)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGGCSH-HHHHHHHHH
T ss_pred             chhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchhhcch-HHHHHHHHH
Confidence            33445556666667777777777777766542 2244566667777777777777777777654433211 111222222


Q ss_pred             HHHhccchHHHHHHHHHhhc--CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCC---hhhHHHHHHHHHHhchh
Q 023915          144 ILISGKLLKDAYVVVKDNSE--SISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRID---QGIFHIAIARYIAEREK  218 (275)
Q Consensus       144 ~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~---~~~y~~li~~~~~~~~~  218 (275)
                      .+...++.++|...+++...  ..++..+..+...|...|++++|...|....+..  |+   ...+..+...|. ..|+
T Consensus       194 ~l~~~~~~~~a~~~l~~al~~~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~--p~~~~~~a~~~l~~~~~-~~g~  270 (287)
T 3qou_A          194 ELLXQAADTPEIQQLQQQVAENPEDAALATQLALQLHQVGRNEEALELLFGHLRXD--LTAADGQTRXTFQEILA-ALGT  270 (287)
T ss_dssp             HHHHHHTSCHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTGGGGHHHHHHHHHHH-HHCT
T ss_pred             HHHhhcccCccHHHHHHHHhcCCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcc--cccccchHHHHHHHHHH-HcCC
Confidence            34455666666666666543  2233455666677777777777777777766643  32   345566665553 5566


Q ss_pred             HHHHHHHHHH
Q 023915          219 KELLLKLLEW  228 (275)
Q Consensus       219 ~~~a~~l~~~  228 (275)
                      .++|...+++
T Consensus       271 ~~~a~~~~r~  280 (287)
T 3qou_A          271 GDALASXYRR  280 (287)
T ss_dssp             TCHHHHHHHH
T ss_pred             CCcHHHHHHH
Confidence            6666655554

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=98.70  E-value=5.1e-07  Score=79.78  Aligned_cols=183  Identities=8%  Similarity=-0.138  Sum_probs=140.2

Q ss_pred             HccCCHHHHHHHHHHHhhc------CCCC-ChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhcc
Q 023915           41 CRTGDMESVMHVMRKLDEL------AISP-DYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKM  113 (275)
Q Consensus        41 ~~~g~~~~a~~~~~~m~~~------g~~p-~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~  113 (275)
                      ...|++++|++.|++..+.      ...| +...+..+...+.+.|++++|...|++..+.. +-+...|..+-.+|.+.
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~  480 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDFSESVELPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAELLT  480 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CCTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccccccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHHHc
Confidence            7889999999999998711      1334 45678888899999999999999999998763 34567888999999999


Q ss_pred             CCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhc--CCChhHHHHHHHHHHhcCChhHHHHHHH
Q 023915          114 RAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSE--SISHPAIKKFASAFVRLGNINLVNDVMK  191 (275)
Q Consensus       114 g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~  191 (275)
                      |++++|...|++....... +...+..+-..+...|++++ .+.|++...  ......+..+..++...|++++|...|+
T Consensus       481 g~~~~A~~~~~~al~l~P~-~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~  558 (681)
T 2pzi_A          481 GDYDSATKHFTEVLDTFPG-ELAPKLALAATAELAGNTDE-HKFYQTVWSTNDGVISAAFGLARARSAEGDRVGAVRTLD  558 (681)
T ss_dssp             TCHHHHHHHHHHHHHHSTT-CSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCCchHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            9999999999998765433 34467888889999999999 999998765  3344578889999999999999999998


Q ss_pred             HHHHcCCCCCh-hhHHHHHHHHHHhc--------hhHHHHHHHHHHH
Q 023915          192 AIHATGYRIDQ-GIFHIAIARYIAER--------EKKELLLKLLEWM  229 (275)
Q Consensus       192 ~m~~~g~~p~~-~~y~~li~~~~~~~--------~~~~~a~~l~~~m  229 (275)
                      ...+.  .|+. ..+..+..++. ..        +++++|.+.+..+
T Consensus       559 ~al~l--~P~~~~a~~~~~~~~~-~~~~~~~~~~~~~~~A~~~l~~~  602 (681)
T 2pzi_A          559 EVPPT--SRHFTTARLTSAVTLL-SGRSTSEVTEEQIRDAARRVEAL  602 (681)
T ss_dssp             TSCTT--STTHHHHHHHHHHHTC--------CCHHHHHHHHHHHHTS
T ss_pred             hhccc--CcccHHHHHHHHHHHH-ccCCCCCCCHHHHHHHHHHHhhC
Confidence            87664  4653 45555555553 32        3455555555444

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=98.70  E-value=2.9e-06  Score=63.21  Aligned_cols=121  Identities=9%  Similarity=0.021  Sum_probs=83.5

Q ss_pred             hhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHH
Q 023915            4 AFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYIL   83 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~   83 (275)
                      .+...|++++|...|+...    .|+...|..+...+.+.|++++|++.|++..+.. +.+...|..+...+.+.|+++.
T Consensus        15 ~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~   89 (213)
T 1hh8_A           15 LAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKYDL   89 (213)
T ss_dssp             HHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcccHHH
Confidence            4566788888888877663    5577788888888888888888888888777642 2345567777788888888888


Q ss_pred             HHHHHHHHHHcCCC--------------C-CHHhHHHHHHHHhccCCHHHHHHHHHHHHhc
Q 023915           84 AYRTMVDMHRKGHQ--------------P-EEELCSSLIFHLGKMRAHSEALSVYNMLRYS  129 (275)
Q Consensus        84 a~~~~~~m~~~g~~--------------~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  129 (275)
                      |...|++..+..-.              | ....+..+..+|.+.|++++|...|+.....
T Consensus        90 A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  150 (213)
T 1hh8_A           90 AIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSM  150 (213)
T ss_dssp             HHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHc
Confidence            88888887764311              1 1145556666666666666666666665544

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.69  E-value=2.9e-06  Score=63.33  Aligned_cols=134  Identities=10%  Similarity=-0.041  Sum_probs=92.1

Q ss_pred             HHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhc--CCChhHHHHHHHHHHhcC
Q 023915          104 SSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSE--SISHPAIKKFASAFVRLG  181 (275)
Q Consensus       104 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~li~~~~~~~  181 (275)
                      ..+-.+|.+.|++++|...|+......+. +...+..+-..+...|++++|...|++...  ..++..+..+...|...|
T Consensus        58 ~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~  136 (208)
T 3urz_A           58 TELALAYKKNRNYDKAYLFYKELLQKAPN-NVDCLEACAEMQVCRGQEKDALRMYEKILQLEADNLAANIFLGNYYYLTA  136 (208)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHh
Confidence            34888899999999999999998765433 455788899999999999999999999766  334447777777776655


Q ss_pred             C--hhHHHHHHHHHHHcCCCCChhh--HHHHHHHHHHhchhHHHHHHHHHHHhhCCCCCChhhHHHHH
Q 023915          182 N--INLVNDVMKAIHATGYRIDQGI--FHIAIARYIAEREKKELLLKLLEWMTGQGYVVDSSTRNLIL  245 (275)
Q Consensus       182 ~--~~~a~~~~~~m~~~g~~p~~~~--y~~li~~~~~~~~~~~~a~~l~~~m~~~~~~p~~~t~~~li  245 (275)
                      .  .+.+...++...    .|+...  +...-.++. ..|++++|...|++..+  +.|+......+.
T Consensus       137 ~~~~~~~~~~~~~~~----~~~~~~~a~~~~g~~~~-~~~~~~~A~~~~~~al~--l~P~~~~~~~l~  197 (208)
T 3urz_A          137 EQEKKKLETDYKKLS----SPTKMQYARYRDGLSKL-FTTRYEKARNSLQKVIL--RFPSTEAQKTLD  197 (208)
T ss_dssp             HHHHHHHHHHHC-------CCCHHHHHHHHHHHHHH-HHHTHHHHHHHHHHHTT--TSCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHh----CCCchhHHHHHHHHHHH-HccCHHHHHHHHHHHHH--hCCCHHHHHHHH
Confidence            3  344555555443    344332  222222333 46889999999999876  468865544443

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=98.68  E-value=8.3e-07  Score=70.54  Aligned_cols=184  Identities=10%  Similarity=-0.048  Sum_probs=128.7

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhcC----CCC-cHHhHHHHHHHHHccCCHHHHHHHHHHHhhc----CCCC-ChhhHHHHH
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAKY----DKY-DVVLLNSMLCAYCRTGDMESVMHVMRKLDEL----AISP-DYNTFHILI   72 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~g----~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p-~~~t~~~li   72 (275)
                      ..|...|++++|.+.|.......    -.+ -..+|+.+...|.+.|++++|++.|++..+.    |-.+ -..+++.+.
T Consensus        44 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg  123 (307)
T 2ifu_A           44 VAFKNAKQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAG  123 (307)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            34667789999999888776531    111 1457899999999999999999999887642    2111 245778888


Q ss_pred             HHHHccCCHHHHHHHHHHHHHcC----CCC-CHHhHHHHHHHHhccCCHHHHHHHHHHHHhcc----cccc-HHhHHHHH
Q 023915           73 KYFCKEKMYILAYRTMVDMHRKG----HQP-EEELCSSLIFHLGKMRAHSEALSVYNMLRYSK----RSMC-KALHEKIL  142 (275)
Q Consensus        73 ~~~~~~~~~~~a~~~~~~m~~~g----~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~----~~~~-~~~~~~li  142 (275)
                      ..|.+ |+++.|+..|++..+..    -.+ ...++..+...|.+.|++++|...|++.....    ..+. ...+..+.
T Consensus       124 ~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g  202 (307)
T 2ifu_A          124 KLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQV  202 (307)
T ss_dssp             HHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHH
Confidence            88988 99999999999987532    111 13578889999999999999999999877532    2121 23566677


Q ss_pred             HHHHhccchHHHHHHHHHhhcCCChh------HHHHHHHHHHhcCChhHHHH
Q 023915          143 HILISGKLLKDAYVVVKDNSESISHP------AIKKFASAFVRLGNINLVND  188 (275)
Q Consensus       143 ~~~~~~~~~~~a~~~~~~~~~~~~~~------~~~~li~~~~~~~~~~~a~~  188 (275)
                      ..+...|++++|...|++....+..+      ....++.++ ..|+.+.+..
T Consensus       203 ~~~~~~g~~~~A~~~~~~al~~p~~~~~~e~~~l~~l~~~~-~~~d~~~~~~  253 (307)
T 2ifu_A          203 LVQLHRADYVAAQKCVRESYSIPGFSGSEDCAALEDLLQAY-DEQDEEQLLR  253 (307)
T ss_dssp             HHHHHTTCHHHHHHHHHHHTTSTTSTTSHHHHHHHHHHHHH-HTTCHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHHH-HhcCHHHHHH
Confidence            77788899999999999976211111      233444444 4566655555

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.65  E-value=2.2e-06  Score=63.16  Aligned_cols=154  Identities=8%  Similarity=-0.045  Sum_probs=100.1

Q ss_pred             HccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHc----CCCC-CHHhHHHHHHHHhccCC
Q 023915           41 CRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRK----GHQP-EEELCSSLIFHLGKMRA  115 (275)
Q Consensus        41 ~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~----g~~~-~~~~~~~li~~~~~~g~  115 (275)
                      ...|++++|.+.++..... ......++..+...+...|+++.|...+++..+.    |..| ...++..+-..+...|+
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            4578889998855544331 1134567788888888899999999988887652    2222 23467777788888899


Q ss_pred             HHHHHHHHHHHHhc----ccc--ccHHhHHHHHHHHHhccchHHHHHHHHHhhc----CCChh----HHHHHHHHHHhcC
Q 023915          116 HSEALSVYNMLRYS----KRS--MCKALHEKILHILISGKLLKDAYVVVKDNSE----SISHP----AIKKFASAFVRLG  181 (275)
Q Consensus       116 ~~~a~~~~~~m~~~----~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~----~~~~~----~~~~li~~~~~~~  181 (275)
                      +++|...+++....    +..  .....+..+-..+...|++++|...+++...    .+.+.    .+..+...+...|
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            99888888876543    211  2234566677777778888888888776543    22222    2455667777778


Q ss_pred             ChhHHHHHHHHHHH
Q 023915          182 NINLVNDVMKAIHA  195 (275)
Q Consensus       182 ~~~~a~~~~~~m~~  195 (275)
                      ++++|...+++..+
T Consensus       162 ~~~~A~~~~~~al~  175 (203)
T 3gw4_A          162 NLLEAQQHWLRARD  175 (203)
T ss_dssp             CHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHH
Confidence            88877777766544

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=98.62  E-value=7.8e-07  Score=64.50  Aligned_cols=58  Identities=12%  Similarity=0.163  Sum_probs=29.5

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHhhcCCCCC-hhhHHHHHHHHHccCCHHHHHHHHHHHH
Q 023915           33 LNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYILAYRTMVDMH   92 (275)
Q Consensus        33 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~~a~~~~~~m~   92 (275)
                      +..+...+.+.|++++|...|++..+  ..|+ ...+..+...+.+.|++++|...++...
T Consensus         9 ~~~~a~~~~~~g~~~~A~~~~~~al~--~~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~   67 (176)
T 2r5s_A            9 LLKQVSELLQQGEHAQALNVIQTLSD--ELQSRGDVKLAKADCLLETKQFELAQELLATIP   67 (176)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSCH--HHHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCC
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHH--HCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhh
Confidence            33444445555555555555555443  2232 3344455555555555555555555544

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.62  E-value=7.2e-06  Score=64.53  Aligned_cols=167  Identities=7%  Similarity=0.020  Sum_probs=122.6

Q ss_pred             cHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCC-CCh----hhHHHHHHHHHccCCHHHHHHHHHHHHHcCC---CCC-
Q 023915           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAIS-PDY----NTFHILIKYFCKEKMYILAYRTMVDMHRKGH---QPE-   99 (275)
Q Consensus        29 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~-p~~----~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~---~~~-   99 (275)
                      ....+...+..+...|++++|.+.+.+..+..-. ++.    ..+..+...+...|+++.|+..+++..+...   .+. 
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            5677777888999999999999999887764321 111    2344566677888999999999999875322   122 


Q ss_pred             -HHhHHHHHHHHhccCCHHHHHHHHHHHHhc----cccc--cHHhHHHHHHHHHhccchHHHHHHHHHhhcC----CC--
Q 023915          100 -EELCSSLIFHLGKMRAHSEALSVYNMLRYS----KRSM--CKALHEKILHILISGKLLKDAYVVVKDNSES----IS--  166 (275)
Q Consensus       100 -~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~~--~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~--  166 (275)
                       ..+|+.+-..|...|++++|...|+.....    +..+  ...++..+-..|...|++++|...+++....    ..  
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             348888999999999999999999987631    1111  2257888899999999999999999875431    11  


Q ss_pred             --hhHHHHHHHHHHhcCChhHH-HHHHHHHHH
Q 023915          167 --HPAIKKFASAFVRLGNINLV-NDVMKAIHA  195 (275)
Q Consensus       167 --~~~~~~li~~~~~~~~~~~a-~~~~~~m~~  195 (275)
                        ...|..+...|...|+.++| ...++....
T Consensus       234 ~~~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~  265 (293)
T 2qfc_A          234 LIGQLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             SHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHH
Confidence              23677888899999999999 776766443

>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=98.62  E-value=1.1e-06  Score=68.91  Aligned_cols=195  Identities=7%  Similarity=-0.099  Sum_probs=124.1

Q ss_pred             cHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCC-ChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHH
Q 023915           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP-DYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLI  107 (275)
Q Consensus        29 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li  107 (275)
                      +...+..+-..+.+.|++++|+..|++..+.  .| +...|..+...+.+.|+++.|...+++..+.. +-+...+..+.
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg   79 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLG   79 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            5567788888899999999999999998874  35 56778888899999999999999999988653 33566888899


Q ss_pred             HHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhcCCChhHHHHHHHHHHhcCChhHHH
Q 023915          108 FHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSESISHPAIKKFASAFVRLGNINLVN  187 (275)
Q Consensus       108 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~  187 (275)
                      .+|.+.|++++|...|+.......... ..+...+....+......... ... ...+..+.....+..+ ..|+.++|.
T Consensus        80 ~~~~~~g~~~~A~~~~~~al~l~p~~~-~~~~~~~~~~~~~~~~~~~~~-~~~-~~~~~~~~i~~~l~~l-~~~~~~~A~  155 (281)
T 2c2l_A           80 QCQLEMESYDEAIANLQRAYSLAKEQR-LNFGDDIPSALRIAKKKRWNS-IEE-RRIHQESELHSYLTRL-IAAEREREL  155 (281)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTT-CCCCSHHHHHHHHHHHHHHHH-HHH-TCCCCCCHHHHHHHHH-HHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCccch-hhHHHHHHHHHHHHHHHHHHH-HHH-HHHhhhHHHHHHHHHH-HHHHHHHHH
Confidence            999999999999999988765432110 011111221111111111111 111 1222223333333333 368888888


Q ss_pred             HHHHHHHHcCCCCChhhHHHHHHH-HHHhchhHHHHHHHHHHHhhC
Q 023915          188 DVMKAIHATGYRIDQGIFHIAIAR-YIAEREKKELLLKLLEWMTGQ  232 (275)
Q Consensus       188 ~~~~~m~~~g~~p~~~~y~~li~~-~~~~~~~~~~a~~l~~~m~~~  232 (275)
                      +.++...+  ..|+......-+.. +....+.++++.++|.+..+.
T Consensus       156 ~~~~~al~--~~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~~  199 (281)
T 2c2l_A          156 EECQRNHE--GHEDDGHIRAQQACIEAKHDKYMADMDELFSQVDEK  199 (281)
T ss_dssp             TTTSGGGT--TTSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSCT
T ss_pred             HHHHhhhc--cccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence            88776555  35665433333333 332347788899999887653

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.60  E-value=3.7e-06  Score=56.40  Aligned_cols=98  Identities=17%  Similarity=0.085  Sum_probs=73.7

Q ss_pred             HHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHH
Q 023915           30 VVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFH  109 (275)
Q Consensus        30 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~  109 (275)
                      ...|..+...+...|++++|.+.|+++.+.. +.+..++..+...+.+.|+++.|...++++.+.. +.+..++..+...
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            5677778888888888888888888877642 2345667777888888888888888888887653 3456677777888


Q ss_pred             HhccCCHHHHHHHHHHHHhc
Q 023915          110 LGKMRAHSEALSVYNMLRYS  129 (275)
Q Consensus       110 ~~~~g~~~~a~~~~~~m~~~  129 (275)
                      +.+.|++++|...++.....
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~  106 (125)
T 1na0_A           87 YYKQGDYDEAIEYYQKALEL  106 (125)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHh
Confidence            88888888888888876654

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.59  E-value=7.4e-06  Score=64.48  Aligned_cols=165  Identities=10%  Similarity=-0.037  Sum_probs=120.7

Q ss_pred             ChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCC-H----HhHHHHHHHHhccCCHHHHHHHHHHHHhcc---ccc--
Q 023915           64 DYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPE-E----ELCSSLIFHLGKMRAHSEALSVYNMLRYSK---RSM--  133 (275)
Q Consensus        64 ~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~-~----~~~~~li~~~~~~g~~~~a~~~~~~m~~~~---~~~--  133 (275)
                      ....+...+..+...|+++.|...+.+..+.....+ .    ..+..+...+...|++++|...++......   ..+  
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            345677788899999999999999998876542221 1    234456677788899999999999876431   111  


Q ss_pred             cHHhHHHHHHHHHhccchHHHHHHHHHhhc----CCCh-----hHHHHHHHHHHhcCChhHHHHHHHHHHHc----CCCC
Q 023915          134 CKALHEKILHILISGKLLKDAYVVVKDNSE----SISH-----PAIKKFASAFVRLGNINLVNDVMKAIHAT----GYRI  200 (275)
Q Consensus       134 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~----~~~~-----~~~~~li~~~~~~~~~~~a~~~~~~m~~~----g~~p  200 (275)
                      ...+++.+-..|...|++++|...+++...    .+..     ..+..+...|...|++++|...++...+.    +..+
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            144788899999999999999999998652    2221     36778889999999999999999986653    1111


Q ss_pred             C-hhhHHHHHHHHHHhchhHHHH-HHHHHHH
Q 023915          201 D-QGIFHIAIARYIAEREKKELL-LKLLEWM  229 (275)
Q Consensus       201 ~-~~~y~~li~~~~~~~~~~~~a-~~l~~~m  229 (275)
                      . ..+|..+-..|. ..|+.++| ...+++.
T Consensus       234 ~~~~~~~~lg~~y~-~~g~~~~Ai~~~~~~A  263 (293)
T 2qfc_A          234 LIGQLYYQRGECLR-KLEYEEAEIEDAYKKA  263 (293)
T ss_dssp             SHHHHHHHHHHHHH-HTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH-HcCCcHHHHHHHHHHH
Confidence            1 456777777775 66888888 6666654

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=98.59  E-value=3.1e-06  Score=60.13  Aligned_cols=131  Identities=11%  Similarity=0.017  Sum_probs=96.5

Q ss_pred             cHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHH
Q 023915           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIF  108 (275)
Q Consensus        29 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~  108 (275)
                      ....+..+...+...|++++|...|++..+.. +.+..++..+...+...|+++.|...+++..+.. +.+...+..+..
T Consensus        12 ~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~   89 (166)
T 1a17_A           12 RAEELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAA   89 (166)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHH
Confidence            34567777788888899999999988887642 2246677788888888899999999998888763 345667888888


Q ss_pred             HHhccCCHHHHHHHHHHHHhccccccHHhH--HHHHHHHHhccchHHHHHHHHHhh
Q 023915          109 HLGKMRAHSEALSVYNMLRYSKRSMCKALH--EKILHILISGKLLKDAYVVVKDNS  162 (275)
Q Consensus       109 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~--~~li~~~~~~~~~~~a~~~~~~~~  162 (275)
                      ++.+.|++++|...|+......... ...+  ......+...|++++|...+....
T Consensus        90 ~~~~~~~~~~A~~~~~~a~~~~p~~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  144 (166)
T 1a17_A           90 SNMALGKFRAALRDYETVVKVKPHD-KDAKMKYQECNKIVKQKAFERAIAGDEHKR  144 (166)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTTC-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhccHHHHHHHHHHHHHhCCCC-HHHHHHHHHHHHHHHHHHHHHHHHcccchH
Confidence            8888999999999998877653322 2233  334444667888888888887653

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.57  E-value=2.7e-06  Score=57.10  Aligned_cols=106  Identities=16%  Similarity=0.107  Sum_probs=85.1

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHH
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYI   82 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~   82 (275)
                      ..+.+.|++++|.+.|+.+..... .+..++..+...+.+.|++++|...|+++.+.. +.+..++..+...+.+.|+++
T Consensus        17 ~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~   94 (125)
T 1na0_A           17 NAYYKQGDYDEAIEYYQKALELDP-NNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYD   94 (125)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCc-CcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHH
Confidence            457789999999999999988643 367889999999999999999999999998753 345678889999999999999


Q ss_pred             HHHHHHHHHHHcCCCCCHHhHHHHHHHHh
Q 023915           83 LAYRTMVDMHRKGHQPEEELCSSLIFHLG  111 (275)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~  111 (275)
                      .|...++++.+.. +.+...+..+-..+.
T Consensus        95 ~A~~~~~~~~~~~-~~~~~~~~~l~~~~~  122 (125)
T 1na0_A           95 EAIEYYQKALELD-PNNAEAKQNLGNAKQ  122 (125)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHHHHHHH
Confidence            9999999998764 233445554444443

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.57  E-value=0.00019  Score=59.34  Aligned_cols=192  Identities=8%  Similarity=-0.066  Sum_probs=139.0

Q ss_pred             hhhhcCcHHHHHHHHHHHHhcCCCCc----------------HHhHHHHHHHHHccCCHHHHHHHHHHHhhc-CCCCChh
Q 023915            4 AFCRGGCFEEAKQLAGDFEAKYDKYD----------------VVLLNSMLCAYCRTGDMESVMHVMRKLDEL-AISPDYN   66 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~g~~p~----------------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-g~~p~~~   66 (275)
                      .+.+.|++++|.+.|..+.+.....+                ..++..+...|...|++++|.+.+...... +-.++..
T Consensus        13 ~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~~   92 (434)
T 4b4t_Q           13 RLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKSK   92 (434)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccchH
Confidence            46788999999999999987533211                124788999999999999999999887652 1112221


Q ss_pred             ----hHHHHHHHHHccCCHHHHHHHHHHHHH----cCCCCC-HHhHHHHHHHHhccCCHHHHHHHHHHHHhc----c-cc
Q 023915           67 ----TFHILIKYFCKEKMYILAYRTMVDMHR----KGHQPE-EELCSSLIFHLGKMRAHSEALSVYNMLRYS----K-RS  132 (275)
Q Consensus        67 ----t~~~li~~~~~~~~~~~a~~~~~~m~~----~g~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~-~~  132 (275)
                          ..+.+-..+...|+.+.|..+++....    .+..+. ..++..+...|...|++++|..++++....    + .+
T Consensus        93 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~  172 (434)
T 4b4t_Q           93 TVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDDKP  172 (434)
T ss_dssp             HHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCST
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhcccch
Confidence                222333344456899999999988763    344444 347788999999999999999999987642    1 22


Q ss_pred             ccHHhHHHHHHHHHhccchHHHHHHHHHhhc----CCChh-----HHHHHHHHHHhcCChhHHHHHHHHHHH
Q 023915          133 MCKALHEKILHILISGKLLKDAYVVVKDNSE----SISHP-----AIKKFASAFVRLGNINLVNDVMKAIHA  195 (275)
Q Consensus       133 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~----~~~~~-----~~~~li~~~~~~~~~~~a~~~~~~m~~  195 (275)
                      .....+......|...|++++|...+++...    .+.++     .+..+...+...++++.|...|.+..+
T Consensus       173 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          173 SLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESFE  244 (434)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            2345788899999999999999999987543    23332     345566777888999999888876544

>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=98.57  E-value=2.5e-05  Score=68.55  Aligned_cols=232  Identities=9%  Similarity=-0.011  Sum_probs=153.6

Q ss_pred             HHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHH-HHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHH
Q 023915           12 EEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVM-HVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVD   90 (275)
Q Consensus        12 ~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~-~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~   90 (275)
                      +.+..+|++....-+. +...|-....-+.+.|+.++|. ++|+..... ++.+...|-..+...-+.|+++.|..+|+.
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 ARMTYVYMQAAQHVCF-APEIWFNMANYQGEKNTDSTVITKYLKLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETTILS  403 (679)
T ss_dssp             HHHHHHHHHHHHHTTT-CHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCC-CHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            4455667777665332 6667777777777788888886 888888752 334455566777788888999999999998


Q ss_pred             HHHcC---------CCCC------------HHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHh-c
Q 023915           91 MHRKG---------HQPE------------EELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILIS-G  148 (275)
Q Consensus        91 m~~~g---------~~~~------------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~-~  148 (275)
                      +....         -.|+            ..+|...+....+.|+.+.|..+|....+.........|......--+ .
T Consensus       404 ~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~~~  483 (679)
T 4e6h_A          404 CIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYHIS  483 (679)
T ss_dssp             HHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHhC
Confidence            87641         0132            236777777778888999999999988765222222334332222223 3


Q ss_pred             cchHHHHHHHHHhhc--CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCC--ChhhHHHHHHHHHHhchhHHHHHH
Q 023915          149 KLLKDAYVVVKDNSE--SISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRI--DQGIFHIAIARYIAEREKKELLLK  224 (275)
Q Consensus       149 ~~~~~a~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p--~~~~y~~li~~~~~~~~~~~~a~~  224 (275)
                      ++.+.|..+|+...+  ..++..+..++......|+.+.|..+|+........+  ....|...+.- =...|..+.+.+
T Consensus       484 ~d~e~Ar~ife~~Lk~~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~f-E~~~G~~~~~~~  562 (679)
T 4e6h_A          484 KDTKTACKVLELGLKYFATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFF-ESKVGSLNSVRT  562 (679)
T ss_dssp             SCCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHH-HHHTCCSHHHHH
T ss_pred             CCHHHHHHHHHHHHHHCCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH-HHHcCCHHHHHH
Confidence            458899999988665  2333455677888888899999999998877653211  22355555543 346688888999


Q ss_pred             HHHHHhhCCCCCChhhHHHHHHHH
Q 023915          225 LLEWMTGQGYVVDSSTRNLILKNS  248 (275)
Q Consensus       225 l~~~m~~~~~~p~~~t~~~li~~~  248 (275)
                      +.+++.+.  .|+......+++-|
T Consensus       563 v~~R~~~~--~P~~~~~~~f~~ry  584 (679)
T 4e6h_A          563 LEKRFFEK--FPEVNKLEEFTNKY  584 (679)
T ss_dssp             HHHHHHHH--STTCCHHHHHHHHT
T ss_pred             HHHHHHHh--CCCCcHHHHHHHHh
Confidence            99888765  35555555555555

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=98.56  E-value=6e-06  Score=58.62  Aligned_cols=126  Identities=7%  Similarity=-0.118  Sum_probs=77.7

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHH
Q 023915           67 TFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILI  146 (275)
Q Consensus        67 t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  146 (275)
                      .+..+...+...|+++.|...|++..+.. +.+..++..+...+...|++++|...++....... .+...+..+-..+.
T Consensus        15 ~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~~a~~~~   92 (166)
T 1a17_A           15 ELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDK-KYIKGYYRRAASNM   92 (166)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHH
Confidence            45566666777777777777777766543 23455666677777777777777777776654432 23445666666777


Q ss_pred             hccchHHHHHHHHHhhcC-C-ChhHHH--HHHHHHHhcCChhHHHHHHHHHH
Q 023915          147 SGKLLKDAYVVVKDNSES-I-SHPAIK--KFASAFVRLGNINLVNDVMKAIH  194 (275)
Q Consensus       147 ~~~~~~~a~~~~~~~~~~-~-~~~~~~--~li~~~~~~~~~~~a~~~~~~m~  194 (275)
                      ..|++++|...+++.... + .+..+.  .....+...|++++|...+....
T Consensus        93 ~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  144 (166)
T 1a17_A           93 ALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEHKR  144 (166)
T ss_dssp             HTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHcccchH
Confidence            777777777777765542 2 222332  22333556677777777766544

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=98.56  E-value=9.7e-07  Score=62.29  Aligned_cols=113  Identities=13%  Similarity=0.058  Sum_probs=68.4

Q ss_pred             HHccCCHHHHHHHHHHHhhcCCCCC-hhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHH
Q 023915           40 YCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSE  118 (275)
Q Consensus        40 ~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~  118 (275)
                      +...|++++|++.+.....  ..|+ ...+-.+-..|.+.|+++.|...|++..+.. +-+..+|..+-..|.+.|++++
T Consensus         7 ~~~~~~~e~ai~~~~~a~~--~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~   83 (150)
T 4ga2_A            7 RRSKADVERYIASVQGSTP--SPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQ-ERDPKAHRFLGLLYELEENTDK   83 (150)
T ss_dssp             CCCHHHHHHHHHHHHHHSC--SHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHcChHHHHHHHHHHhcc--cCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCchHH
Confidence            3455667777777766554  2233 2344566677777777777777777777653 2345567777777777777777


Q ss_pred             HHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHH
Q 023915          119 ALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYV  156 (275)
Q Consensus       119 a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~  156 (275)
                      |...|+......+. +...+..+-..|.+.|+.++|.+
T Consensus        84 A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~aa~  120 (150)
T 4ga2_A           84 AVECYRRSVELNPT-QKDLVLKIAELLCKNDVTDGRAK  120 (150)
T ss_dssp             HHHHHHHHHHHCTT-CHHHHHHHHHHHHHHCSSSSHHH
T ss_pred             HHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCChHHHHH
Confidence            77777766543222 23345555555555555554433

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.54  E-value=6.8e-06  Score=55.87  Aligned_cols=101  Identities=12%  Similarity=0.046  Sum_probs=77.4

Q ss_pred             CCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHH
Q 023915           27 KYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSL  106 (275)
Q Consensus        27 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~l  106 (275)
                      ..+...|..+...+.+.|++++|.+.|++..+.. +.+...+..+...+...|++++|...+++..+.. +.+...+..+
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            3456678888888888889999988888887632 2256677788888888888888888888887753 3356677778


Q ss_pred             HHHHhccCCHHHHHHHHHHHHhc
Q 023915          107 IFHLGKMRAHSEALSVYNMLRYS  129 (275)
Q Consensus       107 i~~~~~~g~~~~a~~~~~~m~~~  129 (275)
                      ..++.+.|++++|.+.|+.....
T Consensus        91 a~~~~~~~~~~~A~~~~~~~~~~  113 (133)
T 2lni_A           91 AAALEAMKDYTKAMDVYQKALDL  113 (133)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHh
Confidence            88888888888888888877654

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=98.53  E-value=1.2e-06  Score=63.32  Aligned_cols=123  Identities=10%  Similarity=-0.018  Sum_probs=86.0

Q ss_pred             hhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHH-HHccCCH--
Q 023915            5 FCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKY-FCKEKMY--   81 (275)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~-~~~~~~~--   81 (275)
                      +...|++++|...++........ +...|..+...+...|++++|...|++..+.. +.+...+..+... +...|++  
T Consensus        20 ~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~~~~~   97 (177)
T 2e2e_A           20 FASQQNPEAQLQALQDKIRANPQ-NSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQASQHMT   97 (177)
T ss_dssp             CC-----CCCCHHHHHHHHHCCS-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTTTCCC
T ss_pred             hhhccCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCCcch
Confidence            45677888888888887766433 66778888888888888888888888877632 1244556666666 6677887  


Q ss_pred             HHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhcc
Q 023915           82 ILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSK  130 (275)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  130 (275)
                      +.|...+++..+.. +-+...+..+...|...|++++|...|+......
T Consensus        98 ~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  145 (177)
T 2e2e_A           98 AQTRAMIDKALALD-SNEITALMLLASDAFMQANYAQAIELWQKVMDLN  145 (177)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhC
Confidence            88888888887653 3345677777778888888888888888776543

>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=98.51  E-value=1.5e-05  Score=69.90  Aligned_cols=203  Identities=11%  Similarity=0.007  Sum_probs=153.5

Q ss_pred             hhhcCcHHHHH-HHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcC---------CCCC----------
Q 023915            5 FCRGGCFEEAK-QLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA---------ISPD----------   64 (275)
Q Consensus         5 ~~~~g~~~~a~-~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g---------~~p~----------   64 (275)
                      +-+.|+.++|. ++|+...... +.+...|-..+...-+.|+++.|.++|+.+.+..         -.|+          
T Consensus       353 ~~~~~~~~~a~r~il~rAi~~~-P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~  431 (679)
T 4e6h_A          353 QGEKNTDSTVITKYLKLGQQCI-PNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKS  431 (679)
T ss_dssp             HHHHSCCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHH
T ss_pred             HHhcCcHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhcc
Confidence            34567788896 9999988753 3466677888888889999999999999988641         0142          


Q ss_pred             --hhhHHHHHHHHHccCCHHHHHHHHHHHHHc-C-CCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHH
Q 023915           65 --YNTFHILIKYFCKEKMYILAYRTMVDMHRK-G-HQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEK  140 (275)
Q Consensus        65 --~~t~~~li~~~~~~~~~~~a~~~~~~m~~~-g-~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~  140 (275)
                        ...|...+....+.|+.+.|..+|...++. + ..+......+.+...+ .++.+.|.++|+...+. .+-+...+..
T Consensus       432 ~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~~-~~d~e~Ar~ife~~Lk~-~p~~~~~w~~  509 (679)
T 4e6h_A          432 KLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYHI-SKDTKTACKVLELGLKY-FATDGEYINK  509 (679)
T ss_dssp             HHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHTT-TSCCHHHHHHHHHHHHH-HTTCHHHHHH
T ss_pred             chHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHh-CCCHHHHHHHHHHHHHH-CCCchHHHHH
Confidence              236788888888899999999999999876 2 2233333333444322 35699999999988765 3334556778


Q ss_pred             HHHHHHhccchHHHHHHHHHhhcCCC-----hhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHH
Q 023915          141 ILHILISGKLLKDAYVVVKDNSESIS-----HPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARY  212 (275)
Q Consensus       141 li~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~  212 (275)
                      .++.....|+.+.|..+|+.......     ...|..++..-.+.|+.+.+..+.+.+.+.  .|+......+++.|
T Consensus       510 y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~--~P~~~~~~~f~~ry  584 (679)
T 4e6h_A          510 YLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEK--FPEVNKLEEFTNKY  584 (679)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHH--STTCCHHHHHHHHT
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCcHHHHHHHHh
Confidence            88888889999999999999877443     236788888888999999999999999986  47777777777776

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.48  E-value=6.9e-06  Score=63.79  Aligned_cols=185  Identities=10%  Similarity=-0.066  Sum_probs=95.7

Q ss_pred             hcCcHHHHHHHHHHHHhcCCCCcHHhHHHH-------HHHHHccCCHHHHHHHHHHHhhcCCCCChh-------------
Q 023915            7 RGGCFEEAKQLAGDFEAKYDKYDVVLLNSM-------LCAYCRTGDMESVMHVMRKLDELAISPDYN-------------   66 (275)
Q Consensus         7 ~~g~~~~a~~~~~~m~~~g~~p~~~~~~~l-------i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~-------------   66 (275)
                      ..++...|.+.|....+..+. ....|..+       ...+.+.++..+++..+..-.  ++.|+..             
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-ACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSV--QISMSTLNARIAIGGLYGDI   94 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTT--TCCGGGGCCEEECCTTTCCC
T ss_pred             cCCCHHHHHHHHHHHHHhChh-hhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHh--cCChhhhhhhhccCCccccc
Confidence            467777777777777766433 44456555       233333333444433333322  2333221             


Q ss_pred             ---------hHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccc-cHH
Q 023915           67 ---------TFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSM-CKA  136 (275)
Q Consensus        67 ---------t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~-~~~  136 (275)
                               ..-.....+...|++++|.++|+.+...+  |+......+-..+.+.+++++|+..|+.......+. ...
T Consensus        95 ~~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~d~~~~~~  172 (282)
T 4f3v_A           95 TYPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWPDKFLAGA  172 (282)
T ss_dssp             EEECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCSCHHHHHH
T ss_pred             ccccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccCCcccHHH
Confidence                     11234445566677777777776665432  433344444445666667777766665332211110 122


Q ss_pred             hHHHHHHHHHhccchHHHHHHHHHhhcCCC-hh----HHHHHHHHHHhcCChhHHHHHHHHHHHc
Q 023915          137 LHEKILHILISGKLLKDAYVVVKDNSESIS-HP----AIKKFASAFVRLGNINLVNDVMKAIHAT  196 (275)
Q Consensus       137 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~-~~----~~~~li~~~~~~~~~~~a~~~~~~m~~~  196 (275)
                      .+..+-.++...|++++|+..|++....+. |.    .....-.++.+.|+.++|..+|+++...
T Consensus       173 a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~  237 (282)
T 4f3v_A          173 AGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTT  237 (282)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            444555566666666666666666554332 11    2233445556666666666666666654

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.47  E-value=6.3e-06  Score=56.19  Aligned_cols=103  Identities=13%  Similarity=-0.026  Sum_probs=81.1

Q ss_pred             CCCcH-HhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHH
Q 023915           26 DKYDV-VLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCS  104 (275)
Q Consensus        26 ~~p~~-~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~  104 (275)
                      +.|+. ..+...-..|.+.|++++|++.|++..+.. +.+...|..+..++.+.|+++.|+..|++..+.. +.+...|.
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            34443 467778888899999999999998887732 2346678888888999999999999999988763 34567888


Q ss_pred             HHHHHHhccCCHHHHHHHHHHHHhcc
Q 023915          105 SLIFHLGKMRAHSEALSVYNMLRYSK  130 (275)
Q Consensus       105 ~li~~~~~~g~~~~a~~~~~~m~~~~  130 (275)
                      .+-.+|...|++++|.+.|+...+..
T Consensus        86 ~lg~~~~~~~~~~~A~~~~~~al~l~  111 (126)
T 4gco_A           86 RKAACLVAMREWSKAQRAYEDALQVD  111 (126)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHC
Confidence            88889999999999999998877543

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.45  E-value=1.1e-05  Score=54.41  Aligned_cols=118  Identities=13%  Similarity=0.064  Sum_probs=76.2

Q ss_pred             cHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHH
Q 023915           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIF  108 (275)
Q Consensus        29 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~  108 (275)
                      +...+..+...+...|++++|.+.|++..+.. +.+...+..+...+...|+++.|...++...+.. +.+...+..+..
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~   88 (131)
T 2vyi_A           11 EAERLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGL   88 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHH
Confidence            45566777777777888888888887776532 2245566777777777788888888877777653 334556677777


Q ss_pred             HHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhcc
Q 023915          109 HLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGK  149 (275)
Q Consensus       109 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~  149 (275)
                      .+.+.|++++|...|+........ +...+..+...+...|
T Consensus        89 ~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~l~~~~~~~~  128 (131)
T 2vyi_A           89 ALSSLNKHVEAVAYYKKALELDPD-NETYKSNLKIAELKLR  128 (131)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHT
T ss_pred             HHHHhCCHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHHh
Confidence            777777777777777766544322 2234444444444443

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.45  E-value=7.6e-06  Score=55.29  Aligned_cols=111  Identities=13%  Similarity=0.054  Sum_probs=90.8

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHH
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYI   82 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~   82 (275)
                      ..+...|++++|...|+........ +...+..+...+...|++++|.+.++...+.. +.+...+..+...+.+.|+++
T Consensus        20 ~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~   97 (131)
T 2vyi_A           20 NEQMKVENFEAAVHFYGKAIELNPA-NAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGLALSSLNKHV   97 (131)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHccCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHHHHHHhCCHH
Confidence            4567889999999999999876433 67889999999999999999999999988742 234667888889999999999


Q ss_pred             HHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCH
Q 023915           83 LAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAH  116 (275)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~  116 (275)
                      .|...|++..+.. +.+...+..+..++.+.|+.
T Consensus        98 ~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           98 EAVAYYKKALELD-PDNETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHhcC-ccchHHHHHHHHHHHHHhcC
Confidence            9999999998764 33556777777777776654

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=98.44  E-value=1.7e-06  Score=60.88  Aligned_cols=98  Identities=18%  Similarity=-0.005  Sum_probs=73.0

Q ss_pred             cHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCC-ChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHH
Q 023915           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP-DYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLI  107 (275)
Q Consensus        29 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li  107 (275)
                      +...+..+-..+.+.|++++|+..|+.....  .| +...|..+..++.+.|++++|...|++..+.. +-+...+..+-
T Consensus        20 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg   96 (148)
T 2vgx_A           20 TLEQLYSLAFNQYQSGXYEDAHXVFQALCVL--DHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-IXEPRFPFHAA   96 (148)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCChHHHHHHHHHHHHc--CcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHH
Confidence            4456677777888888888888888887763  34 45567777778888888888888888887653 33456777788


Q ss_pred             HHHhccCCHHHHHHHHHHHHhc
Q 023915          108 FHLGKMRAHSEALSVYNMLRYS  129 (275)
Q Consensus       108 ~~~~~~g~~~~a~~~~~~m~~~  129 (275)
                      .+|...|++++|...|+.....
T Consensus        97 ~~~~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A           97 ECLLQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHH
Confidence            8888888888888888876543

>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=98.42  E-value=8.4e-06  Score=65.62  Aligned_cols=122  Identities=9%  Similarity=-0.048  Sum_probs=74.1

Q ss_pred             cHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCC----------------hhhHHHHHHHHHccCCHHHHHHHHHHHH
Q 023915           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD----------------YNTFHILIKYFCKEKMYILAYRTMVDMH   92 (275)
Q Consensus        29 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~----------------~~t~~~li~~~~~~~~~~~a~~~~~~m~   92 (275)
                      +...|..+-..+.+.|++++|+..|++..+.  .|+                ...|..+..++.+.|++++|+..+++..
T Consensus       146 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al  223 (336)
T 1p5q_A          146 QSTIVKERGTVYFKEGKYKQALLQYKKIVSW--LEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKAL  223 (336)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--TTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--hhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3456666677777777777777777776653  233                2566666666667777777777777666


Q ss_pred             HcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHH
Q 023915           93 RKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDA  154 (275)
Q Consensus        93 ~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a  154 (275)
                      +.. +.+...|..+-.+|...|++++|...|+......+. +...+..+-..+...|+.++|
T Consensus       224 ~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~-~~~a~~~l~~~~~~~~~~~~a  283 (336)
T 1p5q_A          224 ELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPN-NKAAKTQLAVCQQRIRRQLAR  283 (336)
T ss_dssp             HHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHHHHHHHH
Confidence            543 234556666666666666666666666665543222 223455555555555555555

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.41  E-value=1.4e-05  Score=56.35  Aligned_cols=97  Identities=10%  Similarity=0.015  Sum_probs=67.2

Q ss_pred             HHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCC-ChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHH
Q 023915           30 VVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP-DYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIF  108 (275)
Q Consensus        30 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~  108 (275)
                      ...+..+-..+.+.|++++|++.|+...+.  .| +...|..+-.++.+.|++++|...|++..+.. +-+...|..+-.
T Consensus        36 ~~~~~~lg~~~~~~g~~~eA~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~-P~~~~~~~~lg~  112 (151)
T 3gyz_A           36 MDDIYSYAYDFYNKGRIEEAEVFFRFLCIY--DFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALG-KNDYTPVFHTGQ  112 (151)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SSCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-CCCcHHHHHHHH
Confidence            345666667777777777777777777763  34 34566677777777777777777777777653 234556777777


Q ss_pred             HHhccCCHHHHHHHHHHHHhc
Q 023915          109 HLGKMRAHSEALSVYNMLRYS  129 (275)
Q Consensus       109 ~~~~~g~~~~a~~~~~~m~~~  129 (275)
                      +|.+.|++++|...|+.....
T Consensus       113 ~~~~lg~~~eA~~~~~~al~l  133 (151)
T 3gyz_A          113 CQLRLKAPLKAKECFELVIQH  133 (151)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHh
Confidence            777777777777777776654

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.39  E-value=1.7e-05  Score=53.80  Aligned_cols=98  Identities=11%  Similarity=-0.078  Sum_probs=62.2

Q ss_pred             CChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHH
Q 023915           63 PDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKIL  142 (275)
Q Consensus        63 p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li  142 (275)
                      .+...+..+...+.+.|+++.|...|++..+.. +.+...+..+...+...|++++|...++........ +...+..+-
T Consensus        14 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la   91 (133)
T 2lni_A           14 DLALMVKNKGNECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPT-FIKGYTRKA   91 (133)
T ss_dssp             CHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCC-chHHHHHHH
Confidence            344566777777778888888888888777542 235566777777777777777777777766543222 233455555


Q ss_pred             HHHHhccchHHHHHHHHHhh
Q 023915          143 HILISGKLLKDAYVVVKDNS  162 (275)
Q Consensus       143 ~~~~~~~~~~~a~~~~~~~~  162 (275)
                      ..+...|++++|...+++..
T Consensus        92 ~~~~~~~~~~~A~~~~~~~~  111 (133)
T 2lni_A           92 AALEAMKDYTKAMDVYQKAL  111 (133)
T ss_dssp             HHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHH
Confidence            55555566666655555543

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.39  E-value=0.00043  Score=54.72  Aligned_cols=217  Identities=7%  Similarity=-0.009  Sum_probs=153.2

Q ss_pred             CcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccC--CHHHHHHHHHHHhhcCCCCChh-hHHHHHHHH----Hcc---
Q 023915            9 GCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTG--DMESVMHVMRKLDELAISPDYN-TFHILIKYF----CKE---   78 (275)
Q Consensus         9 g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g--~~~~a~~~~~~m~~~g~~p~~~-t~~~li~~~----~~~---   78 (275)
                      ...++|+++++.+...++. +...||.--..+...|  ++++++++++.+...  .|... +|+.--..+    .+.   
T Consensus        47 e~s~~aL~~t~~~L~~nP~-~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~--nPk~y~aW~~R~~iL~~~~~~l~~~  123 (306)
T 3dra_A           47 EYSERALHITELGINELAS-HYTIWIYRFNILKNLPNRNLYDELDWCEEIALD--NEKNYQIWNYRQLIIGQIMELNNND  123 (306)
T ss_dssp             CCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHH--CTTCCHHHHHHHHHHHHHHHHTTTC
T ss_pred             CCCHHHHHHHHHHHHHCcH-HHHHHHHHHHHHHHcccccHHHHHHHHHHHHHH--CcccHHHHHHHHHHHHHHHHhcccc
Confidence            3446899999998887554 5667888777888888  999999999999874  35433 344332222    344   


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHH--HHHHHHHHHHhccccccHHhHHHHHHHHHhccc------
Q 023915           79 KMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHS--EALSVYNMLRYSKRSMCKALHEKILHILISGKL------  150 (275)
Q Consensus        79 ~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~--~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~------  150 (275)
                      +++++++.+++.+.+.. +-|..+|+.--..+.+.|.++  ++++.++.+....+.- -..|+..-..+...++      
T Consensus       124 ~~~~~EL~~~~~~l~~~-pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~~N-~sAW~~R~~ll~~l~~~~~~~~  201 (306)
T 3dra_A          124 FDPYREFDILEAMLSSD-PKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDLKN-NSAWSHRFFLLFSKKHLATDNT  201 (306)
T ss_dssp             CCTHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCTTC-HHHHHHHHHHHHSSGGGCCHHH
T ss_pred             CCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCCCC-HHHHHHHHHHHHhccccchhhh
Confidence            78999999999999763 557778887777777788887  9999999888765443 3356655555556665      


Q ss_pred             hHHHHHHHHHhhc--CCChhHHHHHHHHHHhcCChh-HHHHHHHHHHHcC--CCCChhhHHHHHHHHHHhchhHHHHHHH
Q 023915          151 LKDAYVVVKDNSE--SISHPAIKKFASAFVRLGNIN-LVNDVMKAIHATG--YRIDQGIFHIAIARYIAEREKKELLLKL  225 (275)
Q Consensus       151 ~~~a~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~-~a~~~~~~m~~~g--~~p~~~~y~~li~~~~~~~~~~~~a~~l  225 (275)
                      ++++++.+++...  ..+...++-.-..+.+.|+.. .+..+...+.+.+  -..+...+..+...|. +.|+.++|.++
T Consensus       202 ~~eEl~~~~~aI~~~p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~-~~~~~~~A~~~  280 (306)
T 3dra_A          202 IDEELNYVKDKIVKCPQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYT-QQKKYNESRTV  280 (306)
T ss_dssp             HHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHH-HTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHH-ccCCHHHHHHH
Confidence            8888888887655  344446766666777777643 4555665554432  1235677888888886 67889999999


Q ss_pred             HHHHhh
Q 023915          226 LEWMTG  231 (275)
Q Consensus       226 ~~~m~~  231 (275)
                      ++.+.+
T Consensus       281 ~~~l~~  286 (306)
T 3dra_A          281 YDLLKS  286 (306)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            999875

>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=98.37  E-value=9e-06  Score=55.47  Aligned_cols=98  Identities=14%  Similarity=0.077  Sum_probs=68.6

Q ss_pred             HHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCC-hhhHHHHHHHHHccCCHHHHHHHHHHHHHcC--CCCC----HHh
Q 023915           30 VVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYILAYRTMVDMHRKG--HQPE----EEL  102 (275)
Q Consensus        30 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g--~~~~----~~~  102 (275)
                      ...+..+-..+.+.|++++|++.|++..+.  .|+ ...|..+-.+|.+.|++++|+..+++..+..  ..++    ..+
T Consensus         8 A~a~~~lG~~~~~~~~~~~A~~~y~~Al~~--~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~   85 (127)
T 4gcn_A            8 AIAEKDLGNAAYKQKDFEKAHVHYDKAIEL--DPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKA   85 (127)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHH
Confidence            345667777788888888888888877763  344 4567777778888888888888888776532  1111    135


Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHHhc
Q 023915          103 CSSLIFHLGKMRAHSEALSVYNMLRYS  129 (275)
Q Consensus       103 ~~~li~~~~~~g~~~~a~~~~~~m~~~  129 (275)
                      |..+-.++...|++++|.+.|+.....
T Consensus        86 ~~~lg~~~~~~~~~~~A~~~~~kal~~  112 (127)
T 4gcn_A           86 MSRAGNAFQKQNDLSLAVQWFHRSLSE  112 (127)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            666777788888888888888876553

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.35  E-value=1.8e-05  Score=53.86  Aligned_cols=101  Identities=15%  Similarity=0.051  Sum_probs=66.3

Q ss_pred             CCCCh-hhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHH
Q 023915           61 ISPDY-NTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHE  139 (275)
Q Consensus        61 ~~p~~-~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~  139 (275)
                      +.|+. ..+...-..|.+.|++++|+..|++..+.. +.+..+|..+-.+|.+.|++++|+..|+........ +...|.
T Consensus         8 inP~~a~~~~~~G~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~-~~~a~~   85 (126)
T 4gco_A            8 INPELAQEEKNKGNEYFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSK-FIKGYI   85 (126)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHH
T ss_pred             HCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhh-hhHHHH
Confidence            33443 345566667777777777777777776653 335566777777777777777777777766554322 234566


Q ss_pred             HHHHHHHhccchHHHHHHHHHhhc
Q 023915          140 KILHILISGKLLKDAYVVVKDNSE  163 (275)
Q Consensus       140 ~li~~~~~~~~~~~a~~~~~~~~~  163 (275)
                      .+-.++...|++++|.+.|++..+
T Consensus        86 ~lg~~~~~~~~~~~A~~~~~~al~  109 (126)
T 4gco_A           86 RKAACLVAMREWSKAQRAYEDALQ  109 (126)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHH
Confidence            677777777777777777777554

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.35  E-value=7.2e-06  Score=57.86  Aligned_cols=92  Identities=12%  Similarity=0.044  Sum_probs=80.6

Q ss_pred             hhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCC-hhhHHHHHHHHHccCCHH
Q 023915            4 AFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYI   82 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~   82 (275)
                      .+.+.|++++|...|+......+. +...|..+-.++...|++++|++.|++..+  +.|+ ...|..+-.++.+.|+++
T Consensus        45 ~~~~~g~~~eA~~~~~~al~~~P~-~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~--l~P~~~~~~~~lg~~~~~lg~~~  121 (151)
T 3gyz_A           45 DFYNKGRIEEAEVFFRFLCIYDFY-NVDYIMGLAAIYQIKEQFQQAADLYAVAFA--LGKNDYTPVFHTGQCQLRLKAPL  121 (151)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HSSSCCHHHHHHHHHHHHTTCHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHccHHHHHHHHHHHHh--hCCCCcHHHHHHHHHHHHcCCHH
Confidence            567899999999999999987554 788999999999999999999999999988  4454 567889999999999999


Q ss_pred             HHHHHHHHHHHcCCCCCH
Q 023915           83 LAYRTMVDMHRKGHQPEE  100 (275)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~  100 (275)
                      +|...|++..+..  |+.
T Consensus       122 eA~~~~~~al~l~--~~~  137 (151)
T 3gyz_A          122 KAKECFELVIQHS--NDE  137 (151)
T ss_dssp             HHHHHHHHHHHHC--CCH
T ss_pred             HHHHHHHHHHHhC--CCH
Confidence            9999999999864  554

>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=98.33  E-value=3e-05  Score=51.20  Aligned_cols=99  Identities=13%  Similarity=0.018  Sum_probs=68.0

Q ss_pred             cHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHH
Q 023915           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIF  108 (275)
Q Consensus        29 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~  108 (275)
                      +...+..+...+...|++++|.+.|++..... +.+...+..+...+.+.|+++.|...+++..+.. +.+...+..+..
T Consensus         3 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~   80 (118)
T 1elw_A            3 QVNELKEKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAA   80 (118)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHH
Confidence            34566677777777788888888877776632 1245566677777777778888877777777653 234556677777


Q ss_pred             HHhccCCHHHHHHHHHHHHhc
Q 023915          109 HLGKMRAHSEALSVYNMLRYS  129 (275)
Q Consensus       109 ~~~~~g~~~~a~~~~~~m~~~  129 (275)
                      ++.+.|++++|...++.....
T Consensus        81 ~~~~~~~~~~A~~~~~~~~~~  101 (118)
T 1elw_A           81 ALEFLNRFEEAKRTYEEGLKH  101 (118)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHhhHHHHHHHHHHHHHc
Confidence            777777777777777776544

>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=98.33  E-value=1.6e-05  Score=63.92  Aligned_cols=123  Identities=9%  Similarity=0.032  Sum_probs=101.4

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhcCCCCc--------------HHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhH
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAKYDKYD--------------VVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTF   68 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~g~~p~--------------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~   68 (275)
                      ..+.+.|++++|...|+..........              ...|..+-.++.+.|++++|++.|++..+.. +.+...|
T Consensus       155 ~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~  233 (336)
T 1p5q_A          155 TVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELD-SNNEKGL  233 (336)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHH
Confidence            356788999999999999998754422              5899999999999999999999999998843 2356788


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHH-HHHHHHHH
Q 023915           69 HILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEA-LSVYNMLR  127 (275)
Q Consensus        69 ~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a-~~~~~~m~  127 (275)
                      ..+..++...|+++.|...|++..+.. +-+...+..+..++.+.|+.+++ ...|+.|.
T Consensus       234 ~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~~  292 (336)
T 1p5q_A          234 SRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQQRIRRQLAREKKLYANMF  292 (336)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            899999999999999999999998763 33566888899999999999888 44555554

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.33  E-value=0.00013  Score=60.33  Aligned_cols=192  Identities=9%  Similarity=-0.059  Sum_probs=132.3

Q ss_pred             HHHHccCCHHHHHHHHHHHhhcCCCC-C---------------hhhHHHHHHHHHccCCHHHHHHHHHHHHHc-CCCCCH
Q 023915           38 CAYCRTGDMESVMHVMRKLDELAISP-D---------------YNTFHILIKYFCKEKMYILAYRTMVDMHRK-GHQPEE  100 (275)
Q Consensus        38 ~~~~~~g~~~~a~~~~~~m~~~g~~p-~---------------~~t~~~li~~~~~~~~~~~a~~~~~~m~~~-g~~~~~  100 (275)
                      ..+.+.|++++|++.|....+..-.. +               ...+..+...|.+.|++++|..++...... +..++.
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            34677899999999999988643111 1               123678899999999999999999987642 112222


Q ss_pred             ----HhHHHHHHHHhccCCHHHHHHHHHHHHhc----c-ccccHHhHHHHHHHHHhccchHHHHHHHHHhhc----CCCh
Q 023915          101 ----ELCSSLIFHLGKMRAHSEALSVYNMLRYS----K-RSMCKALHEKILHILISGKLLKDAYVVVKDNSE----SISH  167 (275)
Q Consensus       101 ----~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~-~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~----~~~~  167 (275)
                          .+.+.+-..+...|+.+.+..+++.....    + ......++..+...+...|++++|..++.+...    ..+.
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                12333334455678999999998876542    2 223355778899999999999999999988643    1111


Q ss_pred             ----hHHHHHHHHHHhcCChhHHHHHHHHHHHc----CCCCC--hhhHHHHHHHHHHhchhHHHHHHHHHHHh
Q 023915          168 ----PAIKKFASAFVRLGNINLVNDVMKAIHAT----GYRID--QGIFHIAIARYIAEREKKELLLKLLEWMT  230 (275)
Q Consensus       168 ----~~~~~li~~~~~~~~~~~a~~~~~~m~~~----g~~p~--~~~y~~li~~~~~~~~~~~~a~~l~~~m~  230 (275)
                          ..+..++..|...|++++|..+++.....    +..|.  ...+..+...+ ...+++++|...|.+..
T Consensus       172 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~-~~~~~y~~A~~~~~~a~  243 (434)
T 4b4t_Q          172 PSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILH-CEDKDYKTAFSYFFESF  243 (434)
T ss_dssp             THHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHT-TSSSCHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHH-HHHHhHHHHHHHHHHHH
Confidence                26778889999999999999999886553    11111  12344444444 36788888887776654

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.32  E-value=1.3e-05  Score=52.56  Aligned_cols=100  Identities=9%  Similarity=-0.030  Sum_probs=66.6

Q ss_pred             cHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCC--CHHhHHHH
Q 023915           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQP--EEELCSSL  106 (275)
Q Consensus        29 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~--~~~~~~~l  106 (275)
                      +...+..+...+.+.|++++|...|++..+.. +.+...+..+...+...|++++|...+++..+.. +.  +...+..+
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            34456666677777777777777777776532 1234566667777777777777777777776643 22  45566777


Q ss_pred             HHHHhcc-CCHHHHHHHHHHHHhcc
Q 023915          107 IFHLGKM-RAHSEALSVYNMLRYSK  130 (275)
Q Consensus       107 i~~~~~~-g~~~~a~~~~~~m~~~~  130 (275)
                      ...+.+. |++++|.+.++......
T Consensus        83 ~~~~~~~~~~~~~A~~~~~~~~~~~  107 (112)
T 2kck_A           83 ADALRYIEGKEVEAEIAEARAKLEH  107 (112)
T ss_dssp             HHHHTTCSSCSHHHHHHHHHHGGGC
T ss_pred             HHHHHHHhCCHHHHHHHHHHHhhcc
Confidence            7777777 77777777777766543

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.32  E-value=2.5e-05  Score=55.62  Aligned_cols=99  Identities=10%  Similarity=-0.085  Sum_probs=79.7

Q ss_pred             cHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCC-ChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHH
Q 023915           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP-DYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLI  107 (275)
Q Consensus        29 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li  107 (275)
                      +...|..+-..+.+.|++++|++.|++..+.  .| +...|..+...|.+.|++++|+..|++..+.. +-+...|..+-
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg   86 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSI--APANPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWSRLG   86 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            5567888888888999999999999888774  34 56677888888889999999999999888764 33467888888


Q ss_pred             HHHhccCCHHHHHHHHHHHHhcc
Q 023915          108 FHLGKMRAHSEALSVYNMLRYSK  130 (275)
Q Consensus       108 ~~~~~~g~~~~a~~~~~~m~~~~  130 (275)
                      .+|.+.|++++|...|+......
T Consensus        87 ~~~~~~g~~~~A~~~~~~al~~~  109 (164)
T 3sz7_A           87 LARFDMADYKGAKEAYEKGIEAE  109 (164)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHccCHHHHHHHHHHHHHhC
Confidence            88888999999999888876543

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=98.29  E-value=2.2e-05  Score=56.64  Aligned_cols=118  Identities=11%  Similarity=0.005  Sum_probs=61.5

Q ss_pred             ccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHH-HHhccch--HH
Q 023915           77 KEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHI-LISGKLL--KD  153 (275)
Q Consensus        77 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~-~~~~~~~--~~  153 (275)
                      ..|+++.|...++...+.. +.+...+..+...|...|++++|...|+........ +...+..+... +...|++  ++
T Consensus        22 ~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~la~~l~~~~~~~~~~~   99 (177)
T 2e2e_A           22 SQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRGE-NAELYAALATVLYYQASQHMTAQ   99 (177)
T ss_dssp             -----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTCCCHH
T ss_pred             hccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHhcCCcchHH
Confidence            3455555555555555432 233445555555666666666666666655443221 22334444444 4455555  66


Q ss_pred             HHHHHHHhhc--CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHc
Q 023915          154 AYVVVKDNSE--SISHPAIKKFASAFVRLGNINLVNDVMKAIHAT  196 (275)
Q Consensus       154 a~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  196 (275)
                      |...+++...  ...+..+..+...|...|++++|...|+...+.
T Consensus       100 A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  144 (177)
T 2e2e_A          100 TRAMIDKALALDSNEITALMLLASDAFMQANYAQAIELWQKVMDL  144 (177)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhCCCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhh
Confidence            6666665443  222335556666677777777777777766654

>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=98.28  E-value=6e-05  Score=50.90  Aligned_cols=98  Identities=10%  Similarity=-0.045  Sum_probs=72.6

Q ss_pred             HHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHH
Q 023915           30 VVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFH  109 (275)
Q Consensus        30 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~  109 (275)
                      ...|..+-..+.+.|++++|++.|++..+.. +.+...|..+..++.+.|++++|...+++..+.. +.+...|..+-.+
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            4556677777888888888888888877632 2245677778888888888888888888887653 3345677778888


Q ss_pred             HhccCCHHHHHHHHHHHHhc
Q 023915          110 LGKMRAHSEALSVYNMLRYS  129 (275)
Q Consensus       110 ~~~~g~~~~a~~~~~~m~~~  129 (275)
                      +...|++++|...|+.....
T Consensus        82 ~~~~~~~~~A~~~~~~al~~  101 (126)
T 3upv_A           82 QIAVKEYASALETLDAARTK  101 (126)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhCHHHHHHHHHHHHHh
Confidence            88888888888888876644

>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=98.28  E-value=5.7e-06  Score=64.84  Aligned_cols=182  Identities=13%  Similarity=0.057  Sum_probs=118.5

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCC-hhhHHHHHHHHHccCCH
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMY   81 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~   81 (275)
                      ..+.+.|++++|...|+........ +...|..+-.++.+.|++++|++.+++..+.  .|+ ...+..+..++...|++
T Consensus        12 ~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~   88 (281)
T 2c2l_A           12 NRLFVGRKYPEAAACYGRAITRNPL-VAVYYTNRALCYLKMQQPEQALADCRRALEL--DGQSVKAHFFLGQCQLEMESY   88 (281)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--CTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCH
Confidence            3567899999999999999987443 7888999999999999999999999998874  454 56788889999999999


Q ss_pred             HHHHHHHHHHHHcCCCCCH-HhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHH
Q 023915           82 ILAYRTMVDMHRKGHQPEE-ELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKD  160 (275)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~-~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  160 (275)
                      ++|...|++..+..  |+. ..+...+....+..   .+ .-+..........+..... .+..+ ..|+.++|.+.++.
T Consensus        89 ~~A~~~~~~al~l~--p~~~~~~~~~~~~~~~~~---~~-~~~~~~~~~~~~~~~~i~~-~l~~l-~~~~~~~A~~~~~~  160 (281)
T 2c2l_A           89 DEAIANLQRAYSLA--KEQRLNFGDDIPSALRIA---KK-KRWNSIEERRIHQESELHS-YLTRL-IAAERERELEECQR  160 (281)
T ss_dssp             HHHHHHHHHHHHHH--HHTTCCCCSHHHHHHHHH---HH-HHHHHHHHTCCCCCCHHHH-HHHHH-HHHHHHHHHTTTSG
T ss_pred             HHHHHHHHHHHHhC--ccchhhHHHHHHHHHHHH---HH-HHHHHHHHHHHhhhHHHHH-HHHHH-HHHHHHHHHHHHHh
Confidence            99999999987642  211 11111222111111   11 1122222233333332322 22333 26888999988887


Q ss_pred             hhcC-CChh-HHHHHHHHHHhc-CChhHHHHHHHHHHH
Q 023915          161 NSES-ISHP-AIKKFASAFVRL-GNINLVNDVMKAIHA  195 (275)
Q Consensus       161 ~~~~-~~~~-~~~~li~~~~~~-~~~~~a~~~~~~m~~  195 (275)
                      ..+. +... ....+-..+... +.+++|.++|....+
T Consensus       161 al~~~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~  198 (281)
T 2c2l_A          161 NHEGHEDDGHIRAQQACIEAKHDKYMADMDELFSQVDE  198 (281)
T ss_dssp             GGTTTSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             hhccccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            6653 2222 223333444444 678889999987665

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.26  E-value=2.4e-05  Score=54.85  Aligned_cols=97  Identities=10%  Similarity=-0.030  Sum_probs=57.5

Q ss_pred             HhHHHHHHHHHccCCHHHHHHHHHHHhhcCCC-CC----hhhHHHHHHHHHccCCHHHHHHHHHHHHHcC----CCC-CH
Q 023915           31 VLLNSMLCAYCRTGDMESVMHVMRKLDELAIS-PD----YNTFHILIKYFCKEKMYILAYRTMVDMHRKG----HQP-EE  100 (275)
Q Consensus        31 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~-p~----~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g----~~~-~~  100 (275)
                      .++..+-..+...|++++|++.+++..+..-. ++    ..++..+...+...|++++|...+++..+..    -.+ ..
T Consensus        10 ~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~   89 (164)
T 3ro3_A           10 RAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEA   89 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHH
Confidence            45667777777788888888887776642110 11    1356666667777777777777777765321    111 12


Q ss_pred             HhHHHHHHHHhccCCHHHHHHHHHHHH
Q 023915          101 ELCSSLIFHLGKMRAHSEALSVYNMLR  127 (275)
Q Consensus       101 ~~~~~li~~~~~~g~~~~a~~~~~~m~  127 (275)
                      ..+..+...+...|++++|...++...
T Consensus        90 ~~~~~l~~~~~~~~~~~~A~~~~~~a~  116 (164)
T 3ro3_A           90 QSCYSLGNTYTLLQDYEKAIDYHLKHL  116 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            345555556666666666666665543

>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=98.25  E-value=2.6e-06  Score=62.91  Aligned_cols=96  Identities=8%  Similarity=-0.022  Sum_probs=51.7

Q ss_pred             HhHHHHHHHHHccCCHHHHHHHHHHHhhcC-CCCC--------------hhhHHHHHHHHHccCCHHHHHHHHHHHHHcC
Q 023915           31 VLLNSMLCAYCRTGDMESVMHVMRKLDELA-ISPD--------------YNTFHILIKYFCKEKMYILAYRTMVDMHRKG   95 (275)
Q Consensus        31 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g-~~p~--------------~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g   95 (275)
                      ..+..+-..+.+.|++++|++.|++..+.. -.|+              ...|..+..++.+.|+++.|...++...+..
T Consensus        39 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~  118 (198)
T 2fbn_A           39 FDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID  118 (198)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC
Confidence            345555566666666666666666665421 0110              1345555555555666666666666555442


Q ss_pred             CCCCHHhHHHHHHHHhccCCHHHHHHHHHHHH
Q 023915           96 HQPEEELCSSLIFHLGKMRAHSEALSVYNMLR  127 (275)
Q Consensus        96 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  127 (275)
                       +.+...+..+..+|...|++++|...|+...
T Consensus       119 -p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al  149 (198)
T 2fbn_A          119 -KNNVKALYKLGVANMYFGFLEEAKENLYKAA  149 (198)
T ss_dssp             -TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             -cccHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence             2234455555555555556665555555544

>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=98.24  E-value=2.4e-05  Score=52.84  Aligned_cols=99  Identities=10%  Similarity=0.064  Sum_probs=63.1

Q ss_pred             HHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCC--CCC----HHhH
Q 023915           30 VVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGH--QPE----EELC  103 (275)
Q Consensus        30 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~--~~~----~~~~  103 (275)
                      ...|..+...+...|++++|...|++..+.. +.+...+..+...+...|+++.|...+++..+...  .++    ..++
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            3456666667777777777777777766532 23445566666777777777777777777665421  112    4556


Q ss_pred             HHHHHHHhccCCHHHHHHHHHHHHhc
Q 023915          104 SSLIFHLGKMRAHSEALSVYNMLRYS  129 (275)
Q Consensus       104 ~~li~~~~~~g~~~~a~~~~~~m~~~  129 (275)
                      ..+...+.+.|++++|.+.|+.....
T Consensus        83 ~~la~~~~~~~~~~~A~~~~~~~~~~  108 (131)
T 1elr_A           83 ARIGNSYFKEEKYKDAIHFYNKSLAE  108 (131)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            66666677777777777777766543

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.24  E-value=2.6e-05  Score=51.06  Aligned_cols=90  Identities=7%  Similarity=-0.104  Sum_probs=78.0

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCC---ChhhHHHHHHHHHcc-
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP---DYNTFHILIKYFCKE-   78 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p---~~~t~~~li~~~~~~-   78 (275)
                      ..+.+.|++++|...|+...+.... +...|..+...+...|++++|.+.|++..+.  .|   +...+..+...+.+. 
T Consensus        14 ~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~l~~~~~~~~   90 (112)
T 2kck_A           14 VLQYDAGNYTESIDLFEKAIQLDPE-ESKYWLMKGKALYNLERYEEAVDCYNYVINV--IEDEYNKDVWAAKADALRYIE   90 (112)
T ss_dssp             HHHHSSCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--SCCTTCHHHHHHHHHHHTTCS
T ss_pred             HHHHHhhhHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CcccchHHHHHHHHHHHHHHh
Confidence            3567889999999999999887543 6778999999999999999999999999874  34   467888999999999 


Q ss_pred             CCHHHHHHHHHHHHHcC
Q 023915           79 KMYILAYRTMVDMHRKG   95 (275)
Q Consensus        79 ~~~~~a~~~~~~m~~~g   95 (275)
                      |++++|.+.++......
T Consensus        91 ~~~~~A~~~~~~~~~~~  107 (112)
T 2kck_A           91 GKEVEAEIAEARAKLEH  107 (112)
T ss_dssp             SCSHHHHHHHHHHGGGC
T ss_pred             CCHHHHHHHHHHHhhcc
Confidence            99999999999998764

>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=98.24  E-value=7.3e-05  Score=51.11  Aligned_cols=100  Identities=7%  Similarity=-0.195  Sum_probs=80.6

Q ss_pred             CcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHH
Q 023915           28 YDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLI  107 (275)
Q Consensus        28 p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li  107 (275)
                      .+...|..+-..+...|++++|+..|+...+.. +.+...|..+...+...|+++.|...++...+.. +.+...+..+.
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~   84 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLG   84 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHHH
Confidence            367788888888999999999999998887743 2245678888888889999999999999988764 33566888888


Q ss_pred             HHHhccCCHHHHHHHHHHHHhc
Q 023915          108 FHLGKMRAHSEALSVYNMLRYS  129 (275)
Q Consensus       108 ~~~~~~g~~~~a~~~~~~m~~~  129 (275)
                      .++...|++++|...|+.....
T Consensus        85 ~~~~~~~~~~~A~~~~~~a~~~  106 (137)
T 3q49_B           85 QCQLEMESYDEAIANLQRAYSL  106 (137)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHHH
Confidence            8899999999999998887654

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.23  E-value=3.5e-05  Score=53.47  Aligned_cols=97  Identities=13%  Similarity=-0.029  Sum_probs=70.7

Q ss_pred             HHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCC-ChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHH
Q 023915           30 VVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP-DYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIF  108 (275)
Q Consensus        30 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~  108 (275)
                      ...+..+-..+.+.|++++|.+.|+.....  .| +...|..+...+.+.|+++.|...|+...+.. +-+...+..+..
T Consensus        18 ~~~~~~~a~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~   94 (142)
T 2xcb_A           18 LEQLYALGFNQYQAGKWDDAQKIFQALCML--DHYDARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAAE   94 (142)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHccHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHH
Confidence            345566667777888888888888887763  24 45566777778888888888888888887654 334556777777


Q ss_pred             HHhccCCHHHHHHHHHHHHhc
Q 023915          109 HLGKMRAHSEALSVYNMLRYS  129 (275)
Q Consensus       109 ~~~~~g~~~~a~~~~~~m~~~  129 (275)
                      +|...|++++|...|+.....
T Consensus        95 ~~~~~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           95 CHLQLGDLDGAESGFYSARAL  115 (142)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHh
Confidence            888888888888888776543

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.22  E-value=4.6e-05  Score=53.35  Aligned_cols=128  Identities=11%  Similarity=-0.080  Sum_probs=70.2

Q ss_pred             hhHHHHHHHHHccCCHHHHHHHHHHHHHcCCC-CC----HHhHHHHHHHHhccCCHHHHHHHHHHHHhccc-----cccH
Q 023915           66 NTFHILIKYFCKEKMYILAYRTMVDMHRKGHQ-PE----EELCSSLIFHLGKMRAHSEALSVYNMLRYSKR-----SMCK  135 (275)
Q Consensus        66 ~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~-~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~-----~~~~  135 (275)
                      .++..+...+...|+++.|...+++..+.... ++    ..++..+...+...|++++|...++.......     ....
T Consensus        10 ~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~   89 (164)
T 3ro3_A           10 RAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEA   89 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHH
Confidence            35667777777888888888888777643111 11    13566677777777888887777776543211     1112


Q ss_pred             HhHHHHHHHHHhccchHHHHHHHHHhhc----CCChh----HHHHHHHHHHhcCChhHHHHHHHHH
Q 023915          136 ALHEKILHILISGKLLKDAYVVVKDNSE----SISHP----AIKKFASAFVRLGNINLVNDVMKAI  193 (275)
Q Consensus       136 ~~~~~li~~~~~~~~~~~a~~~~~~~~~----~~~~~----~~~~li~~~~~~~~~~~a~~~~~~m  193 (275)
                      ..+..+-..+...|++++|...+++...    ...++    .+..+...+...|++++|...+++.
T Consensus        90 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a  155 (164)
T 3ro3_A           90 QSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKH  155 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            3444455555566666666665555332    11111    2333444445555555555554443

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.22  E-value=5.5e-05  Score=52.33  Aligned_cols=98  Identities=11%  Similarity=-0.061  Sum_probs=77.2

Q ss_pred             cHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCC----hhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHH
Q 023915           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD----YNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCS  104 (275)
Q Consensus        29 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~----~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~  104 (275)
                      +...+..+...+...|++++|.+.|++..+  ..|+    ...+..+...+...|++++|...+++..+.. +.+...+.
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~--~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~  103 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALG--LDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKALY  103 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHT--SCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHH--HcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHHHH
Confidence            566788888888889999999999988876  3466    5677788888888889999988888887653 33566777


Q ss_pred             HHHHHHhccCCHHHHHHHHHHHHhc
Q 023915          105 SLIFHLGKMRAHSEALSVYNMLRYS  129 (275)
Q Consensus       105 ~li~~~~~~g~~~~a~~~~~~m~~~  129 (275)
                      .+..++...|++++|...|+.....
T Consensus       104 ~~a~~~~~~~~~~~A~~~~~~al~~  128 (148)
T 2dba_A          104 RRSQALEKLGRLDQAVLDLQRCVSL  128 (148)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            7888888888888888888877654

>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=98.21  E-value=5.2e-05  Score=51.22  Aligned_cols=88  Identities=13%  Similarity=0.063  Sum_probs=77.4

Q ss_pred             hhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCC-hhhHHHHHHHHHccCCHH
Q 023915            4 AFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYI   82 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~   82 (275)
                      .+.+.|++++|...|+...+.... +...|..+-.++.+.|++++|++.|++..+.  .|+ ...|..+..++...|+++
T Consensus        13 ~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~   89 (126)
T 3upv_A           13 EYFTKSDWPNAVKAYTEMIKRAPE-DARGYSNRAAALAKLMSFPEAIADCNKAIEK--DPNFVRAYIRKATAQIAVKEYA   89 (126)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHhcCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHhCHH
Confidence            567899999999999999987544 7789999999999999999999999999874  354 567888999999999999


Q ss_pred             HHHHHHHHHHHc
Q 023915           83 LAYRTMVDMHRK   94 (275)
Q Consensus        83 ~a~~~~~~m~~~   94 (275)
                      +|...|++..+.
T Consensus        90 ~A~~~~~~al~~  101 (126)
T 3upv_A           90 SALETLDAARTK  101 (126)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            999999998865

>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=98.19  E-value=6e-05  Score=50.75  Aligned_cols=63  Identities=6%  Similarity=-0.159  Sum_probs=45.7

Q ss_pred             hhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhc
Q 023915           66 NTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYS  129 (275)
Q Consensus        66 ~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  129 (275)
                      ..+..+...+...|+++.|...|++..+.. +.+...+..+...+...|++++|...++.....
T Consensus         5 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~   67 (131)
T 1elr_A            5 LKEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEV   67 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhh
Confidence            456667777778888888888888877653 345566777777777788888888777776543

>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=98.18  E-value=0.00015  Score=47.75  Aligned_cols=97  Identities=9%  Similarity=-0.159  Sum_probs=57.6

Q ss_pred             hhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHH
Q 023915           65 YNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHI  144 (275)
Q Consensus        65 ~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~  144 (275)
                      ...+..+...+...|+++.|...|++..+.. +.+...+..+...+.+.|++++|...++........ +...+..+...
T Consensus         4 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~   81 (118)
T 1elw_A            4 VNELKEKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPD-WGKGYSRKAAA   81 (118)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcc-cHHHHHHHHHH
Confidence            3455666667777777777777777776543 234556666666777777777777777665543221 23344445555


Q ss_pred             HHhccchHHHHHHHHHhhc
Q 023915          145 LISGKLLKDAYVVVKDNSE  163 (275)
Q Consensus       145 ~~~~~~~~~a~~~~~~~~~  163 (275)
                      +...|++++|...+++...
T Consensus        82 ~~~~~~~~~A~~~~~~~~~  100 (118)
T 1elw_A           82 LEFLNRFEEAKRTYEEGLK  100 (118)
T ss_dssp             HHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHhhHHHHHHHHHHHHH
Confidence            5555555555555555433

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.18  E-value=0.0014  Score=51.79  Aligned_cols=191  Identities=9%  Similarity=-0.032  Sum_probs=139.9

Q ss_pred             cHHHHHHHHHHHHhcCCCCcHHhHHHHHHHH----Hcc---CCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHH
Q 023915           10 CFEEAKQLAGDFEAKYDKYDVVLLNSMLCAY----CRT---GDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYI   82 (275)
Q Consensus        10 ~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~----~~~---g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~   82 (275)
                      ++++++++++.+....++ +..+|+.--..+    ...   +++++++++++.+.+.. +-+..+|+.---.+.+.|.++
T Consensus        84 ~~~eeL~~~~~~L~~nPk-~y~aW~~R~~iL~~~~~~l~~~~~~~~EL~~~~~~l~~~-pkny~aW~~R~~vl~~l~~~~  161 (306)
T 3dra_A           84 NLYDELDWCEEIALDNEK-NYQIWNYRQLIIGQIMELNNNDFDPYREFDILEAMLSSD-PKNHHVWSYRKWLVDTFDLHN  161 (306)
T ss_dssp             CHHHHHHHHHHHHHHCTT-CCHHHHHHHHHHHHHHHHTTTCCCTHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTT
T ss_pred             cHHHHHHHHHHHHHHCcc-cHHHHHHHHHHHHHHHHhccccCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcccC
Confidence            899999999999987665 666676554444    444   78999999999998742 235667777777777788887


Q ss_pred             --HHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCC------HHHHHHHHHHHHhccccccHHhHHHHHHHHHhccch-HH
Q 023915           83 --LAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRA------HSEALSVYNMLRYSKRSMCKALHEKILHILISGKLL-KD  153 (275)
Q Consensus        83 --~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~------~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~-~~  153 (275)
                        .++..++.+.+.. +-|..+|+.--..+.+.+.      ++++++.++......+. +...|+-.-..+.+.|+. +.
T Consensus       162 ~~~EL~~~~~~i~~d-~~N~sAW~~R~~ll~~l~~~~~~~~~~eEl~~~~~aI~~~p~-n~SaW~y~~~ll~~~~~~~~~  239 (306)
T 3dra_A          162 DAKELSFVDKVIDTD-LKNNSAWSHRFFLLFSKKHLATDNTIDEELNYVKDKIVKCPQ-NPSTWNYLLGIHERFDRSITQ  239 (306)
T ss_dssp             CHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHSSGGGCCHHHHHHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHTTCCGGG
T ss_pred             hHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccchhhhHHHHHHHHHHHHHhCCC-CccHHHHHHHHHHhcCCChHH
Confidence              9999999999865 4567788776666666666      88888888887765443 445777777777777774 44


Q ss_pred             HHHHHHHhhcC-----CChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhH
Q 023915          154 AYVVVKDNSES-----ISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIF  205 (275)
Q Consensus       154 a~~~~~~~~~~-----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y  205 (275)
                      +..+..+....     .++..+..+...|.+.|+.++|.++++.+.+. +.|...-|
T Consensus       240 ~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~~l~~~-~Dpir~~y  295 (306)
T 3dra_A          240 LEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVYDLLKSK-YNPIRSNF  295 (306)
T ss_dssp             GHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT-TCGGGHHH
T ss_pred             HHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhc-cChHHHHH
Confidence            55566665442     24446778889999999999999999998762 33544433

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.15  E-value=4.5e-05  Score=52.92  Aligned_cols=89  Identities=7%  Similarity=-0.093  Sum_probs=76.5

Q ss_pred             hhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHH
Q 023915            4 AFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYIL   83 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~   83 (275)
                      .+.+.|++++|...|+......+. +...|..+-.++.+.|++++|+..|+...+.. +-+...+..+..++...|+++.
T Consensus        27 ~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~  104 (142)
T 2xcb_A           27 NQYQAGKWDDAQKIFQALCMLDHY-DARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAAECHLQLGDLDG  104 (142)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHccHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHH
Confidence            567889999999999999987544 77889999999999999999999999998743 2234567788899999999999


Q ss_pred             HHHHHHHHHHc
Q 023915           84 AYRTMVDMHRK   94 (275)
Q Consensus        84 a~~~~~~m~~~   94 (275)
                      |...|+...+.
T Consensus       105 A~~~~~~al~~  115 (142)
T 2xcb_A          105 AESGFYSARAL  115 (142)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            99999998865

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.14  E-value=2.6e-05  Score=60.58  Aligned_cols=123  Identities=8%  Similarity=-0.002  Sum_probs=61.7

Q ss_pred             hhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCC--hhhHHHHHHHHHccCCH
Q 023915            4 AFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD--YNTFHILIKYFCKEKMY   81 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~--~~t~~~li~~~~~~~~~   81 (275)
                      .+...|++++|.++|+.+...+  |+......+-..+.+.+++++|+..|+...... .|.  ...+..+-.++.+.|++
T Consensus       111 ~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~~~a~~~LG~al~~LG~~  187 (282)
T 4f3v_A          111 CEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAGAAGVAHGVAAANLALF  187 (282)
T ss_dssp             HHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHHHHHHHHHHHHHHCCCH
Confidence            3455566666666666555433  222233334445556666666666665332211 110  12444555556666666


Q ss_pred             HHHHHHHHHHHHcCCCCC--HHhHHHHHHHHhccCCHHHHHHHHHHHHhc
Q 023915           82 ILAYRTMVDMHRKGHQPE--EELCSSLIFHLGKMRAHSEALSVYNMLRYS  129 (275)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  129 (275)
                      ++|+..|++.......|.  .......-.++.+.|+.++|..+|+++...
T Consensus       188 ~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~  237 (282)
T 4f3v_A          188 TEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTT  237 (282)
T ss_dssp             HHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            666666666553222132  223444555555566666666666665543

>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=98.13  E-value=0.00013  Score=49.54  Aligned_cols=94  Identities=9%  Similarity=-0.133  Sum_probs=61.1

Q ss_pred             hhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhcccccc------HHhHH
Q 023915           66 NTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMC------KALHE  139 (275)
Q Consensus        66 ~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~------~~~~~  139 (275)
                      .++..+-..+.+.|++++|+..|++..+.. +-+...|..+-.+|.+.|++++|++.++..........      ..+|.
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            356677788888899999999998887753 33466788888888888888888888887654322111      12333


Q ss_pred             HHHHHHHhccchHHHHHHHHH
Q 023915          140 KILHILISGKLLKDAYVVVKD  160 (275)
Q Consensus       140 ~li~~~~~~~~~~~a~~~~~~  160 (275)
                      .+-..+...|++++|++.|++
T Consensus        88 ~lg~~~~~~~~~~~A~~~~~k  108 (127)
T 4gcn_A           88 RAGNAFQKQNDLSLAVQWFHR  108 (127)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHH
Confidence            344444445555555555544

>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=98.12  E-value=0.00011  Score=51.42  Aligned_cols=93  Identities=11%  Similarity=-0.089  Sum_probs=52.3

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHH
Q 023915           67 TFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILI  146 (275)
Q Consensus        67 t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  146 (275)
                      .+..+...+.+.|++++|...|+...... +.+...|..+-.+|.+.|++++|...|+......+. +...+..+-.++.
T Consensus        23 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~-~~~~~~~lg~~~~  100 (148)
T 2vgx_A           23 QLYSLAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIX-EPRFPFHAAECLL  100 (148)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CchHHHHHHHHHH
Confidence            44555566666677777777776666542 234555666666666666666666666665543221 2223444445555


Q ss_pred             hccchHHHHHHHHHh
Q 023915          147 SGKLLKDAYVVVKDN  161 (275)
Q Consensus       147 ~~~~~~~a~~~~~~~  161 (275)
                      ..|++++|...|++.
T Consensus       101 ~~g~~~~A~~~~~~a  115 (148)
T 2vgx_A          101 QXGELAEAESGLFLA  115 (148)
T ss_dssp             HTTCHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHH
Confidence            555555555555543

>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=98.12  E-value=1.6e-05  Score=67.23  Aligned_cols=118  Identities=11%  Similarity=0.029  Sum_probs=92.5

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCC-ChhhHHHHHHHHHccCCH
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP-DYNTFHILIKYFCKEKMY   81 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~t~~~li~~~~~~~~~   81 (275)
                      ..+.+.|++++|.+.|++..+.... +...|..+-.++.+.|++++|++.+++..+.  .| +...|..+..+|.+.|++
T Consensus        14 ~~~~~~g~~~~A~~~~~~Al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l--~p~~~~~~~~lg~~~~~~g~~   90 (477)
T 1wao_1           14 NDYFKAKDYENAIKFYSQAIELNPS-NAIYYGNRSLAYLRTECYGYALGDATRAIEL--DKKYIKGYYRRAASNMALGKF   90 (477)
T ss_dssp             SSTTTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--CTTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHhCCHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCH
Confidence            3567889999999999999887443 6789999999999999999999999999884  35 456788899999999999


Q ss_pred             HHHHHHHHHHHHcCCCCCHHhHHHHHHH--HhccCCHHHHHHHHH
Q 023915           82 ILAYRTMVDMHRKGHQPEEELCSSLIFH--LGKMRAHSEALSVYN  124 (275)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~~~~~~li~~--~~~~g~~~~a~~~~~  124 (275)
                      ++|...|++..+.. +-+...+..+..+  +.+.|++++|.+.++
T Consensus        91 ~eA~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           91 RAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHHHHS-TTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            99999999998763 2223345555444  888899999999988

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.11  E-value=4.8e-05  Score=54.12  Aligned_cols=90  Identities=13%  Similarity=0.022  Sum_probs=78.8

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCC-hhhHHHHHHHHHccCCH
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMY   81 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~   81 (275)
                      ..+.+.|++++|.+.|+...+.... +...|..+-.+|.+.|++++|+..|++..+.  .|+ ...|..+...+.+.|++
T Consensus        19 ~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~   95 (164)
T 3sz7_A           19 NAAMARKEYSKAIDLYTQALSIAPA-NPIYLSNRAAAYSASGQHEKAAEDAELATVV--DPKYSKAWSRLGLARFDMADY   95 (164)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCc-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHccCH
Confidence            3577899999999999999987544 7889999999999999999999999999874  354 67788999999999999


Q ss_pred             HHHHHHHHHHHHcC
Q 023915           82 ILAYRTMVDMHRKG   95 (275)
Q Consensus        82 ~~a~~~~~~m~~~g   95 (275)
                      +.|...|++..+..
T Consensus        96 ~~A~~~~~~al~~~  109 (164)
T 3sz7_A           96 KGAKEAYEKGIEAE  109 (164)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC
Confidence            99999999988753

>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=98.11  E-value=6.5e-05  Score=55.27  Aligned_cols=121  Identities=8%  Similarity=0.018  Sum_probs=89.5

Q ss_pred             hhhhcCcHHHHHHHHHHHHhcCCCCc---------------HHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhH
Q 023915            4 AFCRGGCFEEAKQLAGDFEAKYDKYD---------------VVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTF   68 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~g~~p~---------------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~   68 (275)
                      .+.+.|++++|...|+........-.               ...|..+-.++.+.|++++|+..++...+.. +.+...+
T Consensus        47 ~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~  125 (198)
T 2fbn_A           47 EFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKAL  125 (198)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-cccHHHH
Confidence            56788999999999999987533211               2788889999999999999999999998742 2356678


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHH-HHHHHH
Q 023915           69 HILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEAL-SVYNML  126 (275)
Q Consensus        69 ~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~-~~~~~m  126 (275)
                      ..+..++...|+++.|...|++..+.. +-+...+..+..++...++.+++. ..+..+
T Consensus       126 ~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~  183 (198)
T 2fbn_A          126 YKLGVANMYFGFLEEAKENLYKAASLN-PNNLDIRNSYELCVNKLKEARKKDKLTFGGM  183 (198)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHC---------
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            888999999999999999999998763 334556777777777666666555 334433

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.10  E-value=2.9e-05  Score=52.37  Aligned_cols=95  Identities=8%  Similarity=-0.022  Sum_probs=74.9

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHhhcCCCC-ChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHH
Q 023915           32 LLNSMLCAYCRTGDMESVMHVMRKLDELAISP-DYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHL  110 (275)
Q Consensus        32 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~  110 (275)
                      .+..+...+.+.|++++|+..|++..+.  .| +...|..+-..+.+.|+++.|+..|++..+.. +-+...+..+..++
T Consensus        19 ~~~~~g~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~~~~~la~~~   95 (121)
T 1hxi_A           19 NPMEEGLSMLKLANLAEAALAFEAVCQK--EPEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSH   95 (121)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            4556667788889999999999888873  35 45667788888889999999999999888763 33566788888889


Q ss_pred             hccCCHHHHHHHHHHHHhc
Q 023915          111 GKMRAHSEALSVYNMLRYS  129 (275)
Q Consensus       111 ~~~g~~~~a~~~~~~m~~~  129 (275)
                      .+.|++++|...++.....
T Consensus        96 ~~~g~~~~A~~~~~~al~~  114 (121)
T 1hxi_A           96 TNEHNANAALASLRAWLLS  114 (121)
T ss_dssp             HHHHHHHHHHHHHHHHHC-
T ss_pred             HHcCCHHHHHHHHHHHHHh
Confidence            9999999999999887654

>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=98.09  E-value=0.00012  Score=49.98  Aligned_cols=63  Identities=10%  Similarity=-0.065  Sum_probs=33.1

Q ss_pred             ChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHH
Q 023915           64 DYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLR  127 (275)
Q Consensus        64 ~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  127 (275)
                      +...+..+...+...|+++.|...|+...+.. +.+...+..+..++...|++++|...++...
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al   70 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRAL   70 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            34445555555556666666666666555442 2234455555555555555555555555444

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.07  E-value=6.7e-05  Score=50.57  Aligned_cols=95  Identities=14%  Similarity=-0.058  Sum_probs=67.0

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHH
Q 023915           67 TFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILI  146 (275)
Q Consensus        67 t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  146 (275)
                      .+..+...+.+.|+++.|...|++..+.. +-+...|..+-.++.+.|++++|...|+......+. +...+..+-..+.
T Consensus        19 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~-~~~~~~~la~~~~   96 (121)
T 1hxi_A           19 NPMEEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPK-DIAVHAALAVSHT   96 (121)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHH
Confidence            34555666777888888888888877653 335567777777788888888888888876654333 2346667777777


Q ss_pred             hccchHHHHHHHHHhhc
Q 023915          147 SGKLLKDAYVVVKDNSE  163 (275)
Q Consensus       147 ~~~~~~~a~~~~~~~~~  163 (275)
                      ..|++++|...+++...
T Consensus        97 ~~g~~~~A~~~~~~al~  113 (121)
T 1hxi_A           97 NEHNANAALASLRAWLL  113 (121)
T ss_dssp             HHHHHHHHHHHHHHHHC
T ss_pred             HcCCHHHHHHHHHHHHH
Confidence            88888888888877654

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.06  E-value=0.00017  Score=48.61  Aligned_cols=91  Identities=13%  Similarity=0.091  Sum_probs=49.9

Q ss_pred             HHHHHHccCCHHHHHHHHHHHhhcCCCCCh----hhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCC---HHhHHHHHH
Q 023915           36 MLCAYCRTGDMESVMHVMRKLDELAISPDY----NTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPE---EELCSSLIF  108 (275)
Q Consensus        36 li~~~~~~g~~~~a~~~~~~m~~~g~~p~~----~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~---~~~~~~li~  108 (275)
                      +...+.+.|++++|.+.|+...+..  |+.    ..+..+...+.+.|+++.|...|+...+.. +.+   ..++..+..
T Consensus         8 ~a~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~~~la~   84 (129)
T 2xev_A            8 VAFDALKNGKYDDASQLFLSFLELY--PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY-PTHDKAAGGLLKLGL   84 (129)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC--SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTSTTHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHC--CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC-CCCcccHHHHHHHHH
Confidence            3344555666666666666655422  332    244555556666666666666666665542 111   344555556


Q ss_pred             HHhccCCHHHHHHHHHHHHhc
Q 023915          109 HLGKMRAHSEALSVYNMLRYS  129 (275)
Q Consensus       109 ~~~~~g~~~~a~~~~~~m~~~  129 (275)
                      ++.+.|++++|...|+.....
T Consensus        85 ~~~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           85 SQYGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHH
Confidence            666666666666666665543

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.04  E-value=2.3e-05  Score=52.45  Aligned_cols=83  Identities=10%  Similarity=-0.068  Sum_probs=36.4

Q ss_pred             CCHHHHHHHHHHHhhcC--CCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHH
Q 023915           44 GDMESVMHVMRKLDELA--ISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALS  121 (275)
Q Consensus        44 g~~~~a~~~~~~m~~~g--~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~  121 (275)
                      |++++|+..|++..+.+  -+-+...+..+...+.+.|++++|...|++..+.. +-+..++..+..++.+.|++++|..
T Consensus         4 g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~   82 (117)
T 3k9i_A            4 GLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQF-PNHQALRVFYAMVLYNLGRYEQGVE   82 (117)
T ss_dssp             ---CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             CcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHcCCHHHHHH
Confidence            44444555554444422  11122334444445555555555555555544432 1223344445555555555555555


Q ss_pred             HHHHHH
Q 023915          122 VYNMLR  127 (275)
Q Consensus       122 ~~~~m~  127 (275)
                      .++...
T Consensus        83 ~~~~al   88 (117)
T 3k9i_A           83 LLLKII   88 (117)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            555443

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.03  E-value=0.00015  Score=48.93  Aligned_cols=87  Identities=20%  Similarity=0.128  Sum_probs=46.6

Q ss_pred             hhhcCcHHHHHHHHHHHHhcCCCCcH---HhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCC----hhhHHHHHHHHHc
Q 023915            5 FCRGGCFEEAKQLAGDFEAKYDKYDV---VLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD----YNTFHILIKYFCK   77 (275)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~g~~p~~---~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~----~~t~~~li~~~~~   77 (275)
                      +.+.|++++|.+.|+......+. +.   ..+..+..++.+.|++++|...|+...+..  |+    ...+..+...+.+
T Consensus        12 ~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~la~~~~~   88 (129)
T 2xev_A           12 ALKNGKYDDASQLFLSFLELYPN-GVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY--PTHDKAAGGLLKLGLSQYG   88 (129)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCSS-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTSTTHHHHHHHHHHHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHHHCCC-CcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC--CCCcccHHHHHHHHHHHHH
Confidence            44556666666666665554322 11   345555555556666666666666555422  33    2334455555556


Q ss_pred             cCCHHHHHHHHHHHHHc
Q 023915           78 EKMYILAYRTMVDMHRK   94 (275)
Q Consensus        78 ~~~~~~a~~~~~~m~~~   94 (275)
                      .|+++.|...|+...+.
T Consensus        89 ~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           89 EGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             TTCHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHH
Confidence            66666666666665543

>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=98.01  E-value=0.00013  Score=61.58  Aligned_cols=122  Identities=13%  Similarity=0.047  Sum_probs=92.6

Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHhhcCCCCC-hhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhc
Q 023915           34 NSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGK  112 (275)
Q Consensus        34 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~  112 (275)
                      ..+-..+.+.|++++|++.|++..+.  .|+ ...|..+..++.+.|++++|...+++..+.. +-+..++..+-.+|.+
T Consensus        10 ~~lg~~~~~~g~~~~A~~~~~~Al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~   86 (477)
T 1wao_1           10 KTQANDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMA   86 (477)
T ss_dssp             SSSSSSTTTTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHH
Confidence            33444567889999999999999874  454 6788999999999999999999999999863 3456789999999999


Q ss_pred             cCCHHHHHHHHHHHHhccccccHHhHHHHHHH--HHhccchHHHHHHHH
Q 023915          113 MRAHSEALSVYNMLRYSKRSMCKALHEKILHI--LISGKLLKDAYVVVK  159 (275)
Q Consensus       113 ~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~--~~~~~~~~~a~~~~~  159 (275)
                      .|++++|.+.|++........ ...+..+-.+  +.+.|++++|.+.++
T Consensus        87 ~g~~~eA~~~~~~al~~~p~~-~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           87 LGKFRAALRDYETVVKVKPHD-KDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HTCHHHHHHHHHHHHHHSTTC-TTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             cCCHHHHHHHHHHHHHhCCCC-HHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            999999999999887653322 2234444334  788899999999998

>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=97.98  E-value=0.00016  Score=60.73  Aligned_cols=122  Identities=12%  Similarity=-0.019  Sum_probs=77.0

Q ss_pred             HHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCC----------------hhhHHHHHHHHHccCCHHHHHHHHHHHHH
Q 023915           30 VVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD----------------YNTFHILIKYFCKEKMYILAYRTMVDMHR   93 (275)
Q Consensus        30 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~----------------~~t~~~li~~~~~~~~~~~a~~~~~~m~~   93 (275)
                      ...|..+-..+.+.|++++|+..|++..+.  .|+                ...|..+..+|.+.|+++.|+..+++.++
T Consensus       268 a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~--~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~  345 (457)
T 1kt0_A          268 AAIVKEKGTVYFKGGKYMQAVIQYGKIVSW--LEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALG  345 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHH--hcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHh
Confidence            446777777788888888888888877762  233                35666677777777777777777777766


Q ss_pred             cCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHH
Q 023915           94 KGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAY  155 (275)
Q Consensus        94 ~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~  155 (275)
                      .. +.+...|..+-.+|.+.|++++|...|+........ +...+..+-..+...++.+++.
T Consensus       346 ~~-p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~-~~~a~~~l~~~~~~~~~~~~a~  405 (457)
T 1kt0_A          346 LD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQ-NKAARLQISMCQKKAKEHNERD  405 (457)
T ss_dssp             HS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHHHHHHHHHHHH
T ss_pred             cC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHH
Confidence            53 334556666777777777777777777766544222 2234555555555555555543

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.96  E-value=0.00062  Score=46.85  Aligned_cols=61  Identities=10%  Similarity=-0.145  Sum_probs=31.9

Q ss_pred             hhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCC----HHhHHHHHHHHhccCCHHHHHHHHHHHH
Q 023915           65 YNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPE----EELCSSLIFHLGKMRAHSEALSVYNMLR  127 (275)
Q Consensus        65 ~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~  127 (275)
                      ...+..+...+.+.|+++.|...|++..+.  .|+    ...+..+...|.+.|++++|...++...
T Consensus        28 ~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~   92 (148)
T 2dba_A           28 VEQLRKEGNELFKCGDYGGALAAYTQALGL--DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAI   92 (148)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHH--cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHH
Confidence            344555555556666666666666665543  233    3344444555555555555555555443

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.93  E-value=0.00021  Score=60.37  Aligned_cols=26  Identities=15%  Similarity=0.008  Sum_probs=13.1

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHH
Q 023915           67 TFHILIKYFCKEKMYILAYRTMVDMH   92 (275)
Q Consensus        67 t~~~li~~~~~~~~~~~a~~~~~~m~   92 (275)
                      +++.|...|...|++++|..++++.+
T Consensus       353 ~~~nLa~~y~~~g~~~eA~~~~~~aL  378 (490)
T 3n71_A          353 LLSIASEVLSYLQAYEEASHYARRMV  378 (490)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            44555555555555555555554443

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=97.93  E-value=2.6e-05  Score=52.17  Aligned_cols=103  Identities=9%  Similarity=-0.051  Sum_probs=75.4

Q ss_pred             hcCcHHHHHHHHHHHHhcCC--CCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCC-hhhHHHHHHHHHccCCHHH
Q 023915            7 RGGCFEEAKQLAGDFEAKYD--KYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYIL   83 (275)
Q Consensus         7 ~~g~~~~a~~~~~~m~~~g~--~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~~   83 (275)
                      ..|++++|...|+...+.+.  +-+...|..+-.++.+.|++++|++.|++..+..  |+ ...+..+..++.+.|++++
T Consensus         2 ~~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~   79 (117)
T 3k9i_A            2 VLGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQF--PNHQALRVFYAMVLYNLGRYEQ   79 (117)
T ss_dssp             -----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHH
T ss_pred             CCCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCchHHHHHHHHHHHHcCCHHH
Confidence            46889999999999987641  2255788999999999999999999999998743  43 5678888999999999999


Q ss_pred             HHHHHHHHHHcC-CCCCHHhHHHHHHHHh
Q 023915           84 AYRTMVDMHRKG-HQPEEELCSSLIFHLG  111 (275)
Q Consensus        84 a~~~~~~m~~~g-~~~~~~~~~~li~~~~  111 (275)
                      |...+++..+.. -.|+...|...+..|.
T Consensus        80 A~~~~~~al~~~p~~~~~~~~~~ai~~~~  108 (117)
T 3k9i_A           80 GVELLLKIIAETSDDETIQSYKQAILFYA  108 (117)
T ss_dssp             HHHHHHHHHHHHCCCHHHHHTHHHHHHHT
T ss_pred             HHHHHHHHHHhCCCcHHHHHHHHHHHHHH
Confidence            999999988653 1233334444444443

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.84  E-value=0.00011  Score=59.12  Aligned_cols=146  Identities=9%  Similarity=-0.071  Sum_probs=60.5

Q ss_pred             HHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHH
Q 023915           30 VVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFH  109 (275)
Q Consensus        30 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~  109 (275)
                      ...+..+-..+.+.|++++|+..|++...  +.|+...       +...++.+.+...+.          ...|..+-.+
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~--~~p~~~~-------~~~~~~~~~~~~~l~----------~~~~~nla~~  239 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIA--YMGDDFM-------FQLYGKYQDMALAVK----------NPCHLNIAAC  239 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHH--HSCHHHH-------HTCCHHHHHHHHHHH----------THHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHH--Hhccchh-------hhhcccHHHHHHHHH----------HHHHHHHHHH
Confidence            34466667777788888888888887665  2354331       111222222211110          1245555555


Q ss_pred             HhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhcC-CC-hhHHHHHHHH-HHhcCChhHH
Q 023915          110 LGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSES-IS-HPAIKKFASA-FVRLGNINLV  186 (275)
Q Consensus       110 ~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-~~-~~~~~~li~~-~~~~~~~~~a  186 (275)
                      |.+.|++++|...++....... .+...|..+-.+|...|++++|...|++.... +. +..+..+... ....+..+.+
T Consensus       240 ~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~~~~a~~~L~~l~~~~~~~~~~a  318 (338)
T 2if4_A          240 LIKLKRYDEAIGHCNIVLTEEE-KNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPDDKAIRRELRALAEQEKALYQKQ  318 (338)
T ss_dssp             HHTTTCCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC--------------------------
T ss_pred             HHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            6666666666666665543322 12334555555666666666666666655431 11 1122222222 2223445555


Q ss_pred             HHHHHHHHH
Q 023915          187 NDVMKAIHA  195 (275)
Q Consensus       187 ~~~~~~m~~  195 (275)
                      ...|..|..
T Consensus       319 ~~~~~~~l~  327 (338)
T 2if4_A          319 KEMYKGIFK  327 (338)
T ss_dssp             ---------
T ss_pred             HHHHHHhhC
Confidence            566655544

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=97.84  E-value=0.00036  Score=49.38  Aligned_cols=101  Identities=10%  Similarity=-0.032  Sum_probs=77.4

Q ss_pred             cHHhHHHHHHHHHccCCHHHHHHHHHHHhhc-------CC---------CC-ChhhHHHHHHHHHccCCHHHHHHHHHHH
Q 023915           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDEL-------AI---------SP-DYNTFHILIKYFCKEKMYILAYRTMVDM   91 (275)
Q Consensus        29 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-------g~---------~p-~~~t~~~li~~~~~~~~~~~a~~~~~~m   91 (275)
                      ....+...-..+.+.|++++|++.|.+..+.       .-         .| +...|..+..+|.+.|+++.|+..++..
T Consensus        10 ~a~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~a   89 (162)
T 3rkv_A           10 SVEALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEV   89 (162)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHH
Confidence            3456777778888899999999998887763       00         12 2356778888888999999999999988


Q ss_pred             HHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhcc
Q 023915           92 HRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSK  130 (275)
Q Consensus        92 ~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  130 (275)
                      .+.. +.+...|..+-.+|...|++++|...|+......
T Consensus        90 l~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~  127 (162)
T 3rkv_A           90 LKRE-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNH  127 (162)
T ss_dssp             HHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HhcC-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcC
Confidence            8763 4456788888888999999999999888876543

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=97.83  E-value=0.00042  Score=56.48  Aligned_cols=122  Identities=11%  Similarity=0.046  Sum_probs=77.3

Q ss_pred             HhHHHHHHHHHccCCHHHHHHHHHHHhhc--------------CCCC-ChhhHHHHHHHHHccCCHHHHHHHHHHHHHcC
Q 023915           31 VLLNSMLCAYCRTGDMESVMHVMRKLDEL--------------AISP-DYNTFHILIKYFCKEKMYILAYRTMVDMHRKG   95 (275)
Q Consensus        31 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~--------------g~~p-~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g   95 (275)
                      ..+..+-..+.+.|++++|++.|++..+.              ...| +..+|..+..++.+.|++++|+..+++..+..
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            34677777888889999998888887651              0122 23566677777777777777777777777542


Q ss_pred             CCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHH
Q 023915           96 HQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDA  154 (275)
Q Consensus        96 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a  154 (275)
                       +-+...+..+-.+|.+.|++++|...|+........ +...+..+-..+...++.+++
T Consensus       304 -p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P~-~~~~~~~l~~~~~~~~~~~~a  360 (370)
T 1ihg_A          304 -PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPE-DKAIQAELLKVKQKIKAQKDK  360 (370)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHHHH
T ss_pred             -chhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHH
Confidence             234556777777777777777777777766544222 233444444444444444443

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.81  E-value=0.0005  Score=58.09  Aligned_cols=122  Identities=8%  Similarity=-0.043  Sum_probs=87.4

Q ss_pred             HHhccCCHHHHHHHHHHHHhc-------cccccHHhHHHHHHHHHhccchHHHHHHHHHhhc------CCChh----HHH
Q 023915          109 HLGKMRAHSEALSVYNMLRYS-------KRSMCKALHEKILHILISGKLLKDAYVVVKDNSE------SISHP----AIK  171 (275)
Q Consensus       109 ~~~~~g~~~~a~~~~~~m~~~-------~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~------~~~~~----~~~  171 (275)
                      .+...|++++|..++++....       .-+....+++.+...|...|++++|..++++...      .+..|    +++
T Consensus       318 ~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~  397 (490)
T 3n71_A          318 KARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVM  397 (490)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHH
Confidence            355789999999998876542       1222456788999999999999999998887543      22222    678


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHH---cCCCCCh----hhHHHHHHHHHHhchhHHHHHHHHHHHhh
Q 023915          172 KFASAFVRLGNINLVNDVMKAIHA---TGYRIDQ----GIFHIAIARYIAEREKKELLLKLLEWMTG  231 (275)
Q Consensus       172 ~li~~~~~~~~~~~a~~~~~~m~~---~g~~p~~----~~y~~li~~~~~~~~~~~~a~~l~~~m~~  231 (275)
                      .|...|...|++++|+.++++..+   .-+-||.    .+.+.+-.++. ..+.+++|..++.++++
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~-e~~~~~~ae~~~~~~~~  463 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEM-ELRMFRQNEFMYHKMRE  463 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHH
Confidence            889999999999999999987544   1122332    23444444443 67888999999998865

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A*

Probab=97.81  E-value=0.0081  Score=48.18  Aligned_cols=219  Identities=9%  Similarity=0.011  Sum_probs=133.3

Q ss_pred             cCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccC-CHHHHHHHHHHHhhcCCCCC-hhhHHHHHHHHHcc-C-CHHH
Q 023915            8 GGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTG-DMESVMHVMRKLDELAISPD-YNTFHILIKYFCKE-K-MYIL   83 (275)
Q Consensus         8 ~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g-~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~-~-~~~~   83 (275)
                      .+..++|+++++.+...++. +..+||.--..+...| .+++++++++.+....  |. ..+|+.--..+.+. + ++++
T Consensus        67 ~e~se~AL~lt~~~L~~nP~-~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n--PKny~aW~hR~wlL~~l~~~~~~~  143 (349)
T 3q7a_A           67 EEKSERALELTEIIVRMNPA-HYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN--LKSYQVWHHRLLLLDRISPQDPVS  143 (349)
T ss_dssp             TCCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT--CCCHHHHHHHHHHHHHHCCSCCHH
T ss_pred             CCCCHHHHHHHHHHHHhCch-hHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHhcCCChHH
Confidence            34456788888888887555 6667777666777777 5889999998888733  43 44566555555555 5 7888


Q ss_pred             HHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHH--------HHHHHHHHHHhccccccHHhHHHHHHHHHhccc-----
Q 023915           84 AYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHS--------EALSVYNMLRYSKRSMCKALHEKILHILISGKL-----  150 (275)
Q Consensus        84 a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~--------~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~-----  150 (275)
                      ++.+++.+.+.. +-|..+|+.-...+.+.|..+        ++++.++.+....+. +...|+..-..+.+.++     
T Consensus       144 EL~~~~k~L~~d-pkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp~-N~SAW~~R~~lL~~l~~~~~~~  221 (349)
T 3q7a_A          144 EIEYIHGSLLPD-PKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDGR-NNSAWGWRWYLRVSRPGAETSS  221 (349)
T ss_dssp             HHHHHHHHTSSC-TTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHTTSTTCCCCH
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccccccch
Confidence            888888887643 445667766555555555555        788888877765443 33356665555555554     


Q ss_pred             --hHHHHHHHHHhhc--CCChhHHHHHHHHHHhcCCh--------------------hHHHHHHHHHHHcC-----CCCC
Q 023915          151 --LKDAYVVVKDNSE--SISHPAIKKFASAFVRLGNI--------------------NLVNDVMKAIHATG-----YRID  201 (275)
Q Consensus       151 --~~~a~~~~~~~~~--~~~~~~~~~li~~~~~~~~~--------------------~~a~~~~~~m~~~g-----~~p~  201 (275)
                        ++++++.+++...  ..+...++-+-..+.+.|+.                    .........+...+     -.+.
T Consensus       222 ~~~~eELe~~~~aI~~~P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s  301 (349)
T 3q7a_A          222 RSLQDELIYILKSIHLIPHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPEDTPLPV  301 (349)
T ss_dssp             HHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCCSSCCSCC
T ss_pred             HHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhcccccccCCCc
Confidence              5777777777554  23333454444444444432                    12222222222211     0245


Q ss_pred             hhhHHHHHHHHHHhchhHHHHHHHHHHHhhC
Q 023915          202 QGIFHIAIARYIAEREKKELLLKLLEWMTGQ  232 (275)
Q Consensus       202 ~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~  232 (275)
                      ......|.+.|. ..|+.++|.++++.+.+.
T Consensus       302 ~~al~~l~d~~~-~~~~~~~a~~~~~~l~~~  331 (349)
T 3q7a_A          302 PLALEYLADSFI-EQNRVDDAAKVFEKLSSE  331 (349)
T ss_dssp             HHHHHHHHHHHH-HTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHH-hcCCHHHHHHHHHHHHhh
Confidence            566777777776 567778888888888543

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=97.80  E-value=0.00099  Score=45.88  Aligned_cols=118  Identities=10%  Similarity=-0.010  Sum_probs=79.5

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHc----c
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCK----E   78 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~----~   78 (275)
                      .+..-.+++++|.+.|+...+.| .|+..    |-..|...+.+++|++.|++..+.|   +...+..|-..|..    .
T Consensus         3 ~G~g~~~d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~   74 (138)
T 1klx_A            3 GGGTVKKDLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVK   74 (138)
T ss_dssp             CCSSHHHHHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSC
T ss_pred             CCcCCccCHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCC
Confidence            44555677888888888888776 22333    5555666667777888888877764   44556666666666    6


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhc----cCCHHHHHHHHHHHHhccc
Q 023915           79 KMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGK----MRAHSEALSVYNMLRYSKR  131 (275)
Q Consensus        79 ~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~  131 (275)
                      +++++|...|++..+.|   +...+..|-..|..    .++.++|.+.|+.....|.
T Consensus        75 ~d~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A           75 KDLRKAAQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             CCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             ccHHHHHHHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCC
Confidence            78888888888877664   34456666666666    6777777777776665543

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=97.79  E-value=0.00039  Score=49.19  Aligned_cols=94  Identities=13%  Similarity=0.072  Sum_probs=77.2

Q ss_pred             hhhhcCcHHHHHHHHHHHHhc--------CC---------CCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCC-Ch
Q 023915            4 AFCRGGCFEEAKQLAGDFEAK--------YD---------KYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP-DY   65 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~--------g~---------~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~   65 (275)
                      .+.+.|++++|...|......        ..         ..+...|..+-.+|.+.|++++|+..++...+.  .| +.
T Consensus        20 ~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al~~--~p~~~   97 (162)
T 3rkv_A           20 ELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVLKR--EETNE   97 (162)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--STTCH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhc--CCcch
Confidence            567889999999999988765        10         113468899999999999999999999999874  35 46


Q ss_pred             hhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHH
Q 023915           66 NTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEE  101 (275)
Q Consensus        66 ~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~  101 (275)
                      ..|..+..++...|+++.|...|+...+.  .|+..
T Consensus        98 ~a~~~~g~~~~~~g~~~~A~~~~~~al~l--~p~~~  131 (162)
T 3rkv_A           98 KALFRRAKARIAAWKLDEAEEDLKLLLRN--HPAAA  131 (162)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CGGGH
T ss_pred             HHHHHHHHHHHHHhcHHHHHHHHHHHHhc--CCCCH
Confidence            67889999999999999999999998876  46543

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=97.74  E-value=0.00071  Score=47.64  Aligned_cols=96  Identities=16%  Similarity=0.054  Sum_probs=69.1

Q ss_pred             HhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCC-------------hhhHHHHHHHHHccCCHHHHHHHHHHHHHc---
Q 023915           31 VLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-------------YNTFHILIKYFCKEKMYILAYRTMVDMHRK---   94 (275)
Q Consensus        31 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-------------~~t~~~li~~~~~~~~~~~a~~~~~~m~~~---   94 (275)
                      ..+...-..+.+.|++++|++.|++..+  +.|+             ...|..+-.++.+.|++++|+..+++.++.   
T Consensus        12 ~~~~~~G~~l~~~g~~eeAi~~Y~kAL~--l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~   89 (159)
T 2hr2_A           12 YLALSDAQRQLVAGEYDEAAANCRRAME--ISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNR   89 (159)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHH--HHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHh--hCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhc
Confidence            3455666677788899999998888876  3344             227778888888888888888888887764   


Q ss_pred             --CCCCCH-HhH----HHHHHHHhccCCHHHHHHHHHHHHh
Q 023915           95 --GHQPEE-ELC----SSLIFHLGKMRAHSEALSVYNMLRY  128 (275)
Q Consensus        95 --g~~~~~-~~~----~~li~~~~~~g~~~~a~~~~~~m~~  128 (275)
                        .+.|+. ..|    ...-.++...|++++|+..|+....
T Consensus        90 ~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAle  130 (159)
T 2hr2_A           90 RGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  130 (159)
T ss_dssp             HCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHh
Confidence              124543 466    7777777788888888888876653

>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=97.71  E-value=0.0015  Score=54.72  Aligned_cols=127  Identities=6%  Similarity=-0.094  Sum_probs=75.8

Q ss_pred             hHHHHHHHHhccCCHHHHHHHHHHHHhccccc--------------cHHhHHHHHHHHHhccchHHHHHHHHHhhc--CC
Q 023915          102 LCSSLIFHLGKMRAHSEALSVYNMLRYSKRSM--------------CKALHEKILHILISGKLLKDAYVVVKDNSE--SI  165 (275)
Q Consensus       102 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~--------------~~~~~~~li~~~~~~~~~~~a~~~~~~~~~--~~  165 (275)
                      .+..+-..|.+.|++++|...|+.........              ....|..+-.+|.+.|++++|+..+++...  ..
T Consensus       270 ~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~  349 (457)
T 1kt0_A          270 IVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLDSA  349 (457)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCc
Confidence            34444555555555555555555544322111              134667777777888888888888887655  23


Q ss_pred             ChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCC-hhhHHHHHHHHHHhchhHHHHH-HHHHHHhh
Q 023915          166 SHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRID-QGIFHIAIARYIAEREKKELLL-KLLEWMTG  231 (275)
Q Consensus       166 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~y~~li~~~~~~~~~~~~a~-~l~~~m~~  231 (275)
                      ....+..+..+|...|++++|...|+...+.  .|+ ...+..+-..+. ..++.+++. .++..|..
T Consensus       350 ~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l--~P~~~~a~~~l~~~~~-~~~~~~~a~~~~~~~~f~  414 (457)
T 1kt0_A          350 NEKGLYRRGEAQLLMNEFESAKGDFEKVLEV--NPQNKAARLQISMCQK-KAKEHNERDRRIYANMFK  414 (457)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--C----CHHHHHHHHHH-HHHHHHHHHHHHHHHC--
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHh
Confidence            3446777788888888888888888887764  353 345555555553 555555544 45555543

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=97.68  E-value=0.0022  Score=52.14  Aligned_cols=95  Identities=11%  Similarity=-0.044  Sum_probs=57.9

Q ss_pred             hHHHHHHHHhccCCHHHHHHHHHHHHhc---------------cccccHHhHHHHHHHHHhccchHHHHHHHHHhhcC--
Q 023915          102 LCSSLIFHLGKMRAHSEALSVYNMLRYS---------------KRSMCKALHEKILHILISGKLLKDAYVVVKDNSES--  164 (275)
Q Consensus       102 ~~~~li~~~~~~g~~~~a~~~~~~m~~~---------------~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~--  164 (275)
                      .+..+-..+.+.|++++|...|+.....               ..+.....|..+-.+|.+.|++++|+..+++....  
T Consensus       225 ~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p  304 (370)
T 1ihg_A          225 DLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEIDP  304 (370)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCT
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhCc
Confidence            3555566666677777777777665531               11122345666666666777777777777765542  


Q ss_pred             CChhHHHHHHHHHHhcCChhHHHHHHHHHHHc
Q 023915          165 ISHPAIKKFASAFVRLGNINLVNDVMKAIHAT  196 (275)
Q Consensus       165 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  196 (275)
                      .....+..+..+|...|++++|...|+...+.
T Consensus       305 ~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l  336 (370)
T 1ihg_A          305 SNTKALYRRAQGWQGLKEYDQALADLKKAQEI  336 (370)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHccCHHHHHHHHHHHHHh
Confidence            22335566666777777777777777766654

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=97.67  E-value=0.0012  Score=45.52  Aligned_cols=111  Identities=8%  Similarity=-0.114  Sum_probs=55.4

Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHh----ccchHHH
Q 023915           79 KMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILIS----GKLLKDA  154 (275)
Q Consensus        79 ~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~----~~~~~~a  154 (275)
                      +++++|...|++..+.| .|+..    +-..|...+.+++|.+.|+.....+.   ...+..+-..|..    .++.++|
T Consensus         9 ~d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g~---~~a~~~Lg~~y~~G~g~~~d~~~A   80 (138)
T 1klx_A            9 KDLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACELNS---GNGCRFLGDFYENGKYVKKDLRKA   80 (138)
T ss_dssp             HHHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             cCHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcCCC---HHHHHHHHHHHHcCCCCCccHHHH
Confidence            34555555555555554 22222    44444444555555555555444322   1233333334444    4555555


Q ss_pred             HHHHHHhhcCCChhHHHHHHHHHHh----cCChhHHHHHHHHHHHcC
Q 023915          155 YVVVKDNSESISHPAIKKFASAFVR----LGNINLVNDVMKAIHATG  197 (275)
Q Consensus       155 ~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~g  197 (275)
                      .++|++..+.+++.....+-..|..    .++.++|...|+.-.+.|
T Consensus        81 ~~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A           81 AQYYSKACGLNDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCC
Confidence            5555555555555555555555555    555566666555555544

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.66  E-value=0.00017  Score=57.95  Aligned_cols=139  Identities=12%  Similarity=-0.017  Sum_probs=64.7

Q ss_pred             hhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHH
Q 023915            4 AFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYIL   83 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~   83 (275)
                      .+.+.|++++|...|+.....  .|+...       +...++.+++...+.          ...|..+..++.+.|+++.
T Consensus       188 ~~~~~g~~~~A~~~y~~Al~~--~p~~~~-------~~~~~~~~~~~~~l~----------~~~~~nla~~~~~~g~~~~  248 (338)
T 2if4_A          188 SLFKEEKLEEAMQQYEMAIAY--MGDDFM-------FQLYGKYQDMALAVK----------NPCHLNIAACLIKLKRYDE  248 (338)
T ss_dssp             HTCSSSCCHHHHHHHHHHHHH--SCHHHH-------HTCCHHHHHHHHHHH----------THHHHHHHHHHHTTTCCHH
T ss_pred             HHHhcCCHHHHHHHHHHHHHH--hccchh-------hhhcccHHHHHHHHH----------HHHHHHHHHHHHHcCCHHH
Confidence            567889999999999998765  334321       122333333332221          1256666666777777777


Q ss_pred             HHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHH-HHhccchHHHHHHHHHhh
Q 023915           84 AYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHI-LISGKLLKDAYVVVKDNS  162 (275)
Q Consensus        84 a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~-~~~~~~~~~a~~~~~~~~  162 (275)
                      |+..+++.++.. +.+...|..+-.+|...|++++|...|+........ +...+..+-.. ....+..+.+...|+.+.
T Consensus       249 A~~~~~~al~~~-p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~-~~~a~~~L~~l~~~~~~~~~~a~~~~~~~l  326 (338)
T 2if4_A          249 AIGHCNIVLTEE-EKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPD-DKAIRRELRALAEQEKALYQKQKEMYKGIF  326 (338)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC-----------------------------------
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            777777766542 234556666777777777777777777765433221 12223333222 123344555666666554


Q ss_pred             c
Q 023915          163 E  163 (275)
Q Consensus       163 ~  163 (275)
                      .
T Consensus       327 ~  327 (338)
T 2if4_A          327 K  327 (338)
T ss_dssp             -
T ss_pred             C
Confidence            3

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=97.65  E-value=0.0085  Score=50.74  Aligned_cols=202  Identities=11%  Similarity=0.028  Sum_probs=128.7

Q ss_pred             HHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHH
Q 023915           11 FEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVD   90 (275)
Q Consensus        11 ~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~   90 (275)
                      .+.+..+|+......+ .+...|-..+.-+.+.|+++.|.++|++....   |.......   .|+...+.+.   +++.
T Consensus       195 ~~Rv~~~ye~al~~~p-~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~---P~~~~l~~---~y~~~~e~~~---~~~~  264 (493)
T 2uy1_A          195 ESRMHFIHNYILDSFY-YAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM---SDGMFLSL---YYGLVMDEEA---VYGD  264 (493)
T ss_dssp             HHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CCSSHHHH---HHHHHTTCTH---HHHH
T ss_pred             HHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC---CCcHHHHH---HHHhhcchhH---HHHH
Confidence            4557778888877543 35777888888888999999999999999986   55443222   2222211121   1333


Q ss_pred             HHHcC---------CCC---CHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHH--HHHHHHhccchHHHHH
Q 023915           91 MHRKG---------HQP---EEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEK--ILHILISGKLLKDAYV  156 (275)
Q Consensus        91 m~~~g---------~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~--li~~~~~~~~~~~a~~  156 (275)
                      +.+.-         ..+   ....|...+....+.++.+.|..+|+.. ... ..+...|..  .+... ..++.+.|..
T Consensus       265 l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~~-~~~~~v~i~~A~lE~~-~~~d~~~ar~  341 (493)
T 2uy1_A          265 LKRKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GNE-GVGPHVFIYCAFIEYY-ATGSRATPYN  341 (493)
T ss_dssp             HHHHTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TTS-CCCHHHHHHHHHHHHH-HHCCSHHHHH
T ss_pred             HHHHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hCC-CCChHHHHHHHHHHHH-HCCChHHHHH
Confidence            32211         011   1245666777777788899999999988 322 223334432  22222 2336999999


Q ss_pred             HHHHhhc-CCC-hhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhchhHHHHHHHHHHHhh
Q 023915          157 VVKDNSE-SIS-HPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTG  231 (275)
Q Consensus       157 ~~~~~~~-~~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~  231 (275)
                      +|+.... .+. +..+...+......|+.+.|..+|+...     .....|...+.- =...|+.+.+.++++++..
T Consensus       342 ife~al~~~~~~~~~~~~yid~e~~~~~~~~aR~l~er~~-----k~~~lw~~~~~f-E~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          342 IFSSGLLKHPDSTLLKEEFFLFLLRIGDEENARALFKRLE-----KTSRMWDSMIEY-EFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHSC-----CBHHHHHHHHHH-HHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH-----HHHHHHHHHHHH-HHHCCCHHHHHHHHHHHHH
Confidence            9998765 233 3345667777788999999999998862     234556666643 3356888888888887753

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=97.56  E-value=0.0012  Score=46.44  Aligned_cols=101  Identities=13%  Similarity=0.034  Sum_probs=79.4

Q ss_pred             hhhhcCcHHHHHHHHHHHHhcCCCC------c-----HHhHHHHHHHHHccCCHHHHHHHHHHHhhc-----CCCCCh-h
Q 023915            4 AFCRGGCFEEAKQLAGDFEAKYDKY------D-----VVLLNSMLCAYCRTGDMESVMHVMRKLDEL-----AISPDY-N   66 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~g~~p------~-----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-----g~~p~~-~   66 (275)
                      .+.+.|++++|++.|+...+..+..      +     ...|+.+-.++.+.|++++|+..++...+.     .+.|+. .
T Consensus        20 ~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd~~~   99 (159)
T 2hr2_A           20 RQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGK   99 (159)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCchHH
Confidence            4667899999999999998864331      2     238999999999999999999999998873     126764 4


Q ss_pred             hH----HHHHHHHHccCCHHHHHHHHHHHHH-----cCCCCCHHhHH
Q 023915           67 TF----HILIKYFCKEKMYILAYRTMVDMHR-----KGHQPEEELCS  104 (275)
Q Consensus        67 t~----~~li~~~~~~~~~~~a~~~~~~m~~-----~g~~~~~~~~~  104 (275)
                      .|    ...-.++...|++++|+..|++..+     .|+.+......
T Consensus       100 A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~p~d~~~~~~~~~~~  146 (159)
T 2hr2_A          100 LWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGETPGKERMM  146 (159)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCCSCCTTHHHHH
T ss_pred             HHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHH
Confidence            67    8888899999999999999999875     35555444333

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.46  E-value=0.00023  Score=46.50  Aligned_cols=64  Identities=11%  Similarity=-0.006  Sum_probs=33.1

Q ss_pred             cHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHH
Q 023915           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHR   93 (275)
Q Consensus        29 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~   93 (275)
                      +...|..+-..+.+.|++++|++.|++..+.. +.+...+..+..++.+.|++++|...+++..+
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~   66 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLR   66 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            34445555555555555555555555555421 11334444555555555555555555555543

>3dss_A Geranylgeranyl transferase type-2 subunit alpha; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} PDB: 3dst_A* 3dsu_A* 3dsv_A* 3dsw_A* 3dsx_A* 3hxb_A* 3hxc_A* 3hxd_A* 3hxe_A* 3hxf_A* 3pz1_A* 3pz2_A* 3pz3_A* 3c72_A* 4gtv_A* 4gts_A* 4ehm_A* 4gtt_A*

Probab=97.44  E-value=0.029  Score=44.68  Aligned_cols=217  Identities=9%  Similarity=-0.010  Sum_probs=120.3

Q ss_pred             cCcHH-HHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCC----------HHHHHHHHHHHhhcCCCCChhhHHHHHHHHH
Q 023915            8 GGCFE-EAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGD----------MESVMHVMRKLDELAISPDYNTFHILIKYFC   76 (275)
Q Consensus         8 ~g~~~-~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~----------~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~   76 (275)
                      .|.+. +|+++++.+...++. +..+||.=-..+...+.          +++++.+++.+.... +-+..+|+.---.+.
T Consensus        42 ~~e~s~eaL~~t~~~L~~nP~-~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~-PKny~aW~hR~wlL~  119 (331)
T 3dss_A           42 AGELDESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLS  119 (331)
T ss_dssp             TTCCSHHHHHHHHHHHTTCTT-CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             cCCCCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHh
Confidence            34443 678888888766443 44455533333322222          567778887777632 124455665555555


Q ss_pred             ccC--CHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCC-HHHHHHHHHHHHhccccccHHhHHHHHHHHHhc-----
Q 023915           77 KEK--MYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRA-HSEALSVYNMLRYSKRSMCKALHEKILHILISG-----  148 (275)
Q Consensus        77 ~~~--~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~-~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~-----  148 (275)
                      +.+  +++.++.+++.+.+.. +-|..+|+.--..+.+.|. .+++++.++.+....+.- ...|+..-..+...     
T Consensus       120 ~l~~~~~~~EL~~~~k~l~~d-prNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~p~N-~SAW~~R~~ll~~l~~~~~  197 (331)
T 3dss_A          120 RLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSN-YSSWHYRSCLLPQLHPQPD  197 (331)
T ss_dssp             HCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCSCC-HHHHHHHHHHHHHHSCCC-
T ss_pred             ccCcccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHCCCC-HHHHHHHHHHHHHhhhccc
Confidence            666  4788888888888754 4566677766666666676 578888888777654432 23444433333332     


Q ss_pred             ---------cchHHHHHHHHHhhc--CCChhHHHHHHHHHHhc-----------CChhHHHHHHHHHHHcCCCCChhhHH
Q 023915          149 ---------KLLKDAYVVVKDNSE--SISHPAIKKFASAFVRL-----------GNINLVNDVMKAIHATGYRIDQGIFH  206 (275)
Q Consensus       149 ---------~~~~~a~~~~~~~~~--~~~~~~~~~li~~~~~~-----------~~~~~a~~~~~~m~~~g~~p~~~~y~  206 (275)
                               +.++++++.+.+...  ..+...++=+--.+...           +.++++.+.++++.+.  .||. .|.
T Consensus       198 ~~~~~~~~~~~~~eEle~~~~ai~~~P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle~--~pd~-~w~  274 (331)
T 3dss_A          198 SGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQEL--EPEN-KWC  274 (331)
T ss_dssp             -----CCCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHHH--CTTC-HHH
T ss_pred             cccccccchHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHhh--Cccc-chH
Confidence                     456777777777554  22333333222222222           3467777777777764  3554 232


Q ss_pred             --HHHHH--HHHhchhHHHHHHHHHHHhh
Q 023915          207 --IAIAR--YIAEREKKELLLKLLEWMTG  231 (275)
Q Consensus       207 --~li~~--~~~~~~~~~~a~~l~~~m~~  231 (275)
                        +++..  .....+..+++...+.++.+
T Consensus       275 l~~~~~~~~~~~~~~~~~~~~~~l~~l~~  303 (331)
T 3dss_A          275 LLTIILLMRALDPLLYEKETLQYFSTLKA  303 (331)
T ss_dssp             HHHHHHHHHHHCTTTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhcccccHHHHHHHHHHHHH
Confidence              11111  01123455566666666654

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A*

Probab=97.40  E-value=0.035  Score=44.54  Aligned_cols=195  Identities=11%  Similarity=0.005  Sum_probs=131.6

Q ss_pred             hcC-cHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHcc-C-CHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHH-
Q 023915            7 RGG-CFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRT-G-DMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYI-   82 (275)
Q Consensus         7 ~~g-~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~-g-~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~-   82 (275)
                      ..| ++++++++++.+....++ +..+|+.--..+.+. + ++++++++++.+.+.. +-|...|+.-.-.+.+.+.++ 
T Consensus       100 ~l~~~l~eEL~~~~~~L~~nPK-ny~aW~hR~wlL~~l~~~~~~~EL~~~~k~L~~d-pkNy~AW~~R~wvl~~l~~~~~  177 (349)
T 3q7a_A          100 SLNKSLEDELRLMNEFAVQNLK-SYQVWHHRLLLLDRISPQDPVSEIEYIHGSLLPD-PKNYHTWAYLHWLYSHFSTLGR  177 (349)
T ss_dssp             HTTCCHHHHHHHHHHHHHTTCC-CHHHHHHHHHHHHHHCCSCCHHHHHHHHHHTSSC-TTCHHHHHHHHHHHHHHHHTTC
T ss_pred             HhhhhHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccccc
Confidence            345 599999999999988666 788888777777776 6 8899999999998743 235566665554555555555 


Q ss_pred             -------HHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCC-------HHHHHHHHHHHHhccccccHHhHHHHHHHHHhc
Q 023915           83 -------LAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRA-------HSEALSVYNMLRYSKRSMCKALHEKILHILISG  148 (275)
Q Consensus        83 -------~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~-------~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~  148 (275)
                             ++++.++++.+.. +-|..+|+..-..+.+.++       ++++++.++......+. +...|+-+-..+.+.
T Consensus       178 ~~~~~~~eELe~~~k~I~~d-p~N~SAW~~R~~lL~~l~~~~~~~~~~~eELe~~~~aI~~~P~-n~SaW~Ylr~Ll~~~  255 (349)
T 3q7a_A          178 ISEAQWGSELDWCNEMLRVD-GRNNSAWGWRWYLRVSRPGAETSSRSLQDELIYILKSIHLIPH-NVSAWNYLRGFLKHF  255 (349)
T ss_dssp             CCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHTTSTTCCCCHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHT
T ss_pred             cchhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccccchHHHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhc
Confidence                   8999999998864 4577788888888877776       67888888776654333 344666655555555


Q ss_pred             cch--------------------HHHHHHHHHhhcC--------CChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCC
Q 023915          149 KLL--------------------KDAYVVVKDNSES--------ISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRI  200 (275)
Q Consensus       149 ~~~--------------------~~a~~~~~~~~~~--------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p  200 (275)
                      |+.                    ....+...++...        .++.....+...|...|+.++|.++++.+.+. ..|
T Consensus       256 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~~-~dp  334 (349)
T 3q7a_A          256 SLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPEDTPLPVPLALEYLADSFIEQNRVDDAAKVFEKLSSE-YDQ  334 (349)
T ss_dssp             TCCSGGGHHHHGGGTC--------------CCCCC-CCCSSCCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT-TCG
T ss_pred             CCCcccccccccccccccccccchhHHHHHHHHHhcccccccCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHhh-hCh
Confidence            543                    2333333333332        22335677889999999999999999998753 345


Q ss_pred             ChhhHH
Q 023915          201 DQGIFH  206 (275)
Q Consensus       201 ~~~~y~  206 (275)
                      -..-|.
T Consensus       335 ir~~yw  340 (349)
T 3q7a_A          335 MRAGYW  340 (349)
T ss_dssp             GGHHHH
T ss_pred             HHHHHH
Confidence            444444

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.39  E-value=0.0029  Score=41.65  Aligned_cols=77  Identities=9%  Similarity=-0.001  Sum_probs=37.3

Q ss_pred             HHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHH
Q 023915           14 AKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMH   92 (275)
Q Consensus        14 a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~   92 (275)
                      |.+.|+...+.... +...+..+-..+...|++++|+..|++..+.. +.+...|..+...+.+.|+++.|...|++..
T Consensus         4 a~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A            4 ITERLEAMLAQGTD-NMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             HHHHHHHHHTTTCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCC-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            44444444443222 44455555555555555555555555554421 1123344445555555555555555555544

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.39  E-value=0.001  Score=43.28  Aligned_cols=98  Identities=10%  Similarity=-0.019  Sum_probs=66.1

Q ss_pred             CChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccc-c----HHh
Q 023915           63 PDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSM-C----KAL  137 (275)
Q Consensus        63 p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~-~----~~~  137 (275)
                      ++...+..+...+.+.|++++|...|++..+.. +.+...+..+-.++.+.|++++|...++......... +    ...
T Consensus         2 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~   80 (111)
T 2l6j_A            2 SQFEKQKEQGNSLFKQGLYREAVHCYDQLITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTSTAEHVAIRSKL   80 (111)
T ss_dssp             THHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCSSTTSHHHHHHH
T ss_pred             chHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCccHHHHHHHH
Confidence            345567777778888888888888888877653 3356677778888888888888888888776543322 1    334


Q ss_pred             HHHHHHHHHhccchHHHHHHHHHh
Q 023915          138 HEKILHILISGKLLKDAYVVVKDN  161 (275)
Q Consensus       138 ~~~li~~~~~~~~~~~a~~~~~~~  161 (275)
                      +..+-.++...|+.+.|...++++
T Consensus        81 ~~~~~~~~~~~~~~~~a~~~~~~~  104 (111)
T 2l6j_A           81 QYRLELAQGAVGSVQIPVVEVDEL  104 (111)
T ss_dssp             HHHHHHHHHHHHCCCCCSSSSSSC
T ss_pred             HHHHHHHHHHHHhHhhhHhHHHHh
Confidence            555566666666666665555443

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.38  E-value=0.0037  Score=38.80  Aligned_cols=80  Identities=16%  Similarity=0.089  Sum_probs=47.7

Q ss_pred             cHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHH
Q 023915           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIF  108 (275)
Q Consensus        29 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~  108 (275)
                      +...+..+-..+.+.|++++|+..|++..+.. +.+...+..+...+.+.|++++|...+++..+.. +-+...+..+-.
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            34556666667777777777777777766532 1234456666667777777777777777766542 223334444444


Q ss_pred             HH
Q 023915          109 HL  110 (275)
Q Consensus       109 ~~  110 (275)
                      .+
T Consensus        86 ~~   87 (91)
T 1na3_A           86 AK   87 (91)
T ss_dssp             HH
T ss_pred             HH
Confidence            33

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=97.37  E-value=0.001  Score=46.79  Aligned_cols=99  Identities=14%  Similarity=0.054  Sum_probs=75.0

Q ss_pred             hhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCH----------HHHHHHHHHHhhcCCCCCh-hhHHHHHH
Q 023915            5 FCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDM----------ESVMHVMRKLDELAISPDY-NTFHILIK   73 (275)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~----------~~a~~~~~~m~~~g~~p~~-~t~~~li~   73 (275)
                      ..+.+.+++|.+.++...+..+. +...|+.+-.++...+++          ++|+..|++..+  +.|+. .+|..+-.
T Consensus        12 ~~r~~~feeA~~~~~~Ai~l~P~-~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~--ldP~~~~A~~~LG~   88 (158)
T 1zu2_A           12 FDRILLFEQIRQDAENTYKSNPL-DADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALL--IDPKKDEAVWCIGN   88 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHH
T ss_pred             HHHHhHHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHH--hCcCcHHHHHHHHH
Confidence            45677899999999999887655 778888888888887765          588888888877  55654 57888888


Q ss_pred             HHHccC-----------CHHHHHHHHHHHHHcCCCCCHHhHHHHHH
Q 023915           74 YFCKEK-----------MYILAYRTMVDMHRKGHQPEEELCSSLIF  108 (275)
Q Consensus        74 ~~~~~~-----------~~~~a~~~~~~m~~~g~~~~~~~~~~li~  108 (275)
                      +|...|           ++++|.+.|++..+.  .|+...|...+.
T Consensus        89 ay~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l--~P~~~~y~~al~  132 (158)
T 1zu2_A           89 AYTSFAFLTPDETEAKHNFDLATQFFQQAVDE--QPDNTHYLKSLE  132 (158)
T ss_dssp             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             HHHHhcccCcchhhhhccHHHHHHHHHHHHHh--CCCCHHHHHHHH
Confidence            888764           788888888888775  576665554444

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.31  E-value=0.0038  Score=41.00  Aligned_cols=80  Identities=8%  Similarity=-0.064  Sum_probs=61.4

Q ss_pred             HHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHH
Q 023915           48 SVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLR  127 (275)
Q Consensus        48 ~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  127 (275)
                      .|++.|++..+.. +.+...+..+...+.+.|+++.|...|++..+.. +.+...|..+..+|.+.|++++|...|+...
T Consensus         3 ~a~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A            3 AITERLEAMLAQG-TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             CHHHHHHHHHTTT-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4666777766532 2345677888888999999999999999988764 3346688888889999999999999988776


Q ss_pred             hc
Q 023915          128 YS  129 (275)
Q Consensus       128 ~~  129 (275)
                      ..
T Consensus        81 ~~   82 (115)
T 2kat_A           81 AA   82 (115)
T ss_dssp             HH
T ss_pred             Hh
Confidence            43

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=97.23  E-value=0.029  Score=47.45  Aligned_cols=177  Identities=12%  Similarity=0.041  Sum_probs=114.2

Q ss_pred             hhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhc---------CCCC---ChhhHHHH
Q 023915            4 AFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDEL---------AISP---DYNTFHIL   71 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~---------g~~p---~~~t~~~l   71 (275)
                      -+.+.|+++.|.++|+.....  +.+...|.    .|+...+.++.   ++.+.+.         +..+   ....|...
T Consensus       222 ~~~~~~~~~~ar~i~erAi~~--P~~~~l~~----~y~~~~e~~~~---~~~l~~~~~~~~~~~~~~~~~~~~~~lw~~y  292 (493)
T 2uy1_A          222 YLIGIGQKEKAKKVVERGIEM--SDGMFLSL----YYGLVMDEEAV---YGDLKRKYSMGEAESAEKVFSKELDLLRINH  292 (493)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH--CCSSHHHH----HHHHHTTCTHH---HHHHHHHTC----------CHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHhC--CCcHHHHH----HHHhhcchhHH---HHHHHHHHHhhccchhhhhcccccHHHHHHH
Confidence            345679999999999999988  22333332    22222122222   2222221         0011   12456677


Q ss_pred             HHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHH--HHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhcc
Q 023915           72 IKYFCKEKMYILAYRTMVDMHRKGHQPEEELCS--SLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGK  149 (275)
Q Consensus        72 i~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~--~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~  149 (275)
                      +....+.++++.|..+|+.. ... ..+...|.  +.+.... .++.+.|..+|+........ ++..+...++-....|
T Consensus       293 ~~~~~r~~~~~~AR~i~~~A-~~~-~~~~~v~i~~A~lE~~~-~~d~~~ar~ife~al~~~~~-~~~~~~~yid~e~~~~  368 (493)
T 2uy1_A          293 LNYVLKKRGLELFRKLFIEL-GNE-GVGPHVFIYCAFIEYYA-TGSRATPYNIFSSGLLKHPD-STLLKEEFFLFLLRIG  368 (493)
T ss_dssp             HHHHHHHHCHHHHHHHHHHH-TTS-CCCHHHHHHHHHHHHHH-HCCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHT
T ss_pred             HHHHHHcCCHHHHHHHHHHh-hCC-CCChHHHHHHHHHHHHH-CCChHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcC
Confidence            77777788999999999998 321 12333443  2333222 33699999999988764322 2345666777778899


Q ss_pred             chHHHHHHHHHhhcCCChhHHHHHHHHHHhcCChhHHHHHHHHHHH
Q 023915          150 LLKDAYVVVKDNSESISHPAIKKFASAFVRLGNINLVNDVMKAIHA  195 (275)
Q Consensus       150 ~~~~a~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  195 (275)
                      +.+.|..+|+...  .....+...+..=...|+.+.+..+++...+
T Consensus       369 ~~~~aR~l~er~~--k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          369 DEENARALFKRLE--KTSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             CHHHHHHHHHHSC--CBHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHH--HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            9999999999974  2456788888877888999999998888764

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.16  E-value=0.007  Score=54.29  Aligned_cols=101  Identities=8%  Similarity=0.055  Sum_probs=69.7

Q ss_pred             HHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHH
Q 023915           39 AYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSE  118 (275)
Q Consensus        39 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~  118 (275)
                      .....|+++.|+++.+.+      .+...|..+...+.+.++++.|.++|.++.+         |..+...+...|+.+.
T Consensus       661 ~~l~~~~~~~A~~~~~~~------~~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~  725 (814)
T 3mkq_A          661 LALKVGQLTLARDLLTDE------SAEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEG  725 (814)
T ss_dssp             HHHHHTCHHHHHHHHTTC------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHH
T ss_pred             hhhhcCCHHHHHHHHHhh------CcHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHH
Confidence            345689999999986554      4667899999999999999999999998753         4556666666777777


Q ss_pred             HHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHH
Q 023915          119 ALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKD  160 (275)
Q Consensus       119 a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  160 (275)
                      ..++-+.....+.      ++.....|...|++++|.+++.+
T Consensus       726 ~~~~~~~a~~~~~------~~~A~~~~~~~g~~~~a~~~~~~  761 (814)
T 3mkq_A          726 LVTLAKDAETTGK------FNLAFNAYWIAGDIQGAKDLLIK  761 (814)
T ss_dssp             HHHHHHHHHHTTC------HHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCc------hHHHHHHHHHcCCHHHHHHHHHH
Confidence            6655554443321      33344445556666666555544

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.12  E-value=0.0062  Score=39.03  Aligned_cols=61  Identities=15%  Similarity=0.067  Sum_probs=28.4

Q ss_pred             HHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCC-hhhHHHHHHHHHccCCHHHHHHHHHHHH
Q 023915           30 VVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYILAYRTMVDMH   92 (275)
Q Consensus        30 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~~a~~~~~~m~   92 (275)
                      ...+..+-.++.+.|++++|++.|++..+..  |+ ...|..+..+|.+.|++++|...|++..
T Consensus         7 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al   68 (100)
T 3ma5_A            7 PFTRYALAQEHLKHDNASRALALFEELVETD--PDYVGTYYHLGKLYERLDRTDDAIDTYAQGI   68 (100)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3444444455555555555555555544421  22 2334444444555555555555444443

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.02  E-value=0.011  Score=36.50  Aligned_cols=64  Identities=16%  Similarity=-0.022  Sum_probs=46.3

Q ss_pred             hhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhc
Q 023915           65 YNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYS  129 (275)
Q Consensus        65 ~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  129 (275)
                      ...+..+...+.+.|++++|...|++..+.. +.+...+..+...+.+.|++++|...+++....
T Consensus         9 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~   72 (91)
T 1na3_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALEL   72 (91)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            3456667777788888888888888877653 334566777777778888888888887776654

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=96.96  E-value=0.0055  Score=50.88  Aligned_cols=88  Identities=6%  Similarity=-0.122  Sum_probs=66.5

Q ss_pred             HccCCHHHHHHHHHHHhhc--C-CCCC----hhhHHHHHHHHHccCCHHHHHHHHHHHHH-----cC-CCCCH-HhHHHH
Q 023915           41 CRTGDMESVMHVMRKLDEL--A-ISPD----YNTFHILIKYFCKEKMYILAYRTMVDMHR-----KG-HQPEE-ELCSSL  106 (275)
Q Consensus        41 ~~~g~~~~a~~~~~~m~~~--g-~~p~----~~t~~~li~~~~~~~~~~~a~~~~~~m~~-----~g-~~~~~-~~~~~l  106 (275)
                      .+.|++++|++++++..+.  . +-|+    ..+++.|...|...|++++|+.++++.++     .| -.|+. .+++.|
T Consensus       298 ~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l~nL  377 (429)
T 3qwp_A          298 KAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQVMKV  377 (429)
T ss_dssp             HHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHH
T ss_pred             HhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHHHHH
Confidence            3568889999999888753  1 2233    35788999999999999999999998764     22 23433 478889


Q ss_pred             HHHHhccCCHHHHHHHHHHHHh
Q 023915          107 IFHLGKMRAHSEALSVYNMLRY  128 (275)
Q Consensus       107 i~~~~~~g~~~~a~~~~~~m~~  128 (275)
                      -..|...|++++|..++++...
T Consensus       378 a~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          378 GKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhcCCHHHHHHHHHHHHH
Confidence            9999999999999998887653

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=96.96  E-value=0.0052  Score=39.40  Aligned_cols=85  Identities=9%  Similarity=-0.061  Sum_probs=60.9

Q ss_pred             ChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhcc-ccccHHhHHHHH
Q 023915           64 DYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSK-RSMCKALHEKIL  142 (275)
Q Consensus        64 ~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-~~~~~~~~~~li  142 (275)
                      +...+..+...+.+.|++++|...|++..+.. +-+...|..+-.+|.+.|++++|...|+...... ..++......+.
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~l~   84 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETD-PDYVGTYYHLGKLYERLDRTDDAIDTYAQGIEVAREEGTQKDLSELQ   84 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhhhcCCchhHHHHHH
Confidence            45567788888899999999999999988764 3345688888899999999999999998776542 233444444444


Q ss_pred             HHHHhcc
Q 023915          143 HILISGK  149 (275)
Q Consensus       143 ~~~~~~~  149 (275)
                      ..+...+
T Consensus        85 ~~l~~~~   91 (100)
T 3ma5_A           85 DAKLKAE   91 (100)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHcc
Confidence            4444433

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=96.96  E-value=0.0036  Score=51.99  Aligned_cols=85  Identities=4%  Similarity=-0.118  Sum_probs=61.1

Q ss_pred             CCHHHHHHHHHHHhhc---CCCCC----hhhHHHHHHHHHccCCHHHHHHHHHHHHH-----cC-CCCCH-HhHHHHHHH
Q 023915           44 GDMESVMHVMRKLDEL---AISPD----YNTFHILIKYFCKEKMYILAYRTMVDMHR-----KG-HQPEE-ELCSSLIFH  109 (275)
Q Consensus        44 g~~~~a~~~~~~m~~~---g~~p~----~~t~~~li~~~~~~~~~~~a~~~~~~m~~-----~g-~~~~~-~~~~~li~~  109 (275)
                      |++++|+.++++..+.   -+-|+    ..+++.|..+|...|++++|+.++++.++     .| -.|++ .+++.|-..
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            6778888887776542   12233    35788888888888888888888888763     23 23443 478888888


Q ss_pred             HhccCCHHHHHHHHHHHHh
Q 023915          110 LGKMRAHSEALSVYNMLRY  128 (275)
Q Consensus       110 ~~~~g~~~~a~~~~~~m~~  128 (275)
                      |...|++++|..++++...
T Consensus       392 ~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          392 YMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHhccCHHHHHHHHHHHHH
Confidence            8888998888888886653

>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=96.86  E-value=0.09  Score=45.31  Aligned_cols=168  Identities=11%  Similarity=-0.000  Sum_probs=118.0

Q ss_pred             cHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCC----------HHHHHHHHHHHhhcCCCC-ChhhHHHHHHHHHcc
Q 023915           10 CFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGD----------MESVMHVMRKLDELAISP-DYNTFHILIKYFCKE   78 (275)
Q Consensus        10 ~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~----------~~~a~~~~~~m~~~g~~p-~~~t~~~li~~~~~~   78 (275)
                      .-++|++.++.+....+. +..+|+.--.++...|+          ++++++.++.+.+..  | +..+|+.---.+.+.
T Consensus        44 ~~eeal~~~~~~l~~nP~-~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~--pK~y~aW~hR~w~l~~l  120 (567)
T 1dce_A           44 LDESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN--PKSYGTWHHRCWLLSRL  120 (567)
T ss_dssp             CSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHTC
T ss_pred             CCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHc
Confidence            346778888888887555 56677766556666666          899999999998743  4 455677777777788


Q ss_pred             C--CHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccC-CHHHHHHHHHHHHhccccccHHhHHHHHHHHHhc-------
Q 023915           79 K--MYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMR-AHSEALSVYNMLRYSKRSMCKALHEKILHILISG-------  148 (275)
Q Consensus        79 ~--~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g-~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~-------  148 (275)
                      +  ++++++..++.+.+.. +-|..+|+.--..+.+.| ..+++++.++.+....+. +...|+..-..+...       
T Consensus       121 ~~~~~~~el~~~~k~l~~d-~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~-n~saW~~r~~ll~~l~~~~~~~  198 (567)
T 1dce_A          121 PEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLLPQLHPQPDSG  198 (567)
T ss_dssp             SSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCC-CHHHHHHHHHHHHHHSCCCCSS
T ss_pred             ccccHHHHHHHHHHHHhhc-cccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCC-CccHHHHHHHHHHhhccccccc
Confidence            8  7799999999999875 456778888777777888 889999998888765443 334565555444442       


Q ss_pred             -------cchHHHHHHHHHhhc--CCChhHHHHHHHHHHhcCC
Q 023915          149 -------KLLKDAYVVVKDNSE--SISHPAIKKFASAFVRLGN  182 (275)
Q Consensus       149 -------~~~~~a~~~~~~~~~--~~~~~~~~~li~~~~~~~~  182 (275)
                             +.++++++.+.+...  ..+...|+-.-..+...++
T Consensus       199 ~~~~~~~~~~~eel~~~~~ai~~~P~~~saW~y~~~ll~~~~~  241 (567)
T 1dce_A          199 PQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGRAEP  241 (567)
T ss_dssp             SCCSSCHHHHHHHHHHHHHHHHHCSSCSHHHHHHHHHHSCCCC
T ss_pred             ccccccHHHHHHHHHHHHHHHhhCCCCccHHHHHHHHHhcCCC
Confidence                   567888888887654  3333455555555555554

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=96.79  E-value=0.0099  Score=49.36  Aligned_cols=60  Identities=12%  Similarity=0.031  Sum_probs=26.7

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHHc-----C-CCCCh-hhHHHHHHHHHHhchhHHHHHHHHHHH
Q 023915          169 AIKKFASAFVRLGNINLVNDVMKAIHAT-----G-YRIDQ-GIFHIAIARYIAEREKKELLLKLLEWM  229 (275)
Q Consensus       169 ~~~~li~~~~~~~~~~~a~~~~~~m~~~-----g-~~p~~-~~y~~li~~~~~~~~~~~~a~~l~~~m  229 (275)
                      +++.+..+|...|++++|+.++++..+-     | -.|+. .+|+.|-..|. ..|++++|..++++.
T Consensus       342 ~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~-~qg~~~eA~~~~~~A  408 (433)
T 3qww_A          342 MMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGRLYM-GLENKAAGEKALKKA  408 (433)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHHHH-HTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHH-hccCHHHHHHHHHHH
Confidence            3444555555555555555555443321     1 11211 24444544443 445555555555543

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.79  E-value=0.0075  Score=54.07  Aligned_cols=45  Identities=16%  Similarity=-0.012  Sum_probs=22.4

Q ss_pred             HccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHH
Q 023915           76 CKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNML  126 (275)
Q Consensus        76 ~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  126 (275)
                      ...|+++.|.++.+.      ..+...|..+-..+.+.|+++.|.+.|..+
T Consensus       663 l~~~~~~~A~~~~~~------~~~~~~W~~la~~al~~~~~~~A~~~y~~~  707 (814)
T 3mkq_A          663 LKVGQLTLARDLLTD------ESAEMKWRALGDASLQRFNFKLAIEAFTNA  707 (814)
T ss_dssp             HHHTCHHHHHHHHTT------CCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             hhcCCHHHHHHHHHh------hCcHhHHHHHHHHHHHcCCHHHHHHHHHHc
Confidence            344555555544322      123345555555555555555555555544

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=96.78  E-value=0.019  Score=47.59  Aligned_cols=88  Identities=8%  Similarity=-0.131  Sum_probs=48.3

Q ss_pred             HHHHHhccchHHHHHHHHHhhcC------CChh----HHHHHHHHHHhcCChhHHHHHHHHHHHc-----C-CCCCh-hh
Q 023915          142 LHILISGKLLKDAYVVVKDNSES------ISHP----AIKKFASAFVRLGNINLVNDVMKAIHAT-----G-YRIDQ-GI  204 (275)
Q Consensus       142 i~~~~~~~~~~~a~~~~~~~~~~------~~~~----~~~~li~~~~~~~~~~~a~~~~~~m~~~-----g-~~p~~-~~  204 (275)
                      +..+...|++++|+.++++....      +..+    +++.+..+|...|++++|+.++++...-     | -.|+. .+
T Consensus       294 ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~  373 (429)
T 3qwp_A          294 IEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQ  373 (429)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHH
T ss_pred             HHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHH
Confidence            33444556666666666654431      1111    4566666677777777777766654431     1 11222 35


Q ss_pred             HHHHHHHHHHhchhHHHHHHHHHHHh
Q 023915          205 FHIAIARYIAEREKKELLLKLLEWMT  230 (275)
Q Consensus       205 y~~li~~~~~~~~~~~~a~~l~~~m~  230 (275)
                      ++.|-..|. ..|++++|..++++..
T Consensus       374 l~nLa~~~~-~~g~~~eA~~~~~~Al  398 (429)
T 3qwp_A          374 VMKVGKLQL-HQGMFPQAMKNLRLAF  398 (429)
T ss_dssp             HHHHHHHHH-HTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHH-hcCCHHHHHHHHHHHH
Confidence            666666664 5566676776666543

>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=96.70  E-value=0.17  Score=40.32  Aligned_cols=195  Identities=7%  Similarity=-0.050  Sum_probs=129.5

Q ss_pred             HHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccC--CHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCC-HHHHHHH
Q 023915           11 FEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTG--DMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKM-YILAYRT   87 (275)
Q Consensus        11 ~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g--~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~-~~~a~~~   87 (275)
                      +++++.+++.+....++ +..+|+.--..+.+.+  .+++++++++.+.+.. +-|...|+.---.+.+.|. ++.+++.
T Consensus        90 l~~EL~~~~~~L~~~PK-ny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~d-prNy~AW~~R~~vl~~l~~~~~eel~~  167 (331)
T 3dss_A           90 VKAELGFLESCLRVNPK-SYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAF  167 (331)
T ss_dssp             HHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCC-CHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCcCHHHHHHH
Confidence            68899999999987665 8888887777777777  4899999999998853 2456677766666777787 5899999


Q ss_pred             HHHHHHcCCCCCHHhHHHHHHHHhcc--------------CCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhc-----
Q 023915           88 MVDMHRKGHQPEEELCSSLIFHLGKM--------------RAHSEALSVYNMLRYSKRSMCKALHEKILHILISG-----  148 (275)
Q Consensus        88 ~~~m~~~g~~~~~~~~~~li~~~~~~--------------g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~-----  148 (275)
                      +..+.+.. +-|..+|+..-..+.+.              +.++++++.+.......+. +...|+-+-..+.+.     
T Consensus       168 ~~~~I~~~-p~N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~P~-d~SaW~Y~r~ll~~~~~~~~  245 (331)
T 3dss_A          168 TDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPN-DQSAWFYHRWLLGAGSGRCE  245 (331)
T ss_dssp             HHHHHHHC-SCCHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHSSSCGGG
T ss_pred             HHHHHHHC-CCCHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccCccc
Confidence            99999864 45666777655555443              4577788888876654332 334555444444443     


Q ss_pred             ------cchHHHHHHHHHhhcCCChhHHHH-----HHHHHHhcCChhHHHHHHHHHHHcCCCCChh-hHHHHHHH
Q 023915          149 ------KLLKDAYVVVKDNSESISHPAIKK-----FASAFVRLGNINLVNDVMKAIHATGYRIDQG-IFHIAIAR  211 (275)
Q Consensus       149 ------~~~~~a~~~~~~~~~~~~~~~~~~-----li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~-~y~~li~~  211 (275)
                            +.++++++.+.++.+.-+...+..     +.......+..+++...+..+.+.  .|... -|.-+-..
T Consensus       246 ~~~~~~~~l~~el~~~~elle~~pd~~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~--Dp~r~~~y~d~~~~  318 (331)
T 3dss_A          246 LSVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAV--DPMRAAYLDDLRSK  318 (331)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHH--CGGGHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHHHHhhCcccchHHHHHHHHHHhhcccccHHHHHHHHHHHHHh--CcchhhHHHHHHHH
Confidence                  457888888888776332223332     222223456677888888888774  35443 34444443

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.59  E-value=0.035  Score=38.55  Aligned_cols=90  Identities=11%  Similarity=0.010  Sum_probs=63.3

Q ss_pred             hhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccC---CHHHHHHHHHHHhhcCCCC--ChhhHHHHHHHHHccCC
Q 023915            6 CRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTG---DMESVMHVMRKLDELAISP--DYNTFHILIKYFCKEKM   80 (275)
Q Consensus         6 ~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g---~~~~a~~~~~~m~~~g~~p--~~~t~~~li~~~~~~~~   80 (275)
                      .....+..+.+-|.+....|. ++..+-..+-.++++.+   +.++++.+|++..+.+ .|  +...+-.+--++.+.|+
T Consensus         9 l~~~~l~~~~~~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~   86 (152)
T 1pc2_A            9 VSVEDLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKE   86 (152)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSC
T ss_pred             CCHHHHHHHHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccC
Confidence            344556677777777666655 57777777777888877   5668888888887754 34  23344455567788888


Q ss_pred             HHHHHHHHHHHHHcCCCCC
Q 023915           81 YILAYRTMVDMHRKGHQPE   99 (275)
Q Consensus        81 ~~~a~~~~~~m~~~g~~~~   99 (275)
                      +++|.+.++.+.+.  .|+
T Consensus        87 Y~~A~~y~~~lL~i--eP~  103 (152)
T 1pc2_A           87 YEKALKYVRGLLQT--EPQ  103 (152)
T ss_dssp             HHHHHHHHHHHHHH--CTT
T ss_pred             HHHHHHHHHHHHhc--CCC
Confidence            88888888888875  564

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=96.58  E-value=0.017  Score=36.54  Aligned_cols=53  Identities=11%  Similarity=0.200  Sum_probs=24.3

Q ss_pred             HHHccCCHHHHHHHHHHHhhcCCCCC-hh-hHHHHHHHHHccCCHHHHHHHHHHHHH
Q 023915           39 AYCRTGDMESVMHVMRKLDELAISPD-YN-TFHILIKYFCKEKMYILAYRTMVDMHR   93 (275)
Q Consensus        39 ~~~~~g~~~~a~~~~~~m~~~g~~p~-~~-t~~~li~~~~~~~~~~~a~~~~~~m~~   93 (275)
                      .+.+.|++++|++.|++..+.  .|+ .. .+..+...+.+.|++++|...|++..+
T Consensus         9 ~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~   63 (99)
T 2kc7_A            9 ELINQGDIENALQALEEFLQT--EPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIE   63 (99)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHH--CSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            344445555555555554442  122 22 344444444455555555555555444

>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=96.56  E-value=0.32  Score=41.89  Aligned_cols=168  Identities=7%  Similarity=-0.001  Sum_probs=108.7

Q ss_pred             CCHHHHHHHHHHHhhcCCCCChh-hHHHHHHHHHccCC----------HHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhc
Q 023915           44 GDMESVMHVMRKLDELAISPDYN-TFHILIKYFCKEKM----------YILAYRTMVDMHRKGHQPEEELCSSLIFHLGK  112 (275)
Q Consensus        44 g~~~~a~~~~~~m~~~g~~p~~~-t~~~li~~~~~~~~----------~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~  112 (275)
                      ...++|++.++++..  +.|+.. .|+.--..+.+.++          +++++..++.+.+.. +-+..+|+.--..+.+
T Consensus        43 ~~~eeal~~~~~~l~--~nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~-pK~y~aW~hR~w~l~~  119 (567)
T 1dce_A           43 ELDESVLELTSQILG--ANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSR  119 (567)
T ss_dssp             CCSHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHT
T ss_pred             CCCHHHHHHHHHHHH--HCchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHH
Confidence            345688999999887  447654 35544444445555          889999999998754 3456688887777788


Q ss_pred             cC--CHHHHHHHHHHHHhccccccHHhHHHHHHHHHhcc-chHHHHHHHHHhhcCC--ChhHHHHHHHHHHhc-------
Q 023915          113 MR--AHSEALSVYNMLRYSKRSMCKALHEKILHILISGK-LLKDAYVVVKDNSESI--SHPAIKKFASAFVRL-------  180 (275)
Q Consensus       113 ~g--~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~-~~~~a~~~~~~~~~~~--~~~~~~~li~~~~~~-------  180 (275)
                      .|  +++++++.++.+.+.... +-..|+.--..+.+.| .++++++.+.++.+..  +...|+-....+.+.       
T Consensus       120 l~~~~~~~el~~~~k~l~~d~~-N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~n~saW~~r~~ll~~l~~~~~~~  198 (567)
T 1dce_A          120 LPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSG  198 (567)
T ss_dssp             CSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSS
T ss_pred             cccccHHHHHHHHHHHHhhccc-cccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCCCccHHHHHHHHHHhhccccccc
Confidence            88  679999999988876444 3346666666667777 7888888888876622  223454444443332       


Q ss_pred             -------CChhHHHHHHHHHHHcCCCCCh-hhHHHHHHHHHHhchh
Q 023915          181 -------GNINLVNDVMKAIHATGYRIDQ-GIFHIAIARYIAEREK  218 (275)
Q Consensus       181 -------~~~~~a~~~~~~m~~~g~~p~~-~~y~~li~~~~~~~~~  218 (275)
                             +.++++.+.++.....  .|+. ..|.-+- ....+.++
T Consensus       199 ~~~~~~~~~~~eel~~~~~ai~~--~P~~~saW~y~~-~ll~~~~~  241 (567)
T 1dce_A          199 PQGRLPENVLLKELELVQNAFFT--DPNDQSAWFYHR-WLLGRAEP  241 (567)
T ss_dssp             SCCSSCHHHHHHHHHHHHHHHHH--CSSCSHHHHHHH-HHHSCCCC
T ss_pred             ccccccHHHHHHHHHHHHHHHhh--CCCCccHHHHHH-HHHhcCCC
Confidence                   4567777777776664  3544 3444333 33334444

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=96.51  E-value=0.015  Score=36.73  Aligned_cols=60  Identities=23%  Similarity=0.215  Sum_probs=50.3

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhcCCCCcHH-hHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCh
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAKYDKYDVV-LLNSMLCAYCRTGDMESVMHVMRKLDELAISPDY   65 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~   65 (275)
                      ..+.+.|++++|.+.|+...+.... +.. .|..+-.++...|++++|.+.|++..+.  .|+.
T Consensus         8 ~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~   68 (99)
T 2kc7_A            8 KELINQGDIENALQALEEFLQTEPV-GKDEAYYLMGNAYRKLGDWQKALNNYQSAIEL--NPDS   68 (99)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHCSS-THHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTS
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCc
Confidence            3567889999999999999987543 566 8899999999999999999999999874  3543

>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=96.37  E-value=0.042  Score=38.55  Aligned_cols=38  Identities=5%  Similarity=-0.176  Sum_probs=17.1

Q ss_pred             ccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccc
Q 023915          112 KMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKL  150 (275)
Q Consensus       112 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~  150 (275)
                      +.+.+++|.+.++......+. +...|..+-.++...++
T Consensus        14 r~~~feeA~~~~~~Ai~l~P~-~aea~~n~G~~l~~l~~   51 (158)
T 1zu2_A           14 RILLFEQIRQDAENTYKSNPL-DADNLTRWGGVLLELSQ   51 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHhcc
Confidence            344555566666555433222 22334444444444443

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.23  E-value=0.19  Score=35.80  Aligned_cols=47  Identities=11%  Similarity=0.133  Sum_probs=24.4

Q ss_pred             hhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhh
Q 023915            6 CRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDE   58 (275)
Q Consensus         6 ~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~   58 (275)
                      .+.|+++.|.++.+++.      +...|..|-....+.|+++-|.+.|.....
T Consensus        16 L~lg~l~~A~e~a~~l~------~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D   62 (177)
T 3mkq_B           16 LEYGNLDAALDEAKKLN------DSITWERLIQEALAQGNASLAEMIYQTQHS   62 (177)
T ss_dssp             HHTTCHHHHHHHHHHHC------CHHHHHHHHHHHHHTTCHHHHHHHHHHTTC
T ss_pred             HhcCCHHHHHHHHHHhC------CHHHHHHHHHHHHHcCChHHHHHHHHHhCC
Confidence            34555555555544431      444555555555555555555555555443

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=96.09  E-value=0.2  Score=40.42  Aligned_cols=142  Identities=7%  Similarity=-0.109  Sum_probs=91.0

Q ss_pred             CCCcHHhHHHHHHHHHc--cC---CHHHHHHHHHHHhhcCCCCCh-hhHHHHHHHHH----ccC-CHHHHHH---HHHHH
Q 023915           26 DKYDVVLLNSMLCAYCR--TG---DMESVMHVMRKLDELAISPDY-NTFHILIKYFC----KEK-MYILAYR---TMVDM   91 (275)
Q Consensus        26 ~~p~~~~~~~li~~~~~--~g---~~~~a~~~~~~m~~~g~~p~~-~t~~~li~~~~----~~~-~~~~a~~---~~~~m   91 (275)
                      .+.+...|...+.+...  .+   ...+|.++|++..+  ..|+- ..|..+.-+|.    ... .......   .+...
T Consensus       190 ~p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~--lDP~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~  267 (372)
T 3ly7_A          190 LPHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQ--SSPEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNI  267 (372)
T ss_dssp             SCSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHH
Confidence            35578888888876543  23   35789999999987  45763 23332222222    111 1112221   22221


Q ss_pred             HH-cCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhc-CCChhH
Q 023915           92 HR-KGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSE-SISHPA  169 (275)
Q Consensus        92 ~~-~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~-~~~~~~  169 (275)
                      .. ...+.+..+|..+...+...|+++.|...+++....+  |+...|..+-..+.-.|++++|.+.+.+... .+..++
T Consensus       268 ~a~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL~P~~~t  345 (372)
T 3ly7_A          268 VTLPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNLRPGANT  345 (372)
T ss_dssp             HTCGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCSHHH
T ss_pred             HhcccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcCh
Confidence            11 1225567788887777777899999999999888765  5666666777788889999999999987655 666666


Q ss_pred             HH
Q 023915          170 IK  171 (275)
Q Consensus       170 ~~  171 (275)
                      |.
T Consensus       346 ~~  347 (372)
T 3ly7_A          346 LY  347 (372)
T ss_dssp             HH
T ss_pred             HH
Confidence            53

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=95.90  E-value=0.23  Score=33.72  Aligned_cols=63  Identities=13%  Similarity=0.098  Sum_probs=28.5

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhchhHHHHHHHHHHHhhCCC
Q 023915          170 IKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTGQGY  234 (275)
Q Consensus       170 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~~~  234 (275)
                      ++..+..+...|+-+...+++..+.. +-+|++...-.+-.+|- +.|...++.+++.+.-+.|+
T Consensus        94 vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~-Klg~~r~a~eLl~~AC~kG~  156 (172)
T 1wy6_A           94 VNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALR-RVGDERDATTLLIEACKKGE  156 (172)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHH-HhcchhhHHHHHHHHHHhhh
Confidence            34444444555555555555444322 22344444444444442 44444455555555555444

>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=95.86  E-value=0.55  Score=37.85  Aligned_cols=143  Identities=6%  Similarity=-0.045  Sum_probs=93.3

Q ss_pred             CCCChhhHHHHHHHHHc--c---CCHHHHHHHHHHHHHcCCCCC-HHhHHHHHHHHhc---cC--CHHHHHH---HHHHH
Q 023915           61 ISPDYNTFHILIKYFCK--E---KMYILAYRTMVDMHRKGHQPE-EELCSSLIFHLGK---MR--AHSEALS---VYNML  126 (275)
Q Consensus        61 ~~p~~~t~~~li~~~~~--~---~~~~~a~~~~~~m~~~g~~~~-~~~~~~li~~~~~---~g--~~~~a~~---~~~~m  126 (275)
                      .+.+...|...+++...  .   .+..+|..+|++..+.  .|+ ...|..+..+|.-   .+  .......   .++..
T Consensus       190 ~p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~l--DP~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~  267 (372)
T 3ly7_A          190 LPHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQS--SPEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNI  267 (372)
T ss_dssp             SCSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHH
Confidence            44566778877766543  2   3457899999999876  565 3455544444421   11  1112221   22221


Q ss_pred             Hh-ccccccHHhHHHHHHHHHhccchHHHHHHHHHhhc-CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhh
Q 023915          127 RY-SKRSMCKALHEKILHILISGKLLKDAYVVVKDNSE-SISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGI  204 (275)
Q Consensus       127 ~~-~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~  204 (275)
                      .. ...+.++..|..+-..+...|++++|...+++... .++...|..+-..+.-.|++++|.+.+......  .|...+
T Consensus       268 ~a~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL--~P~~~t  345 (372)
T 3ly7_A          268 VTLPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLEMSWLNYVLLGKVYEMKGMNREAADAYLTAFNL--RPGANT  345 (372)
T ss_dssp             HTCGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCSHHH
T ss_pred             HhcccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCcCh
Confidence            11 23355666777776677778999999999999776 444445667778899999999999999887775  477777


Q ss_pred             HHH
Q 023915          205 FHI  207 (275)
Q Consensus       205 y~~  207 (275)
                      |..
T Consensus       346 ~~~  348 (372)
T 3ly7_A          346 LYW  348 (372)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            653

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=95.51  E-value=0.17  Score=32.51  Aligned_cols=64  Identities=6%  Similarity=-0.181  Sum_probs=28.1

Q ss_pred             HHhHHHHHHHHHccCCHHHHHHHHHHHhhcC------CCCChhhHHHHHHHHHccCCHHHHHHHHHHHHH
Q 023915           30 VVLLNSMLCAYCRTGDMESVMHVMRKLDELA------ISPDYNTFHILIKYFCKEKMYILAYRTMVDMHR   93 (275)
Q Consensus        30 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g------~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~   93 (275)
                      ...+..|-..+.+.|+++.|...|+...+.-      -.+....+..+..++.+.|+++.|...+++..+
T Consensus         5 a~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~   74 (104)
T 2v5f_A            5 AEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE   74 (104)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHh
Confidence            3334444445555555555555554443320      112233344444444444444444444444443

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.50  E-value=0.9  Score=37.78  Aligned_cols=243  Identities=10%  Similarity=0.004  Sum_probs=142.6

Q ss_pred             cCcHHHHHHHHHHHHhc-----CCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhh-cCCCCChhh--HHHHHHHHHccC
Q 023915            8 GGCFEEAKQLAGDFEAK-----YDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDE-LAISPDYNT--FHILIKYFCKEK   79 (275)
Q Consensus         8 ~g~~~~a~~~~~~m~~~-----g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-~g~~p~~~t--~~~li~~~~~~~   79 (275)
                      .|+++.|++-+..+.+.     +..-+......++..|...++++...+.+..+.. +|..+...+  -+.++.......
T Consensus        29 ~~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~qlk~ai~~~V~~~~~~l~~~~  108 (445)
T 4b4t_P           29 QNDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQLKLSIQYMIQKVMEYLKSSK  108 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTSHHHHHHHHHHHHHHHHHHC
T ss_pred             cCCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhcCC
Confidence            37888999888777642     2344567788999999999999999887776654 454443333  123333333333


Q ss_pred             CHHHH--HHHHHHHHH--cC-CCC---CHHhHHHHHHHHhccCCHHHHHHHHHHHHhc--cc---cccHHhHHHHHHHHH
Q 023915           80 MYILA--YRTMVDMHR--KG-HQP---EEELCSSLIFHLGKMRAHSEALSVYNMLRYS--KR---SMCKALHEKILHILI  146 (275)
Q Consensus        80 ~~~~a--~~~~~~m~~--~g-~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~--~~---~~~~~~~~~li~~~~  146 (275)
                      ..+..  ..+.+....  .| +-.   .......|...|...|++.+|..++..+...  +.   .--...+..-++.|.
T Consensus       109 ~~d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l  188 (445)
T 4b4t_P          109 SLDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSI  188 (445)
T ss_dssp             TTHHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHH
Confidence            33321  122211110  11 111   1123456788889999999999999988643  21   112346777888999


Q ss_pred             hccchHHHHHHHHHhhc----CCChh-----HHHHHHHHHHhcCChhHHHHHHHHHHHc-CCCCChhhHH-----HHHHH
Q 023915          147 SGKLLKDAYVVVKDNSE----SISHP-----AIKKFASAFVRLGNINLVNDVMKAIHAT-GYRIDQGIFH-----IAIAR  211 (275)
Q Consensus       147 ~~~~~~~a~~~~~~~~~----~~~~~-----~~~~li~~~~~~~~~~~a~~~~~~m~~~-g~~p~~~~y~-----~li~~  211 (275)
                      ..+++..|..++++...    ...+|     .+...+..+...+++.+|...|.+.-+. ...-|...+.     .++..
T Consensus       189 ~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~~~~~~~~d~~~~~~~L~~~v~~~  268 (445)
T 4b4t_P          189 LKGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIYQTDAIKSDEAKWKPVLSHIVYFL  268 (445)
T ss_dssp             HHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHH
Confidence            99999999999887642    23333     3466777888889999888888776542 1112222222     22222


Q ss_pred             HHHhchhHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHHhh
Q 023915          212 YIAEREKKELLLKLLEWMTGQGYVVDSSTRNLILKNSHLFG  252 (275)
Q Consensus       212 ~~~~~~~~~~a~~l~~~m~~~~~~p~~~t~~~li~~~~~~g  252 (275)
                      .....+  +.-..+..........++...|..++++|....
T Consensus       269 iLa~~~--~~~~~ll~~~~~~~~~~~l~~~~~L~k~f~~~~  307 (445)
T 4b4t_P          269 VLSPYG--NLQNDLIHKIQNDNNLKKLESQESLVKLFTTNE  307 (445)
T ss_dssp             HHSSCS--STTHHHHHSHHHHSSCHHHHHHHHHHHHHHHCC
T ss_pred             HhCCCC--chHHHHHHHHhhcccccccHHHHHHHHHHHhch
Confidence            221111  112223333322233466778888888886544

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=95.47  E-value=0.32  Score=37.75  Aligned_cols=91  Identities=8%  Similarity=0.037  Sum_probs=71.2

Q ss_pred             HHHHHHHHHHHhhcCCCCC---hhhHHHHHHHHHcc-----CCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhcc-CCH
Q 023915           46 MESVMHVMRKLDELAISPD---YNTFHILIKYFCKE-----KMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKM-RAH  116 (275)
Q Consensus        46 ~~~a~~~~~~m~~~g~~p~---~~t~~~li~~~~~~-----~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~-g~~  116 (275)
                      ...|..++++..+  +.|+   ...|..+...|.+.     |+.++|.+.|++.++.+-.-+..++....+.+++. |+.
T Consensus       179 l~~A~a~lerAle--LDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~  256 (301)
T 3u64_A          179 VHAAVMMLERACD--LWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNR  256 (301)
T ss_dssp             HHHHHHHHHHHHH--HCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCH
T ss_pred             HHHHHHHHHHHHH--hCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCH
Confidence            4567777777766  5577   55788899999985     99999999999999864322467888889999885 999


Q ss_pred             HHHHHHHHHHHhcccc--ccHHhH
Q 023915          117 SEALSVYNMLRYSKRS--MCKALH  138 (275)
Q Consensus       117 ~~a~~~~~~m~~~~~~--~~~~~~  138 (275)
                      +.+.+.+++.......  |.....
T Consensus       257 ~~a~~~L~kAL~a~p~~~P~~~la  280 (301)
T 3u64_A          257 AGFDEALDRALAIDPESVPHNKLL  280 (301)
T ss_dssp             HHHHHHHHHHHHCCGGGCSSCHHH
T ss_pred             HHHHHHHHHHHcCCCCCCCChhHH
Confidence            9999999999888776  654333

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=95.46  E-value=0.16  Score=32.59  Aligned_cols=66  Identities=15%  Similarity=-0.030  Sum_probs=47.2

Q ss_pred             ChhhHHHHHHHHHccCCHHHHHHHHHHHHHcC------CCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhc
Q 023915           64 DYNTFHILIKYFCKEKMYILAYRTMVDMHRKG------HQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYS  129 (275)
Q Consensus        64 ~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g------~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  129 (275)
                      +..-+-.+...+.+.++++.|...|+...+.-      -.+....+..+..++.+.|+++.|...+++....
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l   75 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence            44455677777888888888888888776531      1234567777888888888888888888877654

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=95.39  E-value=0.21  Score=38.77  Aligned_cols=94  Identities=11%  Similarity=0.076  Sum_probs=73.9

Q ss_pred             CcHHHHHHHHHHHHhcCCC-CcHHhHHHHHHHHHcc-----CCHHHHHHHHHHHhhcCCCCC--hhhHHHHHHHHHcc-C
Q 023915            9 GCFEEAKQLAGDFEAKYDK-YDVVLLNSMLCAYCRT-----GDMESVMHVMRKLDELAISPD--YNTFHILIKYFCKE-K   79 (275)
Q Consensus         9 g~~~~a~~~~~~m~~~g~~-p~~~~~~~li~~~~~~-----g~~~~a~~~~~~m~~~g~~p~--~~t~~~li~~~~~~-~   79 (275)
                      +....|...+++..+.... .+...|..+...|.+.     |+.++|.+.|++..+  +.|+  ..++......+++. |
T Consensus       177 ~~l~~A~a~lerAleLDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~--LnP~~~id~~v~YA~~l~~~~g  254 (301)
T 3u64_A          177 DTVHAAVMMLERACDLWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTR--YCSAHDPDHHITYADALCIPLN  254 (301)
T ss_dssp             HHHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHH--HCCTTCSHHHHHHHHHTTTTTT
T ss_pred             HhHHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHH--hCCCCCchHHHHHHHHHHHhcC
Confidence            4567788888888776332 1356899999999994     999999999999998  5573  67788888888885 9


Q ss_pred             CHHHHHHHHHHHHHcCCC--CCHHhHH
Q 023915           80 MYILAYRTMVDMHRKGHQ--PEEELCS  104 (275)
Q Consensus        80 ~~~~a~~~~~~m~~~g~~--~~~~~~~  104 (275)
                      +.+.+.+.+++..+....  |+....+
T Consensus       255 d~~~a~~~L~kAL~a~p~~~P~~~lan  281 (301)
T 3u64_A          255 NRAGFDEALDRALAIDPESVPHNKLLV  281 (301)
T ss_dssp             CHHHHHHHHHHHHHCCGGGCSSCHHHH
T ss_pred             CHHHHHHHHHHHHcCCCCCCCChhHHH
Confidence            999999999999987665  6644333

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=94.81  E-value=0.72  Score=32.86  Aligned_cols=44  Identities=20%  Similarity=0.179  Sum_probs=21.7

Q ss_pred             ccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHH
Q 023915           42 RTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDM   91 (275)
Q Consensus        42 ~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m   91 (275)
                      +.|+++.|.++.+++      -+...|..|-....+.|+++-|.+.|...
T Consensus        17 ~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~   60 (177)
T 3mkq_B           17 EYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQ   60 (177)
T ss_dssp             HTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHT
T ss_pred             hcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHh
Confidence            345555555554443      23344555555555555555555555543

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=94.76  E-value=0.26  Score=43.77  Aligned_cols=122  Identities=11%  Similarity=0.035  Sum_probs=79.3

Q ss_pred             hhhhcCc-HHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCC-HHHHHHHHHHHhhc------CCCCChh---------
Q 023915            4 AFCRGGC-FEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGD-MESVMHVMRKLDEL------AISPDYN---------   66 (275)
Q Consensus         4 ~~~~~g~-~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~-~~~a~~~~~~m~~~------g~~p~~~---------   66 (275)
                      .+...|+ .+.|..+|+.+......-+.....++|..+.+.++ --+|.+++.+..+.      ...+...         
T Consensus       257 ~~~~t~~~~~~a~~~le~L~~~~p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~~~~~~~~~  336 (754)
T 4gns_B          257 FIAITPSLVDFTIDYLKGLTKKDPIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDADSARLMNCM  336 (754)
T ss_dssp             HHHTCGGGHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHHHHHHHHHH
T ss_pred             HHcccccHHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhcccccccccccCcc
Confidence            3444555 58899999999887443333333445555444432 23455555554321      1222211         


Q ss_pred             --hHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCC-HHhHHHHHHHHhccCCHHHHHHHHHHHH
Q 023915           67 --TFHILIKYFCKEKMYILAYRTMVDMHRKGHQPE-EELCSSLIFHLGKMRAHSEALSVYNMLR  127 (275)
Q Consensus        67 --t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~  127 (275)
                        ..+.=...+...|+++.|+.+-++....  .|+ ..+|..|..+|.+.|+++.|+-.++.+.
T Consensus       337 ~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~--aPseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          337 SDLLNIQTNFLLNRGDYELALGVSNTSTEL--ALDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             hHHHHHHHHHHhccCcHHHHHHHHHHHHhc--CchhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence              1112233466789999999999998765  555 6799999999999999999999998873

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=94.70  E-value=0.38  Score=30.17  Aligned_cols=46  Identities=11%  Similarity=0.091  Sum_probs=20.1

Q ss_pred             HHHHHHHHHHHhhcCCCCCh-hhHHHHHHHHHccCCHHHHHHHHHHHHH
Q 023915           46 MESVMHVMRKLDELAISPDY-NTFHILIKYFCKEKMYILAYRTMVDMHR   93 (275)
Q Consensus        46 ~~~a~~~~~~m~~~g~~p~~-~t~~~li~~~~~~~~~~~a~~~~~~m~~   93 (275)
                      .++|..+|++..+  ..|+. .....+-..+.+.|++++|...|+.+.+
T Consensus        25 ~~~A~~~l~~AL~--~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~   71 (93)
T 3bee_A           25 TDEVSLLLEQALQ--LEPYNEAALSLIANDHFISFRFQEAIDTWVLLLD   71 (93)
T ss_dssp             CHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHH--HCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            3445555544444  22332 2233333444444555555555555443

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=94.08  E-value=0.53  Score=29.51  Aligned_cols=49  Identities=8%  Similarity=-0.091  Sum_probs=43.8

Q ss_pred             HHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcC
Q 023915           11 FEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA   60 (275)
Q Consensus        11 ~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g   60 (275)
                      .++|..+|++.....+. ++.....+-..+.+.|++++|++.|+.+.+..
T Consensus        25 ~~~A~~~l~~AL~~dp~-~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~   73 (93)
T 3bee_A           25 TDEVSLLLEQALQLEPY-NEAALSLIANDHFISFRFQEAIDTWVLLLDSN   73 (93)
T ss_dssp             CHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCC
T ss_pred             CHHHHHHHHHHHHHCcC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            79999999999988665 77888899999999999999999999998743

>1v54_E Cytochrome C oxidase polypeptide VA; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: a.118.11.1 PDB: 1oco_E* 1occ_E* 1ocz_E* 1ocr_E* 1v55_E* 2dyr_E* 2dys_E* 2eij_E* 2eik_E* 2eil_E* 2eim_E* 2ein_E* 2occ_E* 2ybb_P* 2zxw_E* 3abk_E* 3abl_E* 3abm_E* 3ag1_E* 3ag2_E* ...

Probab=93.87  E-value=0.68  Score=29.46  Aligned_cols=65  Identities=17%  Similarity=0.207  Sum_probs=47.1

Q ss_pred             CHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHH
Q 023915           45 DMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHL  110 (275)
Q Consensus        45 ~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~  110 (275)
                      +.-+..+-++.+....+.|+.....+.+++|.|.+|+..|.++|+..+..- .....+|..+++-.
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~-~~~~~iY~~~lqEl   89 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVIQEL   89 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh-cCchhhHHHHHHHH
Confidence            455677777777777888888888888888888888888888888877442 23344576666653

>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=93.77  E-value=0.2  Score=40.94  Aligned_cols=72  Identities=14%  Similarity=0.028  Sum_probs=58.9

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHH-----cCCCCCHHhHH
Q 023915           32 LLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHR-----KGHQPEEELCS  104 (275)
Q Consensus        32 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~-----~g~~~~~~~~~  104 (275)
                      +...++.++...|++++|+..+..+... -+-+...|..+|.++.+.|+..+|++.|+...+     .|+.|+..+-.
T Consensus       173 a~~~~~~~~l~~g~~~~a~~~l~~~~~~-~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~  249 (388)
T 2ff4_A          173 AHTAKAEAEIACGRASAVIAELEALTFE-HPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRA  249 (388)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH-STTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            4566788888999999999988888653 334667899999999999999999999999763     59999876543

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=93.68  E-value=0.87  Score=30.40  Aligned_cols=80  Identities=11%  Similarity=-0.035  Sum_probs=39.6

Q ss_pred             HHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHH---HHHHHHHHhhcCCCC-Chh-hHHHHHHHHHccCCHHHHHHH
Q 023915           13 EAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMES---VMHVMRKLDELAISP-DYN-TFHILIKYFCKEKMYILAYRT   87 (275)
Q Consensus        13 ~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~---a~~~~~~m~~~g~~p-~~~-t~~~li~~~~~~~~~~~a~~~   87 (275)
                      .+.+-|......|. |+..+-..+-.++.+..+..+   ++.++++....+ .| +.. ..-.|.-++.+.|+++.|.+.
T Consensus        19 ~~~~~y~~e~~~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~-~p~~~Rd~lY~LAvg~yklg~Y~~A~~~   96 (126)
T 1nzn_A           19 KFEKKFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKALKY   96 (126)
T ss_dssp             HHHHHHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS-CHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHhccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHHhhhHHHHHHH
Confidence            33444443333333 455554555555555555444   566666655542 12 222 222344456666666666666


Q ss_pred             HHHHHHc
Q 023915           88 MVDMHRK   94 (275)
Q Consensus        88 ~~~m~~~   94 (275)
                      ++.+++.
T Consensus        97 ~~~lL~~  103 (126)
T 1nzn_A           97 VRGLLQT  103 (126)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHh
Confidence            6666653

>1wdy_A 2-5A-dependent ribonuclease; hydrolase, RNA-binding; HET: 25A; 1.80A {Homo sapiens} SCOP: d.211.1.1

Probab=93.40  E-value=0.64  Score=35.38  Aligned_cols=244  Identities=8%  Similarity=-0.034  Sum_probs=120.7

Q ss_pred             hhhhhhcCcHHHHHHHHHHHHhcCCCCcHH---hHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhh--HHHHHHHHH
Q 023915            2 ISAFCRGGCFEEAKQLAGDFEAKYDKYDVV---LLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNT--FHILIKYFC   76 (275)
Q Consensus         2 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~---~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t--~~~li~~~~   76 (275)
                      +...++.|+++.+..++    +.|..++..   .-.+.+...+..|+.+-    ++.+.+.|..|+...  -.+.+...+
T Consensus         9 L~~A~~~g~~~~v~~Ll----~~g~~~~~~~~~~g~t~L~~A~~~g~~~~----v~~Ll~~g~~~~~~~~~g~t~L~~A~   80 (285)
T 1wdy_A            9 LIKAVQNEDVDLVQQLL----EGGANVNFQEEEGGWTPLHNAVQMSREDI----VELLLRHGADPVLRKKNGATPFLLAA   80 (285)
T ss_dssp             HHHHHHTTCHHHHHHHH----HTTCCTTCCCTTTCCCHHHHHHHTTCHHH----HHHHHHTTCCTTCCCTTCCCHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHH----HcCCCcccccCCCCCcHHHHHHHcCCHHH----HHHHHHcCCCCcccCCCCCCHHHHHH
Confidence            34567778877665554    445544432   11244555566777644    444445566555432  123444455


Q ss_pred             ccCCHHHHHHHHHHHHHcCCCCCHH---hHHHHHHHHhccCCHHHHHHHHHHHHhccccccHH------------hHHHH
Q 023915           77 KEKMYILAYRTMVDMHRKGHQPEEE---LCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKA------------LHEKI  141 (275)
Q Consensus        77 ~~~~~~~a~~~~~~m~~~g~~~~~~---~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~------------~~~~l  141 (275)
                      ..|+.+    +++.+.+.|..++..   .++ .+...+..|+.+-+..++    ..+..++..            .-...
T Consensus        81 ~~~~~~----~v~~Ll~~g~~~~~~~~~g~t-~L~~A~~~~~~~~~~~Ll----~~g~~~~~~~~~~~~~~~~~~~g~t~  151 (285)
T 1wdy_A           81 IAGSVK----LLKLFLSKGADVNECDFYGFT-AFMEAAVYGKVKALKFLY----KRGANVNLRRKTKEDQERLRKGGATA  151 (285)
T ss_dssp             HHTCHH----HHHHHHHTTCCTTCBCTTCCB-HHHHHHHTTCHHHHHHHH----HTTCCTTCCCCCCHHHHHTTCCCCCH
T ss_pred             HcCCHH----HHHHHHHcCCCCCccCcccCC-HHHHHHHhCCHHHHHHHH----HhCCCcccccccHHHHHhhccCCCcH
Confidence            666655    455555667665432   222 334445566665444443    333332211            01123


Q ss_pred             HHHHHhccchHHHHHHHHHhhcCCChh--HHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChh---hHHHHHHHHHHhc
Q 023915          142 LHILISGKLLKDAYVVVKDNSESISHP--AIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQG---IFHIAIARYIAER  216 (275)
Q Consensus       142 i~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~---~y~~li~~~~~~~  216 (275)
                      +...+..|+.+-+..+++.........  .-.+.+...+..++.....++.+.+.+.|..++..   -.+.|..+ + ..
T Consensus       152 L~~A~~~~~~~~v~~Ll~~~~~~~~~~~~~g~t~l~~a~~~~~~~~~~~i~~~Ll~~g~~~~~~~~~g~t~L~~A-~-~~  229 (285)
T 1wdy_A          152 LMDAAEKGHVEVLKILLDEMGADVNACDNMGRNALIHALLSSDDSDVEAITHLLLDHGADVNVRGERGKTPLILA-V-EK  229 (285)
T ss_dssp             HHHHHHHTCHHHHHHHHHTSCCCTTCCCTTSCCHHHHHHHCSCTTTHHHHHHHHHHTTCCSSCCCTTSCCHHHHH-H-HT
T ss_pred             HHHHHHcCCHHHHHHHHHhcCCCCCccCCCCCCHHHHHHHccccchHHHHHHHHHHcCCCCCCcCCCCCcHHHHH-H-Hc
Confidence            445556777777666666522211111  11122333445666666677777788888776643   34445444 3 55


Q ss_pred             hhHHHHHHHHHHHhhCCCCCCh---hhHHHHHHHHHHhh-HHHHHHHHhccCCCCC
Q 023915          217 EKKELLLKLLEWMTGQGYVVDS---STRNLILKNSHLFG-RQLIADILSKQHMKSK  268 (275)
Q Consensus       217 ~~~~~a~~l~~~m~~~~~~p~~---~t~~~li~~~~~~g-~~~~~~~~~~~~~~~~  268 (275)
                      |+.+.+..+++.   .|..++.   .-.+.+. ...+.| .+....++.++.-+..
T Consensus       230 ~~~~~v~~Ll~~---~g~~~~~~~~~g~t~l~-~A~~~~~~~i~~~Ll~~Ga~~~~  281 (285)
T 1wdy_A          230 KHLGLVQRLLEQ---EHIEINDTDSDGKTALL-LAVELKLKKIAELLCKRGASTDC  281 (285)
T ss_dssp             TCHHHHHHHHHS---SSCCTTCCCTTSCCHHH-HHHHTTCHHHHHHHHHHSSCSCC
T ss_pred             CCHHHHHHHHhc---cCCCccccCCCCCcHHH-HHHHcCcHHHHHHHHHcCCCCCc
Confidence            777654444441   4544432   2223333 334445 4455555556655443

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=93.40  E-value=1.3  Score=30.65  Aligned_cols=31  Identities=6%  Similarity=0.002  Sum_probs=13.7

Q ss_pred             CCHHhHHHHHHHHhccC---CHHHHHHHHHHHHh
Q 023915           98 PEEELCSSLIFHLGKMR---AHSEALSVYNMLRY  128 (275)
Q Consensus        98 ~~~~~~~~li~~~~~~g---~~~~a~~~~~~m~~  128 (275)
                      ++..+...+-.++++.+   +.+++..+|++...
T Consensus        30 ~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~   63 (152)
T 1pc2_A           30 VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLP   63 (152)
T ss_dssp             CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHh
Confidence            34444444444444444   33344444444443

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=93.05  E-value=2.1  Score=38.12  Aligned_cols=124  Identities=10%  Similarity=0.098  Sum_probs=76.7

Q ss_pred             HHHHHHHHccCC-HHHHHHHHHHHHHcCCCCCHHh--HHHHHHHHhccCC-HHHHHHHHHHHHhc------cccc-----
Q 023915           69 HILIKYFCKEKM-YILAYRTMVDMHRKGHQPEEEL--CSSLIFHLGKMRA-HSEALSVYNMLRYS------KRSM-----  133 (275)
Q Consensus        69 ~~li~~~~~~~~-~~~a~~~~~~m~~~g~~~~~~~--~~~li~~~~~~g~-~~~a~~~~~~m~~~------~~~~-----  133 (275)
                      ..++..+...++ .+.|..+|+++.+..  |...+  ...++..+.+.++ --+|.+++.+..+.      ...+     
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            445555555666 588999999998763  43332  2334444444332 23455555443321      0000     


Q ss_pred             ------cHHhHHHHHHHHHhccchHHHHHHHHHhhcC-CC-hhHHHHHHHHHHhcCChhHHHHHHHHHH
Q 023915          134 ------CKALHEKILHILISGKLLKDAYVVVKDNSES-IS-HPAIKKFASAFVRLGNINLVNDVMKAIH  194 (275)
Q Consensus       134 ------~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~  194 (275)
                            +....+.=.+-|...|+++-|+++-++.... |+ -.+|..|...|...|+++.|+-.++.+.
T Consensus       330 ~~~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~aPseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          330 ARLMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTELALDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             ccccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHhcCchhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence                  0111122233456789999999999987763 32 3489999999999999999999998863

>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=92.85  E-value=1.1  Score=28.44  Aligned_cols=64  Identities=9%  Similarity=0.127  Sum_probs=39.7

Q ss_pred             HHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHH
Q 023915           81 YILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHIL  145 (275)
Q Consensus        81 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~  145 (275)
                      .=+..+-++.+-...+.|++....+.+.||.|.+++..|.++|+.++.+-.. ...+|..+++.+
T Consensus        26 ~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~~~-~~~iY~~~lqEl   89 (109)
T 1v54_E           26 AWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGP-HKEIYPYVIQEL   89 (109)
T ss_dssp             HHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTT-CTTHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcC-chhhHHHHHHHH
Confidence            3345556666666667777777777777777777777777777766543211 133566665553

>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=92.83  E-value=0.8  Score=37.33  Aligned_cols=71  Identities=13%  Similarity=-0.016  Sum_probs=59.6

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHh-----ccccccHHhH
Q 023915           67 TFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRY-----SKRSMCKALH  138 (275)
Q Consensus        67 t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~~~~~~~~~~  138 (275)
                      +...++..+...|+++.+...+..+.... +.+...+..+|.++.+.|+..+|++.|+....     -|+.|++.+-
T Consensus       173 a~~~~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~  248 (388)
T 2ff4_A          173 AHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLR  248 (388)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHH
Confidence            35567888889999999999999987653 56788999999999999999999999998764     3888887554

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=92.57  E-value=1.7  Score=29.60  Aligned_cols=143  Identities=12%  Similarity=0.045  Sum_probs=83.0

Q ss_pred             cCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHH
Q 023915            8 GGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRT   87 (275)
Q Consensus         8 ~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~   87 (275)
                      .|.+++..++..+....   .+..-||=+|......-+-+-..++++..-+-   -|.          ...|++......
T Consensus        20 dG~v~qGveii~k~~~s---sni~E~NW~ICNiiD~a~C~y~v~vLd~IGki---FDi----------s~C~NlKrVi~C   83 (172)
T 1wy6_A           20 DGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSY---FDL----------DKCQNLKSVVEC   83 (172)
T ss_dssp             TTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG---SCG----------GGCSCTHHHHHH
T ss_pred             hhhHHHHHHHHHHHcCC---CCccccceeeeecchhhchhHHHHHHHHHhhh---cCc----------HhhhcHHHHHHH
Confidence            46666666666666543   14455666666655556666666666555331   222          123333333333


Q ss_pred             HHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhcCCCh
Q 023915           88 MVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSESISH  167 (275)
Q Consensus        88 ~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~  167 (275)
                      +-.+     -.+...+...++.....|+.++..+++.++.. +.+|++...-.+-.+|.+.|+..+|.+++.+.-+.+.+
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 GVIN-----NTLNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  157 (172)
T ss_dssp             HHHT-----TCCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHh-----cchHHHHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhhH
Confidence            3322     12334456667777777777777777777543 44455556667777888888888888888777776666


Q ss_pred             hHHHH
Q 023915          168 PAIKK  172 (275)
Q Consensus       168 ~~~~~  172 (275)
                      ...+.
T Consensus       158 EAC~~  162 (172)
T 1wy6_A          158 EACNA  162 (172)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            54433

>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=91.85  E-value=1.6  Score=29.44  Aligned_cols=81  Identities=14%  Similarity=0.175  Sum_probs=59.9

Q ss_pred             cHHhHHH-HHHHHHccC-CHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHH
Q 023915           29 DVVLLNS-MLCAYCRTG-DMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSL  106 (275)
Q Consensus        29 ~~~~~~~-li~~~~~~g-~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~l  106 (275)
                      +..-|++ ....+.+.. |.-+..+-++.+....+.|+.....+.+++|.+.+|+..|.++|+-.+..- .+....|..+
T Consensus        50 t~EeFdaRy~~~F~~~~iD~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K~-~~~~~iY~y~  128 (152)
T 2y69_E           50 TDEEFDARWVTYFNKPDIDAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYV  128 (152)
T ss_dssp             CHHHHHHHHHHHHTCTTCCHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHH
T ss_pred             cHHHHHHHHHHHcCCcCccHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHhc-CCchhhHHHH
Confidence            3333443 334444444 566778888888888999999999999999999999999999999988542 3445568777


Q ss_pred             HHHH
Q 023915          107 IFHL  110 (275)
Q Consensus       107 i~~~  110 (275)
                      ++-.
T Consensus       129 lqEl  132 (152)
T 2y69_E          129 IQEL  132 (152)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            7654

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=91.55  E-value=5.5  Score=37.52  Aligned_cols=80  Identities=16%  Similarity=0.125  Sum_probs=42.2

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHHhc-ccc---ccHHhHHHHHHHHHhccchHHHHHHHHHhhcCC-ChhHHHHHHHHH
Q 023915          103 CSSLIFHLGKMRAHSEALSVYNMLRYS-KRS---MCKALHEKILHILISGKLLKDAYVVVKDNSESI-SHPAIKKFASAF  177 (275)
Q Consensus       103 ~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~li~~~  177 (275)
                      |..++..|-+.|.++.+.++-....+. +..   .....|..+.+.+...|++++|...+-.+.... .......|+..+
T Consensus       902 Y~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~r~~cLr~LV~~l  981 (1139)
T 4fhn_B          902 YLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPLKKSCLLDFVNQL  981 (1139)
T ss_dssp             HHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHHHHHHHHHHHHHH
Confidence            455666666666666666555433321 111   112246666666677777777766666554422 223444555555


Q ss_pred             HhcCC
Q 023915          178 VRLGN  182 (275)
Q Consensus       178 ~~~~~  182 (275)
                      |..|.
T Consensus       982 ce~~~  986 (1139)
T 4fhn_B          982 TKQGK  986 (1139)
T ss_dssp             HHHCC
T ss_pred             HhCCC
Confidence            54443

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=91.36  E-value=5.5  Score=33.05  Aligned_cols=228  Identities=8%  Similarity=-0.016  Sum_probs=130.2

Q ss_pred             hhhhhhcCcHHHHHHHHHHHHh-cCCCCcHHh--HHHHHHHHHccCCHHHH--HHHHHHHhh--cC-CCC---ChhhHHH
Q 023915            2 ISAFCRGGCFEEAKQLAGDFEA-KYDKYDVVL--LNSMLCAYCRTGDMESV--MHVMRKLDE--LA-ISP---DYNTFHI   70 (275)
Q Consensus         2 i~~~~~~g~~~~a~~~~~~m~~-~g~~p~~~~--~~~li~~~~~~g~~~~a--~~~~~~m~~--~g-~~p---~~~t~~~   70 (275)
                      +..|.+.|+++...+.+..+.. +|..+...+  -+.++.........+..  ..+.+....  .| +-.   .......
T Consensus        63 v~l~~~~~~~~~l~e~i~~Lskkr~qlk~ai~~~V~~~~~~l~~~~~~d~~~~~~~i~~l~~vte~kiflE~erarl~~~  142 (445)
T 4b4t_P           63 VDLLASRNKWDDLNEQLTLLSKKHGQLKLSIQYMIQKVMEYLKSSKSLDLNTRISVIETIRVVTENKIFVEVERARVTKD  142 (445)
T ss_dssp             HHHHHHHSCHHHHHHHHHHHHTTTTTSHHHHHHHHHHHHHHHHHHCTTHHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHHhccchHHHHHHHHHHHH
Confidence            5567788888888887777664 343333322  12223333233333322  222222211  11 111   2223457


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHHc--CCCCC---HHhHHHHHHHHhccCCHHHHHHHHHHHHhc----cccc--cHHhHH
Q 023915           71 LIKYFCKEKMYILAYRTMVDMHRK--GHQPE---EELCSSLIFHLGKMRAHSEALSVYNMLRYS----KRSM--CKALHE  139 (275)
Q Consensus        71 li~~~~~~~~~~~a~~~~~~m~~~--g~~~~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~~--~~~~~~  139 (275)
                      |...+...|++.+|..++.++...  |....   ...+...+..|...+++.+|..++......    ...|  ....+.
T Consensus       143 La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~  222 (445)
T 4b4t_P          143 LVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSILKGDYSQATVLSRKILKKTFKNPKYESLKLEYYN  222 (445)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHH
T ss_pred             HHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHH
Confidence            788899999999999999998742  22222   246777888999999999999999987532    2222  234567


Q ss_pred             HHHHHHHhccchHHHHHHHHHhhc----CCChhHHHH----HHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHH
Q 023915          140 KILHILISGKLLKDAYVVVKDNSE----SISHPAIKK----FASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIAR  211 (275)
Q Consensus       140 ~li~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~~----li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~  211 (275)
                      ..+..+...+++.+|...|.+...    ..++..+..    ++....-.+....-..+..........++...|..++.+
T Consensus       223 ~~~~~~~~e~~y~~a~~~y~e~~~~~~~~~d~~~~~~~L~~~v~~~iLa~~~~~~~~ll~~~~~~~~~~~l~~~~~L~k~  302 (445)
T 4b4t_P          223 LLVKISLHKREYLEVAQYLQEIYQTDAIKSDEAKWKPVLSHIVYFLVLSPYGNLQNDLIHKIQNDNNLKKLESQESLVKL  302 (445)
T ss_dssp             HHHHHHHHHCCHHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHSSCSSTTHHHHHSHHHHSSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHhCCCCchHHHHHHHHhhcccccccHHHHHHHHH
Confidence            777888889999999888877654    233332222    222222222222223333333333334667789999999


Q ss_pred             HHHh-chhHHHHHHHHHHH
Q 023915          212 YIAE-REKKELLLKLLEWM  229 (275)
Q Consensus       212 ~~~~-~~~~~~a~~l~~~m  229 (275)
                      |... ..+|+.+.+.|...
T Consensus       303 f~~~~L~~~~~~~~~~~~~  321 (445)
T 4b4t_P          303 FTTNELMRWPIVQKTYEPV  321 (445)
T ss_dssp             HHHCCSSSHHHHHHHTCSS
T ss_pred             HHhchHhhhHHHHHHHHHH
Confidence            8522 34566666665543

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=91.33  E-value=3.9  Score=33.78  Aligned_cols=98  Identities=8%  Similarity=-0.088  Sum_probs=65.8

Q ss_pred             hhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCC--CHHhHHHHHHHHhccCCHHHHHHHHHHHHhc---cccccHHh--H
Q 023915           66 NTFHILIKYFCKEKMYILAYRTMVDMHRKGHQP--EEELCSSLIFHLGKMRAHSEALSVYNMLRYS---KRSMCKAL--H  138 (275)
Q Consensus        66 ~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~---~~~~~~~~--~  138 (275)
                      .+...+...|.+.|+++.|.+.+.++...-..+  -...+-.+|..+...+++..+...+......   +..+....  .
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            366778888999999999999999998653333  3457778888888999999998888876542   22222211  0


Q ss_pred             HHHHHHHHhccchHHHHHHHHHhhc
Q 023915          139 EKILHILISGKLLKDAYVVVKDNSE  163 (275)
Q Consensus       139 ~~li~~~~~~~~~~~a~~~~~~~~~  163 (275)
                      ..-...+...+++..|...|-+...
T Consensus       212 ~~~gl~~l~~r~f~~Aa~~f~e~~~  236 (429)
T 4b4t_R          212 TYYGIHCLAVRNFKEAAKLLVDSLA  236 (429)
T ss_dssp             HHHHHGGGGTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhChHHHHHHHHHHHhc
Confidence            1111122356788888887776544

>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=91.33  E-value=2.3  Score=28.67  Aligned_cols=65  Identities=9%  Similarity=0.103  Sum_probs=52.1

Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHH
Q 023915           80 MYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHIL  145 (275)
Q Consensus        80 ~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~  145 (275)
                      |.=+..+-++.+....+.|++....+.+.+|-+.+++..|.++|+-++.+- .+...+|..+++.+
T Consensus        68 D~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K~-~~~~~iY~y~lqEl  132 (152)
T 2y69_E           68 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVIQEL  132 (152)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHhc-CCchhhHHHHHHHH
Confidence            334466677777788899999999999999999999999999999887553 22355788887765

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=90.69  E-value=7.2  Score=36.71  Aligned_cols=82  Identities=13%  Similarity=0.056  Sum_probs=41.3

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCH----HhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHH
Q 023915           68 FHILIKYFCKEKMYILAYRTMVDMHRKGHQPEE----ELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILH  143 (275)
Q Consensus        68 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~----~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~  143 (275)
                      |..++..+-+.+.++.+.++-....+..-+-+.    ..|..+.+++...|++++|...+-.+.....  .......+|.
T Consensus       902 Y~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~--r~~cLr~LV~  979 (1139)
T 4fhn_B          902 YLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPL--KKSCLLDFVN  979 (1139)
T ss_dssp             HHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSS--CHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHH--HHHHHHHHHH
Confidence            345555555666666666555554443211111    1355566666666666666666555443322  2234455555


Q ss_pred             HHHhccch
Q 023915          144 ILISGKLL  151 (275)
Q Consensus       144 ~~~~~~~~  151 (275)
                      .+|..+..
T Consensus       980 ~lce~~~~  987 (1139)
T 4fhn_B          980 QLTKQGKI  987 (1139)
T ss_dssp             HHHHHCCH
T ss_pred             HHHhCCCh
Confidence            55554443

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=90.08  E-value=3  Score=27.81  Aligned_cols=22  Identities=14%  Similarity=0.098  Sum_probs=11.5

Q ss_pred             HHHHHhcCChhHHHHHHHHHHH
Q 023915          174 ASAFVRLGNINLVNDVMKAIHA  195 (275)
Q Consensus       174 i~~~~~~~~~~~a~~~~~~m~~  195 (275)
                      .-++.+.|++++|.+.++.+.+
T Consensus        81 Avg~yklg~Y~~A~~~~~~lL~  102 (126)
T 1nzn_A           81 AVGNYRLKEYEKALKYVRGLLQ  102 (126)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhhhHHHHHHHHHHHHH
Confidence            3445555555555555555544

>1k1a_A B-cell lymphoma 3-encoded protein; BCL-3, NF-kappab transcription factors, ikappab proteins; 1.86A {Homo sapiens} SCOP: d.211.1.1 PDB: 1k1b_A

Probab=89.45  E-value=1.4  Score=32.60  Aligned_cols=23  Identities=9%  Similarity=0.157  Sum_probs=10.6

Q ss_pred             HccCCHHHHHHHHHHHhhcCCCC
Q 023915           41 CRTGDMESVMHVMRKLDELAISP   63 (275)
Q Consensus        41 ~~~g~~~~a~~~~~~m~~~g~~p   63 (275)
                      ++.|+.+.+..+++.+.+.|..+
T Consensus        17 ~~~g~~~~v~~Ll~~~~~~~~~~   39 (241)
T 1k1a_A           17 VVQGNLPAVHRLVNLFQQGGREL   39 (241)
T ss_dssp             HHTTCHHHHHHHHHHHHHTTCCS
T ss_pred             HHcCCHHHHHHHHHHHHhcCCCC
Confidence            34455555554544444444333

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=89.33  E-value=3  Score=29.26  Aligned_cols=34  Identities=18%  Similarity=0.142  Sum_probs=18.5

Q ss_pred             HHHHHHhccchHHHHHHHHHhhcCCChhHHHHHH
Q 023915          141 ILHILISGKLLKDAYVVVKDNSESISHPAIKKFA  174 (275)
Q Consensus       141 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~li  174 (275)
                      +-.+|.+.+++++|+.+++.+......|-.|.++
T Consensus       128 ia~C~~~l~~~~~Ai~~Le~Ip~k~Rt~kvnm~L  161 (167)
T 3ffl_A          128 LAECYTVLKQDKDAIAILDGIPSRQRTPKINMLL  161 (167)
T ss_dssp             HHHHHHHTTCHHHHHHHHHTSCGGGCCHHHHHHH
T ss_pred             HHHHHHHHCCHHHHHHHHhcCCchhcCHHHHHHH
Confidence            4445556666666666666655544444444433

>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=89.32  E-value=4  Score=28.23  Aligned_cols=62  Identities=15%  Similarity=0.076  Sum_probs=30.5

Q ss_pred             cchHHHHHHHHHhhcC--CChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHH
Q 023915          149 KLLKDAYVVVKDNSES--ISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIAR  211 (275)
Q Consensus       149 ~~~~~a~~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~  211 (275)
                      ++.++|.++|+.+...  ...-.+......=.+.|++..|.+++..-...+.+| .....+.|+-
T Consensus        74 ~D~d~aR~vy~~a~~~hKkFAKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~-~~~le~a~~n  137 (161)
T 4h7y_A           74 QEPDDARDYFQMARANCKKFAFVHISFAQFELSQGNVKKSKQLLQKAVERGAVP-LEMLEIALRN  137 (161)
T ss_dssp             HCGGGCHHHHHHHHHHCTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBC-HHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCc-HHHHHHHHHh
Confidence            4555555555554331  112233444445556666666666666655554332 2344444433

>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=88.45  E-value=4.2  Score=31.84  Aligned_cols=23  Identities=13%  Similarity=0.111  Sum_probs=11.9

Q ss_pred             HHHHHHHhccchHHHHHHHHHhh
Q 023915          140 KILHILISGKLLKDAYVVVKDNS  162 (275)
Q Consensus       140 ~li~~~~~~~~~~~a~~~~~~~~  162 (275)
                      .++.-|...|+.++|...++++.
T Consensus       171 ~lL~EY~~~~D~~EA~~ci~EL~  193 (307)
T 2zu6_B          171 MLLKEYLLSGDISEAEHCLKELE  193 (307)
T ss_dssp             HHHHHHHHHCCHHHHHHHHHHHC
T ss_pred             HHHHHHHcCCCHHHHHHHHHHcC
Confidence            44555555555555555555543

>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=88.44  E-value=4.7  Score=27.89  Aligned_cols=105  Identities=8%  Similarity=-0.132  Sum_probs=61.9

Q ss_pred             cHHhHHHHHHHHHccCCH------HHHHHHHHHHhhcCCCCChhh-HHHHHHH------HHccCCHHHHHHHHHHHHHcC
Q 023915           29 DVVLLNSMLCAYCRTGDM------ESVMHVMRKLDELAISPDYNT-FHILIKY------FCKEKMYILAYRTMVDMHRKG   95 (275)
Q Consensus        29 ~~~~~~~li~~~~~~g~~------~~a~~~~~~m~~~g~~p~~~t-~~~li~~------~~~~~~~~~a~~~~~~m~~~g   95 (275)
                      |..+|=..+...-+.|++      ++..++|++... .++|+... |..-|..      +...+|+++|.++|+.+++..
T Consensus        12 ~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia-~~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~~h   90 (161)
T 4h7y_A           12 NPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIE-ALPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARANC   90 (161)
T ss_dssp             SHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHH-HSCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHH-cCCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh
Confidence            455666666666666776      677777776655 36665321 1111111      112377888888888887652


Q ss_pred             CCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccH
Q 023915           96 HQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCK  135 (275)
Q Consensus        96 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~  135 (275)
                      -.- ...|-.....=.+.|++..|.+++......+..|..
T Consensus        91 KkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~~~  129 (161)
T 4h7y_A           91 KKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAVPLE  129 (161)
T ss_dssp             TTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBCHH
T ss_pred             HHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCcHH
Confidence            222 444444444456678888888888877766665543

>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=88.06  E-value=4.9  Score=32.25  Aligned_cols=24  Identities=13%  Similarity=0.144  Sum_probs=12.5

Q ss_pred             HHHHHHHHhccchHHHHHHHHHhh
Q 023915          139 EKILHILISGKLLKDAYVVVKDNS  162 (275)
Q Consensus       139 ~~li~~~~~~~~~~~a~~~~~~~~  162 (275)
                      +.+|.-|...++.++|...++++.
T Consensus       221 ~~lL~EY~~s~D~~EA~~ci~EL~  244 (358)
T 3eiq_C          221 DMLLKEYLLSGDISEAEHCLKELE  244 (358)
T ss_dssp             HHHHHHHHHHCCHHHHHHHHHHHC
T ss_pred             HHHHHHhccCCCHHHHHHHHHHcc
Confidence            445555555555555555555544

>3utm_A Tankyrase-1; tankyrase, TNKS, ankryin repeat clusters, WNT signaling, POL ribosylation, transferase-signaling protein complex; 2.00A {Mus musculus}

Probab=87.74  E-value=8.5  Score=30.05  Aligned_cols=107  Identities=9%  Similarity=-0.051  Sum_probs=50.9

Q ss_pred             hhhhcCcHHHHHHHHHHHHhcCCCCc---HHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhH--HHHHHHHHcc
Q 023915            4 AFCRGGCFEEAKQLAGDFEAKYDKYD---VVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTF--HILIKYFCKE   78 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~g~~p~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~--~~li~~~~~~   78 (275)
                      ..++.|+.+.+..++..   .+..++   ..-. +.+...+..|+.+-+.    .+.+.|..++....  .+.+...+..
T Consensus        30 ~A~~~g~~~~v~~ll~~---~~~~~~~~d~~g~-t~L~~A~~~g~~~~v~----~Ll~~g~~~~~~~~~g~t~L~~A~~~  101 (351)
T 3utm_A           30 EAARSGNEEKLMALLTP---LNVNCHASDGRKS-TPLHLAAGYNRVRIVQ----LLLQHGADVHAKDKGGLVPLHNACSY  101 (351)
T ss_dssp             HHHHHTCHHHHHHHCCT---TTTTCCCSSTTCC-CHHHHHHHTTCHHHHH----HHHHTTCCTTCCCTTCCCHHHHHHHT
T ss_pred             HHHHcCCHHHHHHHHHh---cCCCcccCCCCCC-CHHHHHHHcCCHHHHH----HHHHcCCCCCccCCCCCcHHHHHHHC
Confidence            45667777777776543   233222   2222 3344445667764433    33445555443321  1334444556


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHH---hHHHHHHHHhccCCHHHHHHHH
Q 023915           79 KMYILAYRTMVDMHRKGHQPEEE---LCSSLIFHLGKMRAHSEALSVY  123 (275)
Q Consensus        79 ~~~~~a~~~~~~m~~~g~~~~~~---~~~~li~~~~~~g~~~~a~~~~  123 (275)
                      |+.+    +++.+.+.|..++..   -++ .+...+..|+.+-+..++
T Consensus       102 g~~~----iv~~Ll~~g~~~~~~~~~g~t-~L~~A~~~~~~~~v~~Ll  144 (351)
T 3utm_A          102 GHYE----VTELLLKHGACVNAMDLWQFT-PLHEAASKNRVEVCSLLL  144 (351)
T ss_dssp             TCHH----HHHHHHHTTCCTTCCCTTCCC-HHHHHHHTTCHHHHHHHH
T ss_pred             CCHH----HHHHHHHCCCCCCCCCCCCCC-HHHHHHHcCCHHHHHHHH
Confidence            6655    444455556555432   222 333334556665544444

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=85.70  E-value=11  Score=30.99  Aligned_cols=118  Identities=14%  Similarity=0.057  Sum_probs=74.0

Q ss_pred             HHHHHHHHHHHHhcC-CCC-cHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCC--CChhhHHHHHHHHHccCCHHHHHH
Q 023915           11 FEEAKQLAGDFEAKY-DKY-DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAIS--PDYNTFHILIKYFCKEKMYILAYR   86 (275)
Q Consensus        11 ~~~a~~~~~~m~~~g-~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~--p~~~t~~~li~~~~~~~~~~~a~~   86 (275)
                      +++..+......+.. ... -..++..+-.-|.+.|+.+.|.+.|.++...-..  --...+-.+|+.+...+++..+..
T Consensus       110 l~~l~~~~~~~~~~~~~e~e~~~~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~  189 (429)
T 4b4t_R          110 IKELNEKIQKLEEDDEGELEQAQAWINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKE  189 (429)
T ss_dssp             HHHHHHHHHHHHHCCSCCCCCSSCCHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHHHhhccccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHH
Confidence            444445555555422 222 2346777888888899999999999888864332  334567778888888889998888


Q ss_pred             HHHHHHH---cCCCCCHHhH--HHHHHHHhccCCHHHHHHHHHHHHh
Q 023915           87 TMVDMHR---KGHQPEEELC--SSLIFHLGKMRAHSEALSVYNMLRY  128 (275)
Q Consensus        87 ~~~~m~~---~g~~~~~~~~--~~li~~~~~~g~~~~a~~~~~~m~~  128 (275)
                      .+++...   .+-.|+...-  ..-...+...+++..|.+.|-+...
T Consensus       190 ~~~ka~~~~~~~~d~~~~~~lk~~~gl~~l~~r~f~~Aa~~f~e~~~  236 (429)
T 4b4t_R          190 KLEAVNSMIEKGGDWERRNRYKTYYGIHCLAVRNFKEAAKLLVDSLA  236 (429)
T ss_dssp             HHHHHHHHHTTCCCTHHHHHHHHHHHHGGGGTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhcCCCHHHHHHHHHHHHHHHHHhChHHHHHHHHHHHhc
Confidence            8888763   2323332211  1111223456788888887777654

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=85.68  E-value=4  Score=31.19  Aligned_cols=115  Identities=18%  Similarity=0.152  Sum_probs=71.5

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcC--CCCChhhHHHHHHHHHccCC
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA--ISPDYNTFHILIKYFCKEKM   80 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g--~~p~~~t~~~li~~~~~~~~   80 (275)
                      ....+.|++++|++....-.+..+. |...-..++..+|-.|++++|.+=++...+..  ..|...+|..+|.+      
T Consensus         5 ~~ll~~g~L~~al~~~~~~VR~~P~-da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l~p~~~~~a~~yr~lI~a------   77 (273)
T 1zbp_A            5 KNALSEGQLQQALELLIEAIKASPK-DASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRHLVKA------   77 (273)
T ss_dssp             HHHTTTTCHHHHHHHHHHHHHTCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHH------
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCchhhHHHHHHHHHHHH------
Confidence            4567888999999888887776554 77888888899999999999988887776622  22233345554443      


Q ss_pred             HHHHHHHHHHHHHcCCCCC-----HHhHHHHHHHHhc--cCCHHHHHHHHHHHHh
Q 023915           81 YILAYRTMVDMHRKGHQPE-----EELCSSLIFHLGK--MRAHSEALSVYNMLRY  128 (275)
Q Consensus        81 ~~~a~~~~~~m~~~g~~~~-----~~~~~~li~~~~~--~g~~~~a~~~~~~m~~  128 (275)
                          +..=.+....+-.|.     ..-...++.+...  .|+.++|..+-.+...
T Consensus        78 ----E~~R~~vfaG~~~P~~~g~~~~w~~~ll~Al~~~~~G~~~~A~~lr~~A~e  128 (273)
T 1zbp_A           78 ----AQARKDFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEE  128 (273)
T ss_dssp             ----HHHHHHHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             ----HHHHHHHHcCCCCCCCCCCCHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHh
Confidence                222223333332331     1233445555443  5888888777776643

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=83.78  E-value=6.3  Score=24.98  Aligned_cols=50  Identities=8%  Similarity=0.101  Sum_probs=23.6

Q ss_pred             HHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcC
Q 023915           40 YCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKG   95 (275)
Q Consensus        40 ~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g   95 (275)
                      +...|++++|..+.+.+.    .||...|-+|..  .+.|-.+++..-+.++-.+|
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            344555555555544432    355555544432  34444455444444444443

>3kea_A K1L; tropism, ANK repeat, viral protein; 2.30A {Vaccinia virus}

Probab=83.76  E-value=3.9  Score=31.37  Aligned_cols=211  Identities=7%  Similarity=-0.041  Sum_probs=104.1

Q ss_pred             hhcCcHHHHHHHHHHHHhcCC-CCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHH
Q 023915            6 CRGGCFEEAKQLAGDFEAKYD-KYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILA   84 (275)
Q Consensus         6 ~~~g~~~~a~~~~~~m~~~g~-~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a   84 (275)
                      .+..+..+..+++..   .++ .+|..-++.| ...+..|+.+-+..++    +.|..++...-.+.+...+..|+.+-+
T Consensus         7 i~~~~~~~v~~lL~~---~~~~~~d~~g~t~L-~~A~~~g~~~~v~~Ll----~~g~~~~~~~g~t~L~~A~~~g~~~~v   78 (285)
T 3kea_A            7 INTWKSKQLKSFLSS---KDTFKADVHGHSAS-YYAIADNNVRLVCTLL----NAGALKNLLENEFPLHQAATLEDTKIV   78 (285)
T ss_dssp             GGGCCHHHHHHHHHS---TTTTCCCTTSCCHH-HHHHHTTCHHHHHHHH----HTTGGGSCCTTCCHHHHHTTSSSCHHH
T ss_pred             HHhcCHHHHHHHHHh---CCCCccCCCCCCHH-HHHHHcCCHHHHHHHH----hCCCCCCCCCCCCHHHHHHHcCCHHHH
Confidence            345566666666543   232 2233334444 4445677775554443    445555544333556666777877644


Q ss_pred             HHHHHHHHHcCCCCCHH---hHHHHHHHHhccCCHHHHHHHHHHHHhccccccHH---hHHHHHHHHHhccchHHHHHHH
Q 023915           85 YRTMVDMHRKGHQPEEE---LCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKA---LHEKILHILISGKLLKDAYVVV  158 (275)
Q Consensus        85 ~~~~~~m~~~g~~~~~~---~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~---~~~~li~~~~~~~~~~~a~~~~  158 (275)
                          +.+.+.|..++..   -++ .+...+..|+.+-+.-+++.    |..++..   .+...+...+..|+.+-+..++
T Consensus        79 ----~~Ll~~ga~~~~~d~~g~t-~L~~A~~~g~~~~v~~Ll~~----ga~~~~~~~~g~~t~L~~A~~~~~~~~v~~Ll  149 (285)
T 3kea_A           79 ----KILLFSGLDDSQFDDKGNT-ALYYAVDSGNMQTVKLFVKK----NWRLMFYGKTGWKTSFYHAVMLNDVSIVSYFL  149 (285)
T ss_dssp             ----HHHHHTTCCTTCCCTTSCC-HHHHHHHTTCHHHHHHHHHH----CGGGGGCSSSGGGSHHHHHHHTTCHHHHHHHH
T ss_pred             ----HHHHHCCCCCCCcCCCCCc-HHHHHHHcCCHHHHHHHHhc----CCCCCccCCCCCCCHHHHHHHcCCHHHHHHHH
Confidence                4444567655432   223 33444556776655554443    3333221   1134455556677776665555


Q ss_pred             HHhhcCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHH-HHHHHHHhchhHHHHHHHHHHHhhCCCCCC
Q 023915          159 KDNSESISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHI-AIARYIAEREKKELLLKLLEWMTGQGYVVD  237 (275)
Q Consensus       159 ~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~-li~~~~~~~~~~~~a~~l~~~m~~~~~~p~  237 (275)
                      +.-....+...-.+.+...+..|+.+-+..+++.=..... .|..-.+. |..+ + ..++.+    +.+.+.+.|..|+
T Consensus       150 ~~g~~~~~~~~g~t~L~~A~~~g~~~~v~~Ll~~gad~n~-~~~~g~t~~L~~A-~-~~~~~~----~v~~Ll~~gad~~  222 (285)
T 3kea_A          150 SEIPSTFDLAILLSCIHITIKNGHVDMMILLLDYMTSTNT-NNSLLFIPDIKLA-I-DNKDIE----MLQALFKYDINIY  222 (285)
T ss_dssp             TTSCTTCCCSTHHHHHHHHHHTTCHHHHHHHHHHHHHTCT-TCCCBCCTTHHHH-H-HHTCHH----HHHHHTTSCBCST
T ss_pred             hCCCccccccCCccHHHHHHHcChHHHHHHHHHcCCCCCc-ccCCCCChHHHHH-H-HcCCHH----HHHHHHHcCCCCC
Confidence            5432222221334455556677887766666554222111 12222333 3323 3 445544    4455566777776


Q ss_pred             hhh
Q 023915          238 SST  240 (275)
Q Consensus       238 ~~t  240 (275)
                      ...
T Consensus       223 ~~~  225 (285)
T 3kea_A          223 SAN  225 (285)
T ss_dssp             TTT
T ss_pred             CCC
Confidence            654

>3eu9_A Huntingtin-interacting protein 14; epigenetics, ankyrin repeats, methyllyine binding, huntingti interacting protein 14, acyltransferase, ANK repeat; HET: HIS; 1.99A {Homo sapiens}

Probab=83.47  E-value=6.4  Score=28.71  Aligned_cols=15  Identities=20%  Similarity=0.399  Sum_probs=7.3

Q ss_pred             hhhhcCcHHHHHHHH
Q 023915            4 AFCRGGCFEEAKQLA   18 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~   18 (275)
                      ..++.|+++.+..++
T Consensus        15 ~A~~~g~~~~~~~Ll   29 (240)
T 3eu9_A           15 KATQYGIYERCRELV   29 (240)
T ss_dssp             HHHHTTCHHHHHHHH
T ss_pred             HHHHcCChHHHHHHH
Confidence            345555555444443

>1wdy_A 2-5A-dependent ribonuclease; hydrolase, RNA-binding; HET: 25A; 1.80A {Homo sapiens} SCOP: d.211.1.1

Probab=83.34  E-value=7.7  Score=29.15  Aligned_cols=210  Identities=8%  Similarity=-0.016  Sum_probs=102.3

Q ss_pred             HHHHHHHccCCHHHHHHHHHHHhhcCCCCChh---hHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHh--HHHHHHH
Q 023915           35 SMLCAYCRTGDMESVMHVMRKLDELAISPDYN---TFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEEL--CSSLIFH  109 (275)
Q Consensus        35 ~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~---t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~--~~~li~~  109 (275)
                      +.+...++.|+.+.+..++    +.|..++..   .-.+.+...+..|+.+    +++.+.+.|..++...  -.+.+..
T Consensus         7 ~~L~~A~~~g~~~~v~~Ll----~~g~~~~~~~~~~g~t~L~~A~~~g~~~----~v~~Ll~~g~~~~~~~~~g~t~L~~   78 (285)
T 1wdy_A            7 HLLIKAVQNEDVDLVQQLL----EGGANVNFQEEEGGWTPLHNAVQMSRED----IVELLLRHGADPVLRKKNGATPFLL   78 (285)
T ss_dssp             HHHHHHHHTTCHHHHHHHH----HTTCCTTCCCTTTCCCHHHHHHHTTCHH----HHHHHHHTTCCTTCCCTTCCCHHHH
T ss_pred             hHHHHHHHcCCHHHHHHHH----HcCCCcccccCCCCCcHHHHHHHcCCHH----HHHHHHHcCCCCcccCCCCCCHHHH
Confidence            4455567788876555544    445444432   1124555666777765    4555556676655321  1233444


Q ss_pred             HhccCCHHHHHHHHHHHHhccccccHH--hHHHHHHHHHhccchHHHHHHHHHhhcCCCh-----------hHHHHHHHH
Q 023915          110 LGKMRAHSEALSVYNMLRYSKRSMCKA--LHEKILHILISGKLLKDAYVVVKDNSESISH-----------PAIKKFASA  176 (275)
Q Consensus       110 ~~~~g~~~~a~~~~~~m~~~~~~~~~~--~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~-----------~~~~~li~~  176 (275)
                      .+..|+.+-+..++    +.|..++..  .-...+...+..|+.+-+..+++.-......           ..-.+.+..
T Consensus        79 A~~~~~~~~v~~Ll----~~g~~~~~~~~~g~t~L~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~~~~~~~~~g~t~L~~  154 (285)
T 1wdy_A           79 AAIAGSVKLLKLFL----SKGADVNECDFYGFTAFMEAAVYGKVKALKFLYKRGANVNLRRKTKEDQERLRKGGATALMD  154 (285)
T ss_dssp             HHHHTCHHHHHHHH----HTTCCTTCBCTTCCBHHHHHHHTTCHHHHHHHHHTTCCTTCCCCCCHHHHHTTCCCCCHHHH
T ss_pred             HHHcCCHHHHHHHH----HcCCCCCccCcccCCHHHHHHHhCCHHHHHHHHHhCCCcccccccHHHHHhhccCCCcHHHH
Confidence            45567765444443    344333211  1112344455667776666666542221100           001133445


Q ss_pred             HHhcCChhHHHHHHHHHHHcCCCCCh---hhHHHHHHHHHHhchhHHHHHHHHHHHhhCCCCCChhh--HHHHHHHHHHh
Q 023915          177 FVRLGNINLVNDVMKAIHATGYRIDQ---GIFHIAIARYIAEREKKELLLKLLEWMTGQGYVVDSST--RNLILKNSHLF  251 (275)
Q Consensus       177 ~~~~~~~~~a~~~~~~m~~~g~~p~~---~~y~~li~~~~~~~~~~~~a~~l~~~m~~~~~~p~~~t--~~~li~~~~~~  251 (275)
                      .+..|+.+-+..+++.   .|..++.   ...+.+..+.  ..+..+...++++.+.+.|..++...  -.+.+...++.
T Consensus       155 A~~~~~~~~v~~Ll~~---~~~~~~~~~~~g~t~l~~a~--~~~~~~~~~~i~~~Ll~~g~~~~~~~~~g~t~L~~A~~~  229 (285)
T 1wdy_A          155 AAEKGHVEVLKILLDE---MGADVNACDNMGRNALIHAL--LSSDDSDVEAITHLLLDHGADVNVRGERGKTPLILAVEK  229 (285)
T ss_dssp             HHHHTCHHHHHHHHHT---SCCCTTCCCTTSCCHHHHHH--HCSCTTTHHHHHHHHHHTTCCSSCCCTTSCCHHHHHHHT
T ss_pred             HHHcCCHHHHHHHHHh---cCCCCCccCCCCCCHHHHHH--HccccchHHHHHHHHHHcCCCCCCcCCCCCcHHHHHHHc
Confidence            5566776655554332   2544433   3445555553  33544445667777777887765432  12233444455


Q ss_pred             hH-HHHHHHHh
Q 023915          252 GR-QLIADILS  261 (275)
Q Consensus       252 g~-~~~~~~~~  261 (275)
                      |. +....++.
T Consensus       230 ~~~~~v~~Ll~  240 (285)
T 1wdy_A          230 KHLGLVQRLLE  240 (285)
T ss_dssp             TCHHHHHHHHH
T ss_pred             CCHHHHHHHHh
Confidence            64 44444444

>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=83.28  E-value=6.7  Score=24.91  Aligned_cols=49  Identities=18%  Similarity=0.220  Sum_probs=21.9

Q ss_pred             HHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHc
Q 023915           40 YCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRK   94 (275)
Q Consensus        40 ~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~   94 (275)
                      +...|++++|..+.+.+.    .||...|-+|..  .+.|-.+++..-+.++-.+
T Consensus        50 LmNrG~Yq~Al~l~~~~c----~pdlepw~ALce--~rlGl~s~le~rL~~la~s   98 (116)
T 2p58_C           50 LMNRGDYASALQQGNKLA----YPDLEPWLALCE--YRLGLGSALESRLNRLARS   98 (116)
T ss_dssp             HHHTTCHHHHHHHHTTSC----CGGGHHHHHHHH--HHHTCHHHHHHHHHHHTTC
T ss_pred             HHcchhHHHHHHhcCCCC----CchHHHHHHHHH--HhcccHHHHHHHHHHHHhC
Confidence            344455555555544432    355554444432  2344444444444444333

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=82.92  E-value=10  Score=26.64  Aligned_cols=111  Identities=12%  Similarity=0.014  Sum_probs=69.6

Q ss_pred             cCCCCcHH--hHHHHHHHHHccCCHHHHHHHHHHHhhc-CCCCCh-------hhHHHHHHHHHccCCHHHHHHHHHHHHH
Q 023915           24 KYDKYDVV--LLNSMLCAYCRTGDMESVMHVMRKLDEL-AISPDY-------NTFHILIKYFCKEKMYILAYRTMVDMHR   93 (275)
Q Consensus        24 ~g~~p~~~--~~~~li~~~~~~g~~~~a~~~~~~m~~~-g~~p~~-------~t~~~li~~~~~~~~~~~a~~~~~~m~~   93 (275)
                      .|+.|-..  .+-.-+..+...|.++.|.-+.+.+... +..|+.       .++..+.+++...+++..|...|++.++
T Consensus        12 ~~~~~~~~~~~l~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq   91 (167)
T 3ffl_A           12 SGLVPRGSHMNVIDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQ   91 (167)
T ss_dssp             ---------CCHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cCCCCCccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHH
Confidence            35555433  4455677778888888888877775542 233442       2556777788888999999999888542


Q ss_pred             cC------------------------CCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhcccccc
Q 023915           94 KG------------------------HQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMC  134 (275)
Q Consensus        94 ~g------------------------~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~  134 (275)
                      ..                        ...+...--.+-.+|.+.+++++|+.+++.+......|.
T Consensus        92 ~~k~l~k~~s~~~~~~~~ss~p~s~~~~~e~Elkykia~C~~~l~~~~~Ai~~Le~Ip~k~Rt~k  156 (167)
T 3ffl_A           92 QKKALSKTSKVRPSTGNSASTPQSQCLPSEIEVKYKLAECYTVLKQDKDAIAILDGIPSRQRTPK  156 (167)
T ss_dssp             HHHCC--------------------CCCCHHHHHHHHHHHHHHTTCHHHHHHHHHTSCGGGCCHH
T ss_pred             HHHHHhcCCCccccccccCCCcccccccchHHHHHHHHHHHHHHCCHHHHHHHHhcCCchhcCHH
Confidence            11                        011112334477888999999999999988765555543

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=82.42  E-value=11  Score=28.80  Aligned_cols=117  Identities=11%  Similarity=-0.024  Sum_probs=70.8

Q ss_pred             HHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccc--cccHHhHHHHHHHHHhccc
Q 023915           73 KYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKR--SMCKALHEKILHILISGKL  150 (275)
Q Consensus        73 ~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~--~~~~~~~~~li~~~~~~~~  150 (275)
                      ....+.|+++.++.....-.+.. +-|...-..++..+|-.|++++|.+-++...+...  .+....|..+|.+=...  
T Consensus         5 ~~ll~~g~L~~al~~~~~~VR~~-P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l~p~~~~~a~~yr~lI~aE~~R--   81 (273)
T 1zbp_A            5 KNALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRHLVKAAQAR--   81 (273)
T ss_dssp             HHHTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHHH--
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCchhhHHHHHHHHHHHHHHHH--
Confidence            34567788888888887777653 55666777788888999999999888887765433  33333455555431110  


Q ss_pred             hHHHHHHHHHhh--c--CCChhHHHHHHHHHHh--cCChhHHHHHHHHHHHc
Q 023915          151 LKDAYVVVKDNS--E--SISHPAIKKFASAFVR--LGNINLVNDVMKAIHAT  196 (275)
Q Consensus       151 ~~~a~~~~~~~~--~--~~~~~~~~~li~~~~~--~~~~~~a~~~~~~m~~~  196 (275)
                          .++|.--.  .  ...++-...++.+...  .|+.+.|..+-....+.
T Consensus        82 ----~~vfaG~~~P~~~g~~~~w~~~ll~Al~~~~~G~~~~A~~lr~~A~e~  129 (273)
T 1zbp_A           82 ----KDFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  129 (273)
T ss_dssp             ----HHHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             ----HHHHcCCCCCCCCCCCHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHhc
Confidence                01111100  0  1222244566665554  48888888888777553

>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=81.07  E-value=18  Score=28.30  Aligned_cols=70  Identities=11%  Similarity=0.227  Sum_probs=46.0

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhc--hhHHHHHHHHHHHhhCCCCCChhh
Q 023915          169 AIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAER--EKKELLLKLLEWMTGQGYVVDSST  240 (275)
Q Consensus       169 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~--~~~~~a~~l~~~m~~~~~~p~~~t  240 (275)
                      ..+.++.-|...|+.++|.+.++++....+.+ ...+..+..++ .+.  ...+.+.+++..+.+.|+-+....
T Consensus       168 ki~~lL~EY~~~~D~~EA~~ci~EL~~p~f~~-e~V~~ai~~al-E~~~~~~re~~~~LL~~L~~~~~ls~~q~  239 (307)
T 2zu6_B          168 EIDMLLKEYLLSGDISEAEHCLKELEVPHFHH-ELVYEAIIMVL-ESTGESTFKMILDLLKSLWKSSTITVDQM  239 (307)
T ss_dssp             HHHHHHHHHHHHCCHHHHHHHHHHHCCGGGHH-HHHHHHHHHHH-TCCSSHHHHHHHHHHHHHHHHCSSCHHHH
T ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHcCCCcchH-HHHHHHHHHHH-ccCChHHHHHHHHHHHHHHHCCCCCHHHH
Confidence            45678999999999999999998886421111 23445555554 232  235667888888887776554433

---

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	275
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.59
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.59
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.55
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.3
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.22
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.17
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.03
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	98.99
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.95
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.84
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	98.78
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	98.77
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.56
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.55
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.54
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.44
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.43
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.41
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.37
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.31
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.28
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.28
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.26
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.26
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.23
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.21
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.08
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.04
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.02
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	97.93
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.81
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	97.79
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.75
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.72
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.7
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.66
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.61
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.57
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.52
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.5
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.48
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.3
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	97.28
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.19
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.16
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.11
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.03
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	96.92
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	96.91
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	96.8
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	96.72
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	96.38
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	96.11
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	95.79
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	95.49
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	93.46
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	93.38
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	92.7
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	92.65
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	92.21
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	91.4
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	89.01
d2d2sa1	229	Exocyst complex component EXO84 {Baker's yeast (Sa	85.13
d2nsza1	129	Programmed cell death 4, PDCD4 {Mouse (Mus musculu	82.75

>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=99.59  E-value=2.8e-12  Score=102.68  Aligned_cols=248  Identities=12%  Similarity=0.033  Sum_probs=142.7

Q ss_pred             hhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCC-hhhHHHHHHHHHccCCHH
Q 023915            4 AFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYI   82 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~   82 (275)
                      .+-+.|++++|.+.++++.+..+. +...+..+...+.+.|++++|.+.|++..+.  .|+ ..+|..+...+.+.|+++
T Consensus         8 ~~~~~G~~~~A~~~~~~~l~~~p~-~~~~~~~la~~~~~~~~~~~A~~~~~~al~~--~p~~~~a~~~l~~~~~~~g~~~   84 (388)
T d1w3ba_           8 REYQAGDFEAAERHCMQLWRQEPD-NTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQ--NPLLAEAYSNLGNVYKERGQLQ   84 (388)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHhhhhcccc
Confidence            355667777777777777665332 4566677777777777777777777776653  243 345666666666666666


Q ss_pred             HHHHHHHHHHHcCC------------------------------------------------------------------
Q 023915           83 LAYRTMVDMHRKGH------------------------------------------------------------------   96 (275)
Q Consensus        83 ~a~~~~~~m~~~g~------------------------------------------------------------------   96 (275)
                      +|...+....+...                                                                  
T Consensus        85 ~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  164 (388)
T d1w3ba_          85 EAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIET  164 (388)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHH
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccchhhhhHHHHHHhhcc
Confidence            66665555433211                                                                  


Q ss_pred             ----------------------------------CC-CHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHH
Q 023915           97 ----------------------------------QP-EEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKI  141 (275)
Q Consensus        97 ----------------------------------~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l  141 (275)
                                                        .| +..++..+...+...|++++|...++........ ....+..+
T Consensus       165 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l  243 (388)
T d1w3ba_         165 QPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPN-HAVVHGNL  243 (388)
T ss_dssp             CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTT-CHHHHHHH
T ss_pred             CcchhHHHHhhcccccccCcHHHHHHHHHHHHHhCcccHHHHHHHhhhhhccccHHHHHHHHHHhHHHhhh-HHHHHHHH
Confidence                                              11 1223444444455555555555555544433222 22344455


Q ss_pred             HHHHHhccchHHHHHHHHHhhc--CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhchhH
Q 023915          142 LHILISGKLLKDAYVVVKDNSE--SISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKK  219 (275)
Q Consensus       142 i~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~  219 (275)
                      -..+...|++++|...+++..+  ...+..+..+...+...|++++|...++...... +.+...+..+...+. ..|++
T Consensus       244 ~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~-~~~~~  321 (388)
T d1w3ba_         244 ACVYYEQGLIDLAIDTYRRAIELQPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKR-EQGNI  321 (388)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHTCSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH-TTTCH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccC-CccchhhhHHHHHHH-HCCCH
Confidence            5566666666666666666543  2223355666666777777777777776655532 334455555555554 56777


Q ss_pred             HHHHHHHHHHhhCCCCCC-hhhHHHHHHHHHHhhHHHHHHH
Q 023915          220 ELLLKLLEWMTGQGYVVD-SSTRNLILKNSHLFGRQLIADI  259 (275)
Q Consensus       220 ~~a~~l~~~m~~~~~~p~-~~t~~~li~~~~~~g~~~~~~~  259 (275)
                      ++|.+.|++..+.  .|+ ..++..+-..+.+.|+...|..
T Consensus       322 ~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~  360 (388)
T d1w3ba_         322 EEAVRLYRKALEV--FPEFAAAHSNLASVLQQQGKLQEALM  360 (388)
T ss_dssp             HHHHHHHHHHTTS--CTTCHHHHHHHHHHHHTTTCCHHHHH
T ss_pred             HHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            7777777776542  343 4566666677777774444433

>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=99.59  E-value=5.5e-12  Score=100.92  Aligned_cols=87  Identities=15%  Similarity=0.039  Sum_probs=73.2

Q ss_pred             HHHHccCCHHHHHHHHHHHhhcCCCCC-hhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCH
Q 023915           38 CAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAH  116 (275)
Q Consensus        38 ~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~  116 (275)
                      ..+.+.|++++|.+.|+++.+.  .|+ ...+..+...+.+.|++++|...|++..+.. +-+..++..+...|.+.|++
T Consensus         7 ~~~~~~G~~~~A~~~~~~~l~~--~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~l~~~~~~~g~~   83 (388)
T d1w3ba_           7 HREYQAGDFEAAERHCMQLWRQ--EPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQL   83 (388)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHhhhhccc
Confidence            4567889999999999999874  364 5678888899999999999999999998763 33567899999999999999


Q ss_pred             HHHHHHHHHHH
Q 023915          117 SEALSVYNMLR  127 (275)
Q Consensus       117 ~~a~~~~~~m~  127 (275)
                      ++|...+....
T Consensus        84 ~~A~~~~~~~~   94 (388)
T d1w3ba_          84 QEAIEHYRHAL   94 (388)
T ss_dssp             HHHHHHHHHHH
T ss_pred             ccccccccccc
Confidence            99998877654

>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=99.55  E-value=7.8e-12  Score=98.30  Aligned_cols=220  Identities=10%  Similarity=-0.043  Sum_probs=172.2

Q ss_pred             hhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCC-hhhHHHHHHHHHccCCHH
Q 023915            4 AFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYI   82 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~   82 (275)
                      .+.+.|++++|.+.|+...+..+. +..+|..+..++...|++++|...|++..+.  .|+ ...+..+...+...|+++
T Consensus        28 ~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~~~~~  104 (323)
T d1fcha_          28 RRLQEGDLPNAVLLFEAAVQQDPK-HMEAWQYLGTTQAENEQELLAISALRRCLEL--KPDNQTALMALAVSFTNESLQR  104 (323)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHSCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCChHHHHHHHHhhhcc--cccccccccccccccccccccc
Confidence            467899999999999999987544 6789999999999999999999999998873  354 566778889999999999


Q ss_pred             HHHHHHHHHHHcCCCCCHH----------------hHHHHHHHHhccCCHHHHHHHHHHHHhc-cccccHHhHHHHHHHH
Q 023915           83 LAYRTMVDMHRKGHQPEEE----------------LCSSLIFHLGKMRAHSEALSVYNMLRYS-KRSMCKALHEKILHIL  145 (275)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~----------------~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~~~~~~~~~li~~~  145 (275)
                      .|.+.+++.....  |+..                .....+..+...+...+|.+.|...... +...+...+..+-..+
T Consensus       105 ~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~  182 (323)
T d1fcha_         105 QACEILRDWLRYT--PAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLF  182 (323)
T ss_dssp             HHHHHHHHHHHTS--TTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHH
T ss_pred             ccccchhhHHHhc--cchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHHHH
Confidence            9999999987642  2211                1112233344556677888888776543 3344566778888899


Q ss_pred             HhccchHHHHHHHHHhhc--CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCC-hhhHHHHHHHHHHhchhHHHH
Q 023915          146 ISGKLLKDAYVVVKDNSE--SISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRID-QGIFHIAIARYIAEREKKELL  222 (275)
Q Consensus       146 ~~~~~~~~a~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~y~~li~~~~~~~~~~~~a  222 (275)
                      ...|++++|...+++...  ...+..+..+...|...|++++|.+.|+...+.  .|+ ..+|..+-..|. +.|++++|
T Consensus       183 ~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~-~~g~~~~A  259 (323)
T d1fcha_         183 NLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQSEEAVAAYRRALEL--QPGYIRSRYNLGISCI-NLGAHREA  259 (323)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHH-HHTCHHHH
T ss_pred             HHHHHHhhhhcccccccccccccccchhhhhhcccccccchhHHHHHHHHHHH--hhccHHHHHHHHHHHH-HCCCHHHH
Confidence            999999999999998765  334557888999999999999999999998875  354 557777887776 77999999


Q ss_pred             HHHHHHHhh
Q 023915          223 LKLLEWMTG  231 (275)
Q Consensus       223 ~~l~~~m~~  231 (275)
                      .+.|++..+
T Consensus       260 ~~~~~~al~  268 (323)
T d1fcha_         260 VEHFLEALN  268 (323)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999998754

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.30  E-value=1.1e-09  Score=85.74  Aligned_cols=217  Identities=11%  Similarity=0.036  Sum_probs=162.3

Q ss_pred             HHHHHHHccCCHHHHHHHHHHHhhcCCCCC-hhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhcc
Q 023915           35 SMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKM  113 (275)
Q Consensus        35 ~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~  113 (275)
                      ..-..+.+.|++++|+..|++..+.  .|+ ..+|..+...+...|+++.|...|.+..+.. +-+...+..+...|...
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~  100 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQ--DPKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNE  100 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHS--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-ccccccccccccccccc
Confidence            3455678999999999999999874  465 5688899999999999999999999988753 33567888899999999


Q ss_pred             CCHHHHHHHHHHHHhccccccH--------------HhHHHHHHHHHhccchHHHHHHHHHhhc----CCChhHHHHHHH
Q 023915          114 RAHSEALSVYNMLRYSKRSMCK--------------ALHEKILHILISGKLLKDAYVVVKDNSE----SISHPAIKKFAS  175 (275)
Q Consensus       114 g~~~~a~~~~~~m~~~~~~~~~--------------~~~~~li~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~~li~  175 (275)
                      |++++|.+.++...........              ......+..+...+...+|...+.+...    ...+..+..+..
T Consensus       101 ~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~  180 (323)
T d1fcha_         101 SLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGV  180 (323)
T ss_dssp             TCHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHH
T ss_pred             ccccccccchhhHHHhccchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHH
Confidence            9999999999987654221100              0111223344455677788888877544    223346777888


Q ss_pred             HHHhcCChhHHHHHHHHHHHcCCCCC-hhhHHHHHHHHHHhchhHHHHHHHHHHHhhCCCCC-ChhhHHHHHHHHHHhhH
Q 023915          176 AFVRLGNINLVNDVMKAIHATGYRID-QGIFHIAIARYIAEREKKELLLKLLEWMTGQGYVV-DSSTRNLILKNSHLFGR  253 (275)
Q Consensus       176 ~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~~~~p-~~~t~~~li~~~~~~g~  253 (275)
                      .+...|++++|...++......  |+ ...|..+-..|. ..|++++|.+.|++..+.  .| +..++..+-.+|.+.|+
T Consensus       181 ~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~-~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~g~  255 (323)
T d1fcha_         181 LFNLSGEYDKAVDCFTAALSVR--PNDYLLWNKLGATLA-NGNQSEEAVAAYRRALEL--QPGYIRSRYNLGISCINLGA  255 (323)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHhhhhcccccccccc--cccccchhhhhhccc-ccccchhHHHHHHHHHHH--hhccHHHHHHHHHHHHHCCC
Confidence            9999999999999999987753  44 567777777775 779999999999998764  34 46678888889988885


Q ss_pred             HHHHHH
Q 023915          254 QLIADI  259 (275)
Q Consensus       254 ~~~~~~  259 (275)
                      ...|..
T Consensus       256 ~~~A~~  261 (323)
T d1fcha_         256 HREAVE  261 (323)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            444433

>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=99.22  E-value=8.3e-09  Score=80.31  Aligned_cols=220  Identities=6%  Similarity=-0.055  Sum_probs=158.5

Q ss_pred             cHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHc--------------cCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHH
Q 023915           10 CFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCR--------------TGDMESVMHVMRKLDELAISPDYNTFHILIKYF   75 (275)
Q Consensus        10 ~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~--------------~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~   75 (275)
                      ..+++..+|+.....-+. +...|-.-+.-+-+              .+..++|..+|+...+...+-+...|...+...
T Consensus        31 ~~~Rv~~vyerAl~~~~~-~~~lW~~y~~~~~~~~~~~~~~~~~~~~~~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~  109 (308)
T d2onda1          31 ITKRVMFAYEQCLLVLGH-HPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYE  109 (308)
T ss_dssp             HHHHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCchHHHHHHHhhcccchHHHHHHHHHHHHHcCCCCHHHHHHHHHHH
Confidence            356677788887765322 44455444433222              234578888998887654444556778888889


Q ss_pred             HccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHH
Q 023915           76 CKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAY  155 (275)
Q Consensus        76 ~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~  155 (275)
                      .+.|+++.|..+|+.+.+.........|...+..+.+.|+.+.|.++|+....................+...|+.+.|.
T Consensus       110 ~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~~~~~~~~~~~a~~e~~~~~~~~~a~  189 (308)
T d2onda1         110 ESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDARTRHHVYVTAALMEYYCSKDKSVAF  189 (308)
T ss_dssp             HHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTTCCTHHHHHHHHHHHHTSCCHHHHH
T ss_pred             HhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhccCHHHHH
Confidence            99999999999999998654333345789999999999999999999999887655444333333333345578899999


Q ss_pred             HHHHHhhc--CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHc-CCCCC--hhhHHHHHHHHHHhchhHHHHHHHHHHHh
Q 023915          156 VVVKDNSE--SISHPAIKKFASAFVRLGNINLVNDVMKAIHAT-GYRID--QGIFHIAIARYIAEREKKELLLKLLEWMT  230 (275)
Q Consensus       156 ~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-g~~p~--~~~y~~li~~~~~~~~~~~~a~~l~~~m~  230 (275)
                      .+|+....  ..++..+..++..+.+.|+++.|..+|+..... +..|+  ...|...+.-- ...|+.+.+.++++++.
T Consensus       190 ~i~e~~l~~~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE-~~~G~~~~~~~~~~r~~  268 (308)
T d2onda1         190 KIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFE-SNIGDLASILKVEKRRF  268 (308)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHH-HHHSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHH-HHcCCHHHHHHHHHHHH
Confidence            99998776  344557889999999999999999999997775 34443  23677666543 46689999999999875


Q ss_pred             h
Q 023915          231 G  231 (275)
Q Consensus       231 ~  231 (275)
                      +
T Consensus       269 ~  269 (308)
T d2onda1         269 T  269 (308)
T ss_dssp             H
T ss_pred             H
Confidence            4

>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=99.17  E-value=7.9e-09  Score=80.46  Aligned_cols=187  Identities=9%  Similarity=-0.012  Sum_probs=146.4

Q ss_pred             cCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHH
Q 023915            8 GGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRT   87 (275)
Q Consensus         8 ~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~   87 (275)
                      .+..++|..+|+.......+.+...|...+....+.|+++.|..+|+.+.+..-......|...+....+.|+.+.|.++
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            34568899999998875555567788889999999999999999999998743222344789999999999999999999


Q ss_pred             HHHHHHcCCCCCHHhHHHHHH-HHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhcC-C
Q 023915           88 MVDMHRKGHQPEEELCSSLIF-HLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSES-I  165 (275)
Q Consensus        88 ~~~m~~~g~~~~~~~~~~li~-~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-~  165 (275)
                      |+...+.+. .+...|..... -+...|+.+.|..+|+..... .+.+...|...++.+...|+++.|..+|++.... +
T Consensus       157 ~~~al~~~~-~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~-~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~  234 (308)
T d2onda1         157 FKKAREDAR-TRHHVYVTAALMEYYCSKDKSVAFKIFELGLKK-YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGS  234 (308)
T ss_dssp             HHHHHTSTT-CCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSS
T ss_pred             HHHHHHhCC-CcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh-hhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCC
Confidence            999987653 23334433333 234468999999999998865 3334668999999999999999999999996552 2


Q ss_pred             Ch-----hHHHHHHHHHHhcCChhHHHHHHHHHHHc
Q 023915          166 SH-----PAIKKFASAFVRLGNINLVNDVMKAIHAT  196 (275)
Q Consensus       166 ~~-----~~~~~li~~~~~~~~~~~a~~~~~~m~~~  196 (275)
                      .+     ..|...+..-...|+.+.+..+++.+.+.
T Consensus       235 ~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~  270 (308)
T d2onda1         235 LPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             SCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            22     26788888888999999999999988664

>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=99.03  E-value=3.5e-07  Score=71.14  Aligned_cols=222  Identities=9%  Similarity=0.031  Sum_probs=148.4

Q ss_pred             hhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccC-CHHHHHHHHHHHhhcCCCCC-hhhHHHHHHHHHccCCH
Q 023915            4 AFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTG-DMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMY   81 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g-~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~   81 (275)
                      .+.+.+..++|+++++.+.+..+. +...|+..-.++...| ++++|++.++...+.  .|+ ..+|+.+...+.+.|++
T Consensus        52 ~~~~~e~~~~Al~~~~~ai~lnP~-~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~--~p~~~~a~~~~~~~~~~l~~~  128 (315)
T d2h6fa1          52 VLQRDERSERAFKLTRDAIELNAA-NYTVWHFRRVLLKSLQKDLHEEMNYITAIIEE--QPKNYQVWHHRRVLVEWLRDP  128 (315)
T ss_dssp             HHHHTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCC
T ss_pred             HHHhCCchHHHHHHHHHHHHHCCC-ChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHH--HHhhhhHHHHHhHHHHhhccH
Confidence            355778889999999999887555 6677888888877766 489999999888763  354 56788888888889999


Q ss_pred             HHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccc------hHHHH
Q 023915           82 ILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKL------LKDAY  155 (275)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~------~~~a~  155 (275)
                      ++|+..++.+.+.. +-+..+|..+...+.+.|++++|++.++...+..+.-. ..|+.+-..+.+.+.      +++|+
T Consensus       129 ~eAl~~~~kal~~d-p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~n~-~a~~~r~~~l~~~~~~~~~~~~~~ai  206 (315)
T d2h6fa1         129 SQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVRNN-SVWNQRYFVISNTTGYNDRAVLEREV  206 (315)
T ss_dssp             TTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCH-HHHHHHHHHHHHTTCSCSHHHHHHHH
T ss_pred             HHHHHHHhhhhhhh-hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCccH-HHHHHHHHHHHHccccchhhhhHHhH
Confidence            99999999988753 44577888888899999999999999998876544432 345554444444333      56788


Q ss_pred             HHHHHhhc-CCC-hhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCC-ChhhHHHHHHHHHHh--------chhHHHHHH
Q 023915          156 VVVKDNSE-SIS-HPAIKKFASAFVRLGNINLVNDVMKAIHATGYRI-DQGIFHIAIARYIAE--------REKKELLLK  224 (275)
Q Consensus       156 ~~~~~~~~-~~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~y~~li~~~~~~--------~~~~~~a~~  224 (275)
                      +.+.+... .+. ...++-+... ......+++.+.++...+....+ +...+..+...|...        ...+++|.+
T Consensus       207 ~~~~~al~~~P~~~~~~~~l~~l-l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~ka~~  285 (315)
T d2h6fa1         207 QYTLEMIKLVPHNESAWNYLKGI-LQDRGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDNKEDILNKALE  285 (315)
T ss_dssp             HHHHHHHHHSTTCHHHHHHHHHH-HTTTCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTTCSSHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCchHHHHHHHHH-HHhcChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            77777554 333 3344444333 34445677777777766543222 233455555555311        133555666


Q ss_pred             HHHHHhh
Q 023915          225 LLEWMTG  231 (275)
Q Consensus       225 l~~~m~~  231 (275)
                      ++..+..
T Consensus       286 l~~~l~~  292 (315)
T d2h6fa1         286 LCEILAK  292 (315)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            6665543

>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=98.99  E-value=5.8e-07  Score=70.08  Aligned_cols=254  Identities=13%  Similarity=0.005  Sum_probs=167.8

Q ss_pred             hhhhcCcHHHHHHHHHHHHhcCCCCc----HHhHHHHHHHHHccCCHHHHHHHHHHHhhcC----CCC-ChhhHHHHHHH
Q 023915            4 AFCRGGCFEEAKQLAGDFEAKYDKYD----VVLLNSMLCAYCRTGDMESVMHVMRKLDELA----ISP-DYNTFHILIKY   74 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~g~~p~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g----~~p-~~~t~~~li~~   74 (275)
                      .+...|++++|.+++++........+    ...++.+...+...|++++|++.|++..+..    ..+ ...++..+...
T Consensus        21 ~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  100 (366)
T d1hz4a_          21 VAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEI  100 (366)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHH
Confidence            46788999999999999887533211    3467788889999999999999999876531    111 12355667778


Q ss_pred             HHccCCHHHHHHHHHHHHH----cCCCCC---HHhHHHHHHHHhccCCHHHHHHHHHHHHhc----cccccHHhHHHHHH
Q 023915           75 FCKEKMYILAYRTMVDMHR----KGHQPE---EELCSSLIFHLGKMRAHSEALSVYNMLRYS----KRSMCKALHEKILH  143 (275)
Q Consensus        75 ~~~~~~~~~a~~~~~~m~~----~g~~~~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~~~~~~~~~li~  143 (275)
                      +...|++..+...+.....    .+..+.   ...+..+-..+...|+++.+...+......    +.......+.....
T Consensus       101 ~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~  180 (366)
T d1hz4a_         101 LFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQ  180 (366)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHH
Confidence            8899999999998888653    222222   124556667888899999999998877643    22333344555566


Q ss_pred             HHHhccchHHHHHHHHHhhc----CCC-hh----HHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCC---hhhHHHHHHH
Q 023915          144 ILISGKLLKDAYVVVKDNSE----SIS-HP----AIKKFASAFVRLGNINLVNDVMKAIHATGYRID---QGIFHIAIAR  211 (275)
Q Consensus       144 ~~~~~~~~~~a~~~~~~~~~----~~~-~~----~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~---~~~y~~li~~  211 (275)
                      .+...+....+...+.+...    ... ++    .+......+...|+++.|...+..........+   ...+..+...
T Consensus       181 ~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~  260 (366)
T d1hz4a_         181 CSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARA  260 (366)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHH
T ss_pred             HHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHHH
Confidence            67777888877777765432    111 22    344556677788888888888876554322211   2234445566


Q ss_pred             HHHhchhHHHHHHHHHHHhh----CCCCCC-hhhHHHHHHHHHHhhHHHHHH
Q 023915          212 YIAEREKKELLLKLLEWMTG----QGYVVD-SSTRNLILKNSHLFGRQLIAD  258 (275)
Q Consensus       212 ~~~~~~~~~~a~~l~~~m~~----~~~~p~-~~t~~~li~~~~~~g~~~~~~  258 (275)
                      +. ..|++++|...+++...    .+..|+ ..++..+-..+.+.|+...|.
T Consensus       261 ~~-~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  311 (366)
T d1hz4a_         261 QI-LLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQ  311 (366)
T ss_dssp             HH-HTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HH-HcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHH
Confidence            65 66888888888887653    344444 356666667777777444443

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=98.95  E-value=4.4e-08  Score=73.78  Aligned_cols=237  Identities=10%  Similarity=-0.087  Sum_probs=149.4

Q ss_pred             hhhcCcHHHHHHHHHHHHhcCC-CC--cHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCC-hhhHHHHHHHHHccCC
Q 023915            5 FCRGGCFEEAKQLAGDFEAKYD-KY--DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKM   80 (275)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~g~-~p--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~   80 (275)
                      +....+.+.++.-+++...... .+  ...+|..+-.+|.+.|++++|++.|++..+  +.|+ ..+|+.+..++.+.|+
T Consensus         9 ~~~~~~~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~--l~p~~~~a~~~lg~~~~~~g~   86 (259)
T d1xnfa_           9 LQPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALA--IRPDMPEVFNYLGIYLTQAGN   86 (259)
T ss_dssp             CCCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHTTC
T ss_pred             ccccHHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhc--cCCCCHHHHhhhchHHHHHHH
Confidence            3445677788888888876432 22  335788888999999999999999999987  4454 5678899999999999


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHH
Q 023915           81 YILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKD  160 (275)
Q Consensus        81 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  160 (275)
                      ++.|...|++..+.. +-+..++..+..+|...|++++|.+.|+...+..+.. ......+...+...+..+.+..+...
T Consensus        87 ~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~-~~~~~~~~~~~~~~~~~~~~~~~~~~  164 (259)
T d1xnfa_          87 FDAAYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDDPND-PFRSLWLYLAEQKLDEKQAKEVLKQH  164 (259)
T ss_dssp             HHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC-HHHHHHHHHHHHHHCHHHHHHHHHHH
T ss_pred             HHHhhhhhhHHHHHH-hhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhcccc-HHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence            999999999999864 2345688889999999999999999999887654322 22222333344455555555554444


Q ss_pred             hhcCCChhHHHHHHHHHHhcCC----hhHHHHHHHHHHHcCCCCCh-hhHHHHHHHHHHhchhHHHHHHHHHHHhhCCCC
Q 023915          161 NSESISHPAIKKFASAFVRLGN----INLVNDVMKAIHATGYRIDQ-GIFHIAIARYIAEREKKELLLKLLEWMTGQGYV  235 (275)
Q Consensus       161 ~~~~~~~~~~~~li~~~~~~~~----~~~a~~~~~~m~~~g~~p~~-~~y~~li~~~~~~~~~~~~a~~l~~~m~~~~~~  235 (275)
                      .......+.-..++..+.....    .+.+...+.....  ..|+. .+|..+-..|. ..|++++|.+.|+.....  .
T Consensus       165 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~lg~~~~-~~g~~~~A~~~~~~al~~--~  239 (259)
T d1xnfa_         165 FEKSDKEQWGWNIVEFYLGNISEQTLMERLKADATDNTS--LAEHLSETNFYLGKYYL-SLGDLDSATALFKLAVAN--N  239 (259)
T ss_dssp             HHHSCCCSTHHHHHHHHTTSSCHHHHHHHHHHHCCSHHH--HHHHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHTT--C
T ss_pred             hhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHhhh--cCcccHHHHHHHHHHHH-HCCCHHHHHHHHHHHHHc--C
Confidence            4432222211222232222211    2222222211111  12222 35555666665 679999999999998764  4


Q ss_pred             CCh-hhHHHHHHHHHH
Q 023915          236 VDS-STRNLILKNSHL  250 (275)
Q Consensus       236 p~~-~t~~~li~~~~~  250 (275)
                      |+. .-|..-...+.+
T Consensus       240 p~~~~~~~~a~~~L~~  255 (259)
T d1xnfa_         240 VHNFVEHRYALLELSL  255 (259)
T ss_dssp             CTTCHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHH
Confidence            543 333333333433

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=98.84  E-value=2.3e-06  Score=64.02  Aligned_cols=191  Identities=10%  Similarity=0.039  Sum_probs=124.6

Q ss_pred             hhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCC-hhhHHHHHHHHHccCCHH
Q 023915            4 AFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYI   82 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~   82 (275)
                      .|.+.|++++|.+.|+......+. ++.+|+.+-.++.+.|++++|++.|++..+  +.|+ ..++..+...+...|+++
T Consensus        46 ~y~~~g~~~~A~~~~~~al~l~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~--~~p~~~~a~~~lg~~~~~~g~~~  122 (259)
T d1xnfa_          46 LYDSLGLRALARNDFSQALAIRPD-MPEVFNYLGIYLTQAGNFDAAYEAFDSVLE--LDPTYNYAHLNRGIALYYGGRDK  122 (259)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCTHHHHHHHHHHHHTTCHH
T ss_pred             HHHHCCCHHHHHHHHHHhhccCCC-CHHHHhhhchHHHHHHHHHHhhhhhhHHHH--HHhhhhhhHHHHHHHHHHHhhHH
Confidence            567889999999999999887554 778899999999999999999999999887  3454 446778888899999999


Q ss_pred             HHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccc----hHHHHHHH
Q 023915           83 LAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKL----LKDAYVVV  158 (275)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~----~~~a~~~~  158 (275)
                      .|...|+...+.. +.+......+..++.+.+..+.+..+..........+..  + .++..+.....    .+.+...+
T Consensus       123 ~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~-~~~~~~~~~~~~~~~~~~~~~~~  198 (259)
T d1xnfa_         123 LAQDDLLAFYQDD-PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSDKEQWG--W-NIVEFYLGNISEQTLMERLKADA  198 (259)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSCCCSTH--H-HHHHHHTTSSCHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHhhc-cccHHHHHHHHHHHHHhhhHHHHHHHHHHhhccchhhhh--h-hHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999988764 234444444445555566655555555554443322221  1 12222222212    12222221


Q ss_pred             HHhhc--CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChh
Q 023915          159 KDNSE--SISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQG  203 (275)
Q Consensus       159 ~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~  203 (275)
                      .....  ......+..+-..|...|++++|...|+.....  .|+..
T Consensus       199 ~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~  243 (259)
T d1xnfa_         199 TDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVAN--NVHNF  243 (259)
T ss_dssp             CSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CCTTC
T ss_pred             HHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc--CCCCH
Confidence            11111  111124556778889999999999999987764  46543

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.78  E-value=2.4e-06  Score=66.27  Aligned_cols=214  Identities=7%  Similarity=-0.027  Sum_probs=156.0

Q ss_pred             HHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChh-hHHHHHHHHHccC-CHHHHHHHHHHHHHcCCCCCHHhHHHHH
Q 023915           30 VVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYN-TFHILIKYFCKEK-MYILAYRTMVDMHRKGHQPEEELCSSLI  107 (275)
Q Consensus        30 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~-t~~~li~~~~~~~-~~~~a~~~~~~m~~~g~~~~~~~~~~li  107 (275)
                      ...|+.+-..+.+.+.+++|++++++..+  +.|+.. .|+.....+...| ++++|+..++...+.. +-+..+|..+-
T Consensus        43 ~~a~~~~~~~~~~~e~~~~Al~~~~~ai~--lnP~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~  119 (315)
T d2h6fa1          43 RDVYDYFRAVLQRDERSERAFKLTRDAIE--LNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRR  119 (315)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHH--HCCCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHh
Confidence            34677777788889999999999999998  557765 5677777777776 5899999999998763 34567999999


Q ss_pred             HHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhcC--CChhHHHHHHHHHHhcCC---
Q 023915          108 FHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSES--ISHPAIKKFASAFVRLGN---  182 (275)
Q Consensus       108 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~li~~~~~~~~---  182 (275)
                      ..+.+.|++++|++.++.+....+. +...|..+...+...|++++|++.+++..+.  .+...|+.+...+.+.+.   
T Consensus       120 ~~~~~l~~~~eAl~~~~kal~~dp~-n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~n~~a~~~r~~~l~~~~~~~~  198 (315)
T d2h6fa1         120 VLVEWLRDPSQELEFIADILNQDAK-NYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVRNNSVWNQRYFVISNTTGYND  198 (315)
T ss_dssp             HHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCSCS
T ss_pred             HHHHhhccHHHHHHHHhhhhhhhhc-chHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCccHHHHHHHHHHHHHccccch
Confidence            9999999999999999998865433 3557888999999999999999999998762  334467666666666554   


Q ss_pred             ---hhHHHHHHHHHHHcCCCC-ChhhHHHHHHHHHHhchhHHHHHHHHHHHhhCCC-CCChhhHHHHHHHHHHh
Q 023915          183 ---INLVNDVMKAIHATGYRI-DQGIFHIAIARYIAEREKKELLLKLLEWMTGQGY-VVDSSTRNLILKNSHLF  251 (275)
Q Consensus       183 ---~~~a~~~~~~m~~~g~~p-~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~~~-~p~~~t~~~li~~~~~~  251 (275)
                         +++|...+....+..  | +...|+.+... +...+ .+++.+.++...+..- ..+...+..+...|...
T Consensus       199 ~~~~~~ai~~~~~al~~~--P~~~~~~~~l~~l-l~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~~~  268 (315)
T d2h6fa1         199 RAVLEREVQYTLEMIKLV--PHNESAWNYLKGI-LQDRG-LSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDM  268 (315)
T ss_dssp             HHHHHHHHHHHHHHHHHS--TTCHHHHHHHHHH-HTTTC-GGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHH
T ss_pred             hhhhHHhHHHHHHHHHhC--CCchHHHHHHHHH-HHhcC-hHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHHHH
Confidence               567888887776653  5 45566655544 33433 4556666666654322 22455666666666443

>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=98.77  E-value=2.6e-06  Score=66.28  Aligned_cols=228  Identities=12%  Similarity=-0.045  Sum_probs=160.7

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhcC----CCC-cHHhHHHHHHHHHccCCHHHHHHHHHHHhhc----CCC--CC-hhhHHH
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAKY----DKY-DVVLLNSMLCAYCRTGDMESVMHVMRKLDEL----AIS--PD-YNTFHI   70 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~g----~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~--p~-~~t~~~   70 (275)
                      ..+...|++++|...|++.....    ..+ ...++..+...+...|++..+...+.+....    +..  +. ...+..
T Consensus        59 ~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~  138 (366)
T d1hz4a_          59 EVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRI  138 (366)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHH
Confidence            35678899999999999887532    111 2345677778889999999999998876542    111  11 234556


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHHcCC----CCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhc----ccc--ccHHhHHH
Q 023915           71 LIKYFCKEKMYILAYRTMVDMHRKGH----QPEEELCSSLIFHLGKMRAHSEALSVYNMLRYS----KRS--MCKALHEK  140 (275)
Q Consensus        71 li~~~~~~~~~~~a~~~~~~m~~~g~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~--~~~~~~~~  140 (275)
                      +...+...|+++.+...+.......-    .....++......+...++...+...+......    +..  .....+..
T Consensus       139 la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~  218 (366)
T d1hz4a_         139 RAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKV  218 (366)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHH
T ss_pred             HHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHH
Confidence            67788899999999999999876432    223345666677788889999998888765532    111  12234556


Q ss_pred             HHHHHHhccchHHHHHHHHHhhcCCC--hh----HHHHHHHHHHhcCChhHHHHHHHHHHH----cCCCCCh-hhHHHHH
Q 023915          141 ILHILISGKLLKDAYVVVKDNSESIS--HP----AIKKFASAFVRLGNINLVNDVMKAIHA----TGYRIDQ-GIFHIAI  209 (275)
Q Consensus       141 li~~~~~~~~~~~a~~~~~~~~~~~~--~~----~~~~li~~~~~~~~~~~a~~~~~~m~~----~g~~p~~-~~y~~li  209 (275)
                      ....+...|+.+.|...+........  ++    .+..+...+...|++++|...++....    .+..|+. .++..+-
T Consensus       219 ~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la  298 (366)
T d1hz4a_         219 RVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLN  298 (366)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHH
Confidence            66778889999999999998655211  11    445678899999999999999988654    2555544 3566666


Q ss_pred             HHHHHhchhHHHHHHHHHHHhh
Q 023915          210 ARYIAEREKKELLLKLLEWMTG  231 (275)
Q Consensus       210 ~~~~~~~~~~~~a~~l~~~m~~  231 (275)
                      ..|. ..|++++|.+.+++..+
T Consensus       299 ~~~~-~~g~~~~A~~~l~~Al~  319 (366)
T d1hz4a_         299 QLYW-QAGRKSDAQRVLLDALK  319 (366)
T ss_dssp             HHHH-HHTCHHHHHHHHHHHHH
T ss_pred             HHHH-HCCCHHHHHHHHHHHHH
Confidence            6665 77999999999987643

>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=98.56  E-value=3.8e-06  Score=64.22  Aligned_cols=198  Identities=11%  Similarity=0.009  Sum_probs=131.8

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHhhc----CCCCC-hhhHHHHHHHHHccCCHHHHHHHHHHHHHc----CCC-CCHH
Q 023915           32 LLNSMLCAYCRTGDMESVMHVMRKLDEL----AISPD-YNTFHILIKYFCKEKMYILAYRTMVDMHRK----GHQ-PEEE  101 (275)
Q Consensus        32 ~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p~-~~t~~~li~~~~~~~~~~~a~~~~~~m~~~----g~~-~~~~  101 (275)
                      .|......|...+++++|.+.|.+..+.    +-.|+ ..+|..+...|.+.|+++.|...++...+.    |.. ....
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            4666677888899999999999887652    22222 357888889999999999999999886542    211 1134


Q ss_pred             hHHHHHHHHh-ccCCHHHHHHHHHHHHhc----cccc-cHHhHHHHHHHHHhccchHHHHHHHHHhhcCC-Chh------
Q 023915          102 LCSSLIFHLG-KMRAHSEALSVYNMLRYS----KRSM-CKALHEKILHILISGKLLKDAYVVVKDNSESI-SHP------  168 (275)
Q Consensus       102 ~~~~li~~~~-~~g~~~~a~~~~~~m~~~----~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~-~~~------  168 (275)
                      ++..+...|- ..|++++|.+.++.....    +.++ ...++..+...+...|++++|...+++..... ..+      
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            5566666664 469999999999876532    2222 24467778889999999999999998865421 111      


Q ss_pred             --HHHHHHHHHHhcCChhHHHHHHHHHHHcCCC-CC---hhhHHHHHHHHHHh--chhHHHHHHHHHHHh
Q 023915          169 --AIKKFASAFVRLGNINLVNDVMKAIHATGYR-ID---QGIFHIAIARYIAE--REKKELLLKLLEWMT  230 (275)
Q Consensus       169 --~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~-p~---~~~y~~li~~~~~~--~~~~~~a~~l~~~m~  230 (275)
                        .+...+..+...|+++.|...++...+.... ++   ......++.++- .  .+.+++|..-|+++.
T Consensus       199 ~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~-~~d~e~~~eai~~y~~~~  267 (290)
T d1qqea_         199 KDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVN-EGDSEQLSEHCKEFDNFM  267 (290)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHH-TTCTTTHHHHHHHHTTSS
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHH-hcCHHHHHHHHHHHHHHh
Confidence              2334455667789999999998887664211 11   224566666653 3  245777877776554

>d1hh8a_ a.118.8.1 (A:) Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Neutrophil cytosolic factor 2 (NCF-2, p67-phox)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.55  E-value=4.3e-06  Score=59.84  Aligned_cols=119  Identities=7%  Similarity=-0.071  Sum_probs=63.3

Q ss_pred             HHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHH
Q 023915           40 YCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEA  119 (275)
Q Consensus        40 ~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a  119 (275)
                      +...|+++.|++.|++.    ..|+..+|..+-..|.+.|+++.|+..|++.++.. +-+...|..+-.+|.+.|++++|
T Consensus        15 ~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~~~~~g~~~~A   89 (192)
T d1hh8a_          15 AADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKYDLA   89 (192)
T ss_dssp             HHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh-hhhhhhHHHHHHHHHhhccHHHH
Confidence            34556666666666543    22455555556666666666666666666665543 22344555566666666666666


Q ss_pred             HHHHHHHHhcc------------c--cc-cHHhHHHHHHHHHhccchHHHHHHHHHhhc
Q 023915          120 LSVYNMLRYSK------------R--SM-CKALHEKILHILISGKLLKDAYVVVKDNSE  163 (275)
Q Consensus       120 ~~~~~~m~~~~------------~--~~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  163 (275)
                      .+.|+......            .  .+ ...++..+-.++...|++++|.+.+.....
T Consensus        90 ~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~  148 (192)
T d1hh8a_          90 IKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATS  148 (192)
T ss_dssp             HHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            66655543210            0  00 112333444456666666666666665443

>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=98.54  E-value=6.5e-06  Score=62.91  Aligned_cols=192  Identities=8%  Similarity=-0.097  Sum_probs=131.2

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhc----CCCC-cHHhHHHHHHHHHccCCHHHHHHHHHHHhhc----C-CCCChhhHHHHH
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAK----YDKY-DVVLLNSMLCAYCRTGDMESVMHVMRKLDEL----A-ISPDYNTFHILI   72 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~----g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g-~~p~~~t~~~li   72 (275)
                      +.|-..|++++|.+.|....+.    +-.+ -..+|+.+..+|.+.|++++|.+.++...+.    | ......++..+.
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            3567788999999999887653    2222 2358999999999999999999999876542    1 112234566676


Q ss_pred             HHHH-ccCCHHHHHHHHHHHHH----cCCCCC-HHhHHHHHHHHhccCCHHHHHHHHHHHHhccccc-----c-HHhHHH
Q 023915           73 KYFC-KEKMYILAYRTMVDMHR----KGHQPE-EELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSM-----C-KALHEK  140 (275)
Q Consensus        73 ~~~~-~~~~~~~a~~~~~~m~~----~g~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~-----~-~~~~~~  140 (275)
                      ..|. ..|+++.|...+++..+    .+..+. ..++..+...+.+.|++++|.+.|+.........     . ...+..
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            6674 46999999999998764    222222 3467888999999999999999999987642221     1 123344


Q ss_pred             HHHHHHhccchHHHHHHHHHhhcCCC--h-----hHHHHHHHHHHhc--CChhHHHHHHHHHH
Q 023915          141 ILHILISGKLLKDAYVVVKDNSESIS--H-----PAIKKFASAFVRL--GNINLVNDVMKAIH  194 (275)
Q Consensus       141 li~~~~~~~~~~~a~~~~~~~~~~~~--~-----~~~~~li~~~~~~--~~~~~a~~~~~~m~  194 (275)
                      ....+...++++.|...+++..+...  +     .....++.++...  +.+++|..-|+.+.
T Consensus       205 ~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~~  267 (290)
T d1qqea_         205 KGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFM  267 (290)
T ss_dssp             HHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSS
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh
Confidence            55566788999999999999766321  1     1334566665553  34667777665443

>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=98.44  E-value=4.2e-06  Score=57.86  Aligned_cols=89  Identities=11%  Similarity=0.023  Sum_probs=49.5

Q ss_pred             HHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHH
Q 023915           39 AYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSE  118 (275)
Q Consensus        39 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~  118 (275)
                      .|.+.|++++|+..|.+..+.. +-+...|..+...|.+.|+++.|...|+..++.. +-+..+|..+..+|...|++++
T Consensus        19 ~~~~~~~y~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~~g~~~e   96 (159)
T d1a17a_          19 DYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKFRA   96 (159)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCCHHHHHHHhhhccccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHHcCCHHH
Confidence            4455666666666666655532 1223345555556666666666666666665542 2233456666666666666666


Q ss_pred             HHHHHHHHHhc
Q 023915          119 ALSVYNMLRYS  129 (275)
Q Consensus       119 a~~~~~~m~~~  129 (275)
                      |...++.....
T Consensus        97 A~~~~~~a~~~  107 (159)
T d1a17a_          97 ALRDYETVVKV  107 (159)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHc
Confidence            66666655543

>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=98.43  E-value=5.7e-07  Score=70.34  Aligned_cols=231  Identities=3%  Similarity=-0.153  Sum_probs=154.8

Q ss_pred             hhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccC--CHHHHHHHHHHHhhcCCCCChhhHH-HHHHHHHccCCH
Q 023915            5 FCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTG--DMESVMHVMRKLDELAISPDYNTFH-ILIKYFCKEKMY   81 (275)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g--~~~~a~~~~~~m~~~g~~p~~~t~~-~li~~~~~~~~~   81 (275)
                      +...|++++|+.+++...+..++ +...|..+..++...+  ++++|+..+....+.. +++...+. .....+...+.+
T Consensus        83 ~~~~~~~~~al~~~~~~l~~~pk-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~  160 (334)
T d1dcea1          83 EESAALVKAELGFLESCLRVNPK-SYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAP  160 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCH
T ss_pred             HHHHHHHHHHHHHHHHHHHhCCC-cHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhcccc
Confidence            34566789999999999887544 7777877777776665  4889999999988742 23345544 344677778999


Q ss_pred             HHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHh
Q 023915           82 ILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDN  161 (275)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  161 (275)
                      +.|+..++...+.. +-+...|..+-..+.+.|++++|...+.......  |.   .......+...+..+++...+...
T Consensus       161 ~~Al~~~~~~i~~~-p~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~---~~~~~~~~~~l~~~~~a~~~~~~~  234 (334)
T d1dcea1         161 AEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVL--LK---ELELVQNAFFTDPNDQSAWFYHRW  234 (334)
T ss_dssp             HHHHHHHHTTTTTT-CCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHHH--HH---HHHHHHHHHHHCSSCSHHHHHHHH
T ss_pred             HHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhH--HH---HHHHHHHHHHhcchhHHHHHHHHH
Confidence            99999999887654 3456788888889999998887765554322211  11   112333445566666777666664


Q ss_pred             hc-CC-ChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCC-ChhhHHHHHHHHHHhchhHHHHHHHHHHHhhCCCCCCh
Q 023915          162 SE-SI-SHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRI-DQGIFHIAIARYIAEREKKELLLKLLEWMTGQGYVVDS  238 (275)
Q Consensus       162 ~~-~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~~~~p~~  238 (275)
                      .. .+ ....+..+...+...++.++|...+.+.....  | +..++..+...| ...|+.++|.+.+++..+  +.|+.
T Consensus       235 l~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--p~~~~~~~~l~~~~-~~~~~~~eA~~~~~~ai~--ldP~~  309 (334)
T d1dcea1         235 LLGRAEPLFRCELSVEKSTVLQSELESCKELQELEPEN--KWCLLTIILLMRAL-DPLLYEKETLQYFSTLKA--VDPMR  309 (334)
T ss_dssp             HHSCCCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTC--HHHHHHHHHHHHHH-CTGGGHHHHHHHHHHHHH--HCGGG
T ss_pred             HHhCcchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhC--chHHHHHHHHHHHH-HHCCCHHHHHHHHHHHHH--HCccc
Confidence            43 22 22245566677778888999988887766543  4 334566666666 478999999999998876  35653


Q ss_pred             -hhHHHHHHHH
Q 023915          239 -STRNLILKNS  248 (275)
Q Consensus       239 -~t~~~li~~~  248 (275)
                       .-|+.|-..+
T Consensus       310 ~~y~~~L~~~~  320 (334)
T d1dcea1         310 AAYLDDLRSKF  320 (334)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence             3444443333

>d1hh8a_ a.118.8.1 (A:) Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Neutrophil cytosolic factor 2 (NCF-2, p67-phox)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.41  E-value=2.1e-05  Score=56.09  Aligned_cols=122  Identities=10%  Similarity=0.054  Sum_probs=71.0

Q ss_pred             hhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCC-hhhHHHHHHHHHccCCHHH
Q 023915            5 FCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYIL   83 (275)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~~   83 (275)
                      +...|+++.|++.|..+    ..|+..+|..+-.++...|++++|++.|++..+.  .|+ ...|..+-.++.+.|+++.
T Consensus        15 ~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~l--dp~~~~a~~~~g~~~~~~g~~~~   88 (192)
T d1hh8a_          15 AADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINR--DKHLAVAYFQRGMLYYQTEKYDL   88 (192)
T ss_dssp             HHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHH--hhhhhhhHHHHHHHHHhhccHHH
Confidence            44566677776666543    2345566666666667777777777777666653  233 3456666666666777777


Q ss_pred             HHHHHHHHHHcCCCCC---------------HHhHHHHHHHHhccCCHHHHHHHHHHHHhcccc
Q 023915           84 AYRTMVDMHRKGHQPE---------------EELCSSLIFHLGKMRAHSEALSVYNMLRYSKRS  132 (275)
Q Consensus        84 a~~~~~~m~~~g~~~~---------------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~  132 (275)
                      |+..|++.....-.-.               ..++..+-.++.+.|++++|.+.+.........
T Consensus        89 A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~  152 (192)
T d1hh8a_          89 AIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSE  152 (192)
T ss_dssp             HHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCS
T ss_pred             HHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC
Confidence            7766666654321000               123444555666667777776666665544333

>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=98.37  E-value=1e-05  Score=52.75  Aligned_cols=88  Identities=13%  Similarity=0.033  Sum_probs=43.7

Q ss_pred             HHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHH
Q 023915           39 AYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSE  118 (275)
Q Consensus        39 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~  118 (275)
                      .+.+.|++++|+..|++..+.. +-+...|..+-.++.+.|+++.|+..+....+.. +.+...|..+..++...|++++
T Consensus        12 ~~~~~g~~~eAi~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~~~~   89 (117)
T d1elwa_          12 KALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNRFEE   89 (117)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHhcC-CcchhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccCHHH
Confidence            3444555555555555554421 1223334555555555555555555555555442 3344455555555555555555


Q ss_pred             HHHHHHHHHh
Q 023915          119 ALSVYNMLRY  128 (275)
Q Consensus       119 a~~~~~~m~~  128 (275)
                      |+..|+....
T Consensus        90 A~~~~~~a~~   99 (117)
T d1elwa_          90 AKRTYEEGLK   99 (117)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHHHH
Confidence            5555555443

>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=98.31  E-value=4.6e-06  Score=59.77  Aligned_cols=98  Identities=7%  Similarity=-0.186  Sum_probs=75.1

Q ss_pred             CcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCC-HHhHHHH
Q 023915           28 YDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPE-EELCSSL  106 (275)
Q Consensus        28 p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~-~~~~~~l  106 (275)
                      |++..+-..-..+.+.|++++|+..|++..+.. +-+...|..+..+|.+.|+++.|+..|+...+.  .|+ ..+|..+
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l--~p~~~~a~~~l   78 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALEL--DGQSVKAHFFL   78 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--CTTCHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHh--CCCcHHHHHHH
Confidence            566667777788888888888888888877642 234556778888888888888888888887753  453 5678888


Q ss_pred             HHHHhccCCHHHHHHHHHHHHh
Q 023915          107 IFHLGKMRAHSEALSVYNMLRY  128 (275)
Q Consensus       107 i~~~~~~g~~~~a~~~~~~m~~  128 (275)
                      ..+|.+.|++++|+..|+....
T Consensus        79 g~~~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          79 GQCQLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHH
Confidence            8888888888888888887654

>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=98.28  E-value=9.7e-06  Score=57.98  Aligned_cols=85  Identities=14%  Similarity=0.083  Sum_probs=46.1

Q ss_pred             hhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCC-hhhHHHHHHHHHccCCHHH
Q 023915            5 FCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYIL   83 (275)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~~   83 (275)
                      |.+.|++++|+..|+......+. +...|+.+-.+|.+.|++++|+..|+...+  +.|+ ..+|..+..+|.+.|+++.
T Consensus        14 ~~~~g~~~~Ai~~~~kal~~~p~-~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~--l~p~~~~a~~~lg~~~~~l~~~~~   90 (201)
T d2c2la1          14 LFVGRKYPEAAACYGRAITRNPL-VAVYYTNRALCYLKMQQPEQALADCRRALE--LDGQSVKAHFFLGQCQLEMESYDE   90 (201)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHTT--SCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCC-CHHHHHhHHHHHhhhhhhhhhhHHHHHHHH--hCCCcHHHHHHHHHHHHHCCCHHH
Confidence            44555555555555555554332 445555555555555555555555555544  3343 3345555555555555555


Q ss_pred             HHHHHHHHH
Q 023915           84 AYRTMVDMH   92 (275)
Q Consensus        84 a~~~~~~m~   92 (275)
                      |+..|++..
T Consensus        91 A~~~~~~al   99 (201)
T d2c2la1          91 AIANLQRAY   99 (201)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            555555544

>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=98.28  E-value=4.3e-06  Score=54.15  Aligned_cols=89  Identities=8%  Similarity=0.016  Sum_probs=70.8

Q ss_pred             HHHHHHHccCCHHHHHHHHHHHhhcCCCCC-hhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhcc
Q 023915           35 SMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKM  113 (275)
Q Consensus        35 ~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~  113 (275)
                      .+-..+.+.|++++|+..|++..+.  .|+ ...|..+...+.+.|+++.|+..|++..+.. +-+..++..+...|...
T Consensus        21 ~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~~   97 (112)
T d1hxia_          21 EEGLSMLKLANLAEAALAFEAVCQK--EPEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNE   97 (112)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHhhhccc--ccccchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHHC
Confidence            3455677889999999999888873  364 6678888888889999999999998888753 34567888888888999


Q ss_pred             CCHHHHHHHHHHH
Q 023915          114 RAHSEALSVYNML  126 (275)
Q Consensus       114 g~~~~a~~~~~~m  126 (275)
                      |+.++|.+.+++.
T Consensus        98 g~~~~A~~~l~~~  110 (112)
T d1hxia_          98 HNANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHH
Confidence            9999998888865

>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=98.26  E-value=4.5e-05  Score=52.45  Aligned_cols=88  Identities=13%  Similarity=0.079  Sum_probs=58.0

Q ss_pred             hhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCh-hhHHHHHHHHHccCCHH
Q 023915            4 AFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDY-NTFHILIKYFCKEKMYI   82 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-~t~~~li~~~~~~~~~~   82 (275)
                      .|.+.|++++|...|+...+..+. +...|..+-.+|...|++++|++.|+...+.  .|+. ..|..+..++...|+++
T Consensus        19 ~~~~~~~y~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~--~p~~~~a~~~~g~~~~~~g~~~   95 (159)
T d1a17a_          19 DYFKAKDYENAIKFYSQAIELNPS-NAIYYGNRSLAYLRTECYGYALGDATRAIEL--DKKYIKGYYRRAASNMALGKFR   95 (159)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHcCCHHHHHHHhhhccccchh-hhhhhhhhHHHHHhccccchHHHHHHHHHHH--cccchHHHHHHHHHHHHcCCHH
Confidence            355667777777777777665443 5566667777777777777777777776653  2433 46666667777777777


Q ss_pred             HHHHHHHHHHHc
Q 023915           83 LAYRTMVDMHRK   94 (275)
Q Consensus        83 ~a~~~~~~m~~~   94 (275)
                      .|...+++....
T Consensus        96 eA~~~~~~a~~~  107 (159)
T d1a17a_          96 AALRDYETVVKV  107 (159)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHc
Confidence            777777776654

>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=98.26  E-value=1.3e-05  Score=62.28  Aligned_cols=240  Identities=8%  Similarity=-0.101  Sum_probs=136.8

Q ss_pred             HHHHHHHHHHHHhcCCCCcHHhHHHHH---HHHH-------ccCCHHHHHHHHHHHhhcCCCCC-hhhHHHHHHHHHccC
Q 023915           11 FEEAKQLAGDFEAKYDKYDVVLLNSML---CAYC-------RTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEK   79 (275)
Q Consensus        11 ~~~a~~~~~~m~~~g~~p~~~~~~~li---~~~~-------~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~li~~~~~~~   79 (275)
                      .++|+++++......+. +...|+..-   ..+.       ..|.+++|+.+++...+.  .|+ ...|..+..++...+
T Consensus        45 ~~~al~~~~~~l~~~P~-~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~--~pk~~~~~~~~~~~~~~~~  121 (334)
T d1dcea1          45 DESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRV--NPKSYGTWHHRCWLLSRLP  121 (334)
T ss_dssp             SHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTCS
T ss_pred             cHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHh--CCCcHHHHHHhhHHHHHhc
Confidence            36777777777765332 233343222   2222       233466777777777653  243 334555555555544


Q ss_pred             --CHHHHHHHHHHHHHcCCCCCHHhHHH-HHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHH
Q 023915           80 --MYILAYRTMVDMHRKGHQPEEELCSS-LIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYV  156 (275)
Q Consensus        80 --~~~~a~~~~~~m~~~g~~~~~~~~~~-li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~  156 (275)
                        +++.|...++...+.. +++...+.. .-..+...+..+.|+..++......+. +...|+.+-..+...|++++|..
T Consensus       122 ~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~p~-~~~a~~~l~~~~~~~~~~~~A~~  199 (334)
T d1dcea1         122 EPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLLPQLHPQPDSGP  199 (334)
T ss_dssp             SCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCC-CHHHHHHHHHHHHHHSCCCCSSS
T ss_pred             cccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHhcCHHHHHH
Confidence              4677777777777653 334444433 335566677788888777776655443 34456666666777777666544


Q ss_pred             HHHHhhcCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhchhHHHHHHHHHHHhhCCCCC
Q 023915          157 VVKDNSESISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTGQGYVV  236 (275)
Q Consensus       157 ~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~~~~p  236 (275)
                      .+......  .+....+...+...+..+.+...+....... +++...+..+...+. ..++.++|...+.+..... +-
T Consensus       200 ~~~~~~~~--~~~~~~~~~~~~~l~~~~~a~~~~~~~l~~~-~~~~~~~~~l~~~~~-~~~~~~~a~~~~~~~~~~~-p~  274 (334)
T d1dcea1         200 QGRLPENV--LLKELELVQNAFFTDPNDQSAWFYHRWLLGR-AEPLFRCELSVEKST-VLQSELESCKELQELEPEN-KW  274 (334)
T ss_dssp             CCSSCHHH--HHHHHHHHHHHHHHCSSCSHHHHHHHHHHSC-CCCSSSCCCCHHHHH-HHHHHHHHHHHHHHHCTTC-HH
T ss_pred             HHHHhHHh--HHHHHHHHHHHHHhcchhHHHHHHHHHHHhC-cchhhHHHHHHHHHH-HHhhHHHHHHHHHHHHhhC-ch
Confidence            44332221  1122233344555666777777776665543 233445555555554 5688888999888776543 22


Q ss_pred             ChhhHHHHHHHHHHhhHHHHHHHH
Q 023915          237 DSSTRNLILKNSHLFGRQLIADIL  260 (275)
Q Consensus       237 ~~~t~~~li~~~~~~g~~~~~~~~  260 (275)
                      +..++..+-..+.+.|+...+...
T Consensus       275 ~~~~~~~l~~~~~~~~~~~eA~~~  298 (334)
T d1dcea1         275 CLLTIILLMRALDPLLYEKETLQY  298 (334)
T ss_dssp             HHHHHHHHHHHHCTGGGHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHH
Confidence            456677777788888855444433

>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=98.23  E-value=8.4e-06  Score=53.57  Aligned_cols=96  Identities=9%  Similarity=0.001  Sum_probs=59.9

Q ss_pred             hhhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCC---HHHHHHHHHHHhhcCCCCCh-hhHHHHHHHHHc
Q 023915            2 ISAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGD---MESVMHVMRKLDELAISPDY-NTFHILIKYFCK   77 (275)
Q Consensus         2 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~---~~~a~~~~~~m~~~g~~p~~-~t~~~li~~~~~   77 (275)
                      ++.+...+++++|.+.|+.....++. +..++..+-.++.+.++   +++|+++|++....+-.|+. .++..+..+|.+
T Consensus         6 ~n~~~~~~~l~~Ae~~Y~~aL~~~p~-~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y~~   84 (122)
T d1nzna_           6 LNELVSVEDLLKFEKKFQSEKAAGSV-SKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYR   84 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHSCC-CHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHHHH
Confidence            45566667777777777777765443 55666666666665443   34577777776654433332 355666677777


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCH
Q 023915           78 EKMYILAYRTMVDMHRKGHQPEE  100 (275)
Q Consensus        78 ~~~~~~a~~~~~~m~~~g~~~~~  100 (275)
                      .|+++.|...|++..+.  .|+.
T Consensus        85 ~g~~~~A~~~~~~aL~~--~P~~  105 (122)
T d1nzna_          85 LKEYEKALKYVRGLLQT--EPQN  105 (122)
T ss_dssp             TTCHHHHHHHHHHHHHH--CTTC
T ss_pred             HhhhHHHHHHHHHHHHh--CcCC
Confidence            77777777777777664  4543

>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=98.21  E-value=2.5e-05  Score=50.78  Aligned_cols=87  Identities=16%  Similarity=0.039  Sum_probs=50.1

Q ss_pred             hhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHH
Q 023915            5 FCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILA   84 (275)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a   84 (275)
                      +.+.|++++|+..|+......+. +...|..+-.++.+.|++++|++.+....+.+ +.+...|..+..++...|++++|
T Consensus        13 ~~~~g~~~eAi~~~~~al~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~~~~A   90 (117)
T d1elwa_          13 ALSVGNIDDALQCYSEAIKLDPH-NHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNRFEEA   90 (117)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHhcCCc-chhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccCHHHH
Confidence            44556666666666666555333 45556666666666666666666666655532 23344555566666666666666


Q ss_pred             HHHHHHHHH
Q 023915           85 YRTMVDMHR   93 (275)
Q Consensus        85 ~~~~~~m~~   93 (275)
                      +..|+...+
T Consensus        91 ~~~~~~a~~   99 (117)
T d1elwa_          91 KRTYEEGLK   99 (117)
T ss_dssp             HHHHHHHHT
T ss_pred             HHHHHHHHH
Confidence            666666554

>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=98.08  E-value=2.6e-05  Score=50.31  Aligned_cols=89  Identities=15%  Similarity=-0.017  Sum_probs=59.1

Q ss_pred             HHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccc
Q 023915           71 LIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKL  150 (275)
Q Consensus        71 li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~  150 (275)
                      +...+.+.|+++.|...|++..+.. +-+..+|..+-.++.+.|++++|...|+...+..+. +...+..+-..|...|+
T Consensus        22 ~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~a~~~la~~y~~~g~   99 (112)
T d1hxia_          22 EGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPK-DIAVHAALAVSHTNEHN   99 (112)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHhhhcccc-cccchhhhhhhhhhhhhhhHHHhhcccccccccccc-cccchHHHHHHHHHCCC
Confidence            3445666777777777777776653 224567777777777777777777777766554332 34456667777777777


Q ss_pred             hHHHHHHHHHh
Q 023915          151 LKDAYVVVKDN  161 (275)
Q Consensus       151 ~~~a~~~~~~~  161 (275)
                      +++|.+.+++.
T Consensus       100 ~~~A~~~l~~~  110 (112)
T d1hxia_         100 ANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            77777777653

>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=98.04  E-value=4.8e-05  Score=50.23  Aligned_cols=91  Identities=12%  Similarity=0.083  Sum_probs=40.2

Q ss_pred             HHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCC-CCC-----HHhHHHHHHH
Q 023915           36 MLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGH-QPE-----EELCSSLIFH  109 (275)
Q Consensus        36 li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~-~~~-----~~~~~~li~~  109 (275)
                      +-..+.+.|++++|++.|++..+.+ +.+...|..+-.+|.+.|+++.|+..+++.++..- .+.     ..+|..+-..
T Consensus        10 ~G~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg~~   88 (128)
T d1elra_          10 LGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGNS   88 (128)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHH
Confidence            3344445555555555555544421 11233444445555555555555555555443110 000     1234444445


Q ss_pred             HhccCCHHHHHHHHHHHH
Q 023915          110 LGKMRAHSEALSVYNMLR  127 (275)
Q Consensus       110 ~~~~g~~~~a~~~~~~m~  127 (275)
                      +...+++++|.+.|+...
T Consensus        89 ~~~~~~~~~A~~~~~kal  106 (128)
T d1elra_          89 YFKEEKYKDAIHFYNKSL  106 (128)
T ss_dssp             HHHTTCHHHHHHHHHHHH
T ss_pred             HHHhCCHHHHHHHHHHHH
Confidence            555555555555554433

>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=98.02  E-value=9.2e-05  Score=48.38  Aligned_cols=23  Identities=0%  Similarity=-0.023  Sum_probs=9.6

Q ss_pred             HHHHHHccCCHHHHHHHHHHHHH
Q 023915           71 LIKYFCKEKMYILAYRTMVDMHR   93 (275)
Q Consensus        71 li~~~~~~~~~~~a~~~~~~m~~   93 (275)
                      +++.+...+++++|.+.|+....
T Consensus         5 l~n~~~~~~~l~~Ae~~Y~~aL~   27 (122)
T d1nzna_           5 VLNELVSVEDLLKFEKKFQSEKA   27 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHHHHh
Confidence            33334444444444444444443

>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP52 (FKBP4), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.93  E-value=0.00014  Score=50.48  Aligned_cols=61  Identities=10%  Similarity=-0.111  Sum_probs=34.4

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHh
Q 023915           67 TFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRY  128 (275)
Q Consensus        67 t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  128 (275)
                      +|+.+..+|.+.|+++.|+..++..++.. +-++.++..+..+|...|++++|...|+....
T Consensus        64 ~~~nla~~y~k~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~  124 (170)
T d1p5qa1          64 SHLNLAMCHLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQ  124 (170)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcccccchhhhhhhcc-ccchhhhHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            34455555566666666666666655542 22445555566666666666666666665544

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.81  E-value=0.00047  Score=45.23  Aligned_cols=93  Identities=10%  Similarity=-0.078  Sum_probs=63.7

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhcccccc------HHhHHHH
Q 023915           68 FHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMC------KALHEKI  141 (275)
Q Consensus        68 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~------~~~~~~l  141 (275)
                      +..+-..+.+.|++++|+..|++.++.. +.+...+..+-.+|.+.|++++|...++..........      ..+|..+
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            3456677888899999999999988764 34567888888889999999999988888664321111      1244445


Q ss_pred             HHHHHhccchHHHHHHHHHh
Q 023915          142 LHILISGKLLKDAYVVVKDN  161 (275)
Q Consensus       142 i~~~~~~~~~~~a~~~~~~~  161 (275)
                      -..+...+++++|+..|.+.
T Consensus        86 g~~~~~~~~~~~A~~~~~ka  105 (128)
T d1elra_          86 GNSYFKEEKYKDAIHFYNKS  105 (128)
T ss_dssp             HHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHH
Confidence            55555566666666666553

>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP52 (FKBP4), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.79  E-value=0.00079  Score=46.52  Aligned_cols=61  Identities=11%  Similarity=-0.083  Sum_probs=42.7

Q ss_pred             hHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhc
Q 023915          102 LCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSE  163 (275)
Q Consensus       102 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  163 (275)
                      +|+.+..+|.+.|++++|+..++......+. +...+..+-.++...|++++|...|++...
T Consensus        64 ~~~nla~~y~k~~~~~~A~~~~~~al~~~p~-~~~a~~~~g~~~~~~g~~~~A~~~~~~al~  124 (170)
T d1p5qa1          64 SHLNLAMCHLKLQAFSAAIESCNKALELDSN-NEKGLSRRGEAHLAVNDFELARADFQKVLQ  124 (170)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcccccchhhhhhhcccc-chhhhHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            4566677777778888888877776654332 344666677777778888888888877655

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.75  E-value=0.00056  Score=47.78  Aligned_cols=98  Identities=11%  Similarity=-0.018  Sum_probs=65.8

Q ss_pred             HHHHccCCHHHHHHHHHHHhhc--C-CCCC------------------hhhHHHHHHHHHccCCHHHHHHHHHHHHHcCC
Q 023915           38 CAYCRTGDMESVMHVMRKLDEL--A-ISPD------------------YNTFHILIKYFCKEKMYILAYRTMVDMHRKGH   96 (275)
Q Consensus        38 ~~~~~~g~~~~a~~~~~~m~~~--g-~~p~------------------~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~   96 (275)
                      ......|++++|.+.|......  | .-++                  ...+..+...+.+.|+++.|+..++...+.. 
T Consensus        19 ~~~~~~g~~e~A~~~~~~AL~l~rG~~l~~~~~~~w~~~~r~~l~~~~~~a~~~la~~~~~~g~~~~Al~~~~~al~~~-   97 (179)
T d2ff4a2          19 VHAAAAGRFEQASRHLSAALREWRGPVLDDLRDFQFVEPFATALVEDKVLAHTAKAEAEIACGRASAVIAELEALTFEH-   97 (179)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTTCCSSTTGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCcccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCchHHHHHHHHHHHhC-
Confidence            3556667777777777766542  1 1111                  1345667777778888888888888877653 


Q ss_pred             CCCHHhHHHHHHHHhccCCHHHHHHHHHHHHh-----ccccccHH
Q 023915           97 QPEEELCSSLIFHLGKMRAHSEALSVYNMLRY-----SKRSMCKA  136 (275)
Q Consensus        97 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~~~~~~~~  136 (275)
                      +-+...|..++.+|.+.|+..+|++.|++...     -|+.|+..
T Consensus        98 P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~  142 (179)
T d2ff4a2          98 PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPT  142 (179)
T ss_dssp             TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHH
T ss_pred             CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHH
Confidence            44666788888888888888888888887643     36666653

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=97.72  E-value=0.00071  Score=45.85  Aligned_cols=64  Identities=13%  Similarity=-0.083  Sum_probs=48.4

Q ss_pred             hhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhcc
Q 023915           66 NTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSK  130 (275)
Q Consensus        66 ~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  130 (275)
                      .+|+.+..+|.+.|+++.|+..++...+.. +.+..+|..+..++...|++++|...|+......
T Consensus        68 ~~~~Nla~~~~~l~~~~~Al~~~~~al~~~-p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~  131 (153)
T d2fbna1          68 SCNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASLN  131 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS
T ss_pred             HHHhhHHHHHHHhcccchhhhhhhcccccc-chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            466777778888888888888888877653 4456788888888888888888888888776543

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.70  E-value=0.00054  Score=47.86  Aligned_cols=97  Identities=16%  Similarity=0.091  Sum_probs=79.2

Q ss_pred             hhhhcCcHHHHHHHHHHHHhc--CCC-C------------------cHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCC
Q 023915            4 AFCRGGCFEEAKQLAGDFEAK--YDK-Y------------------DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAIS   62 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~--g~~-p------------------~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~   62 (275)
                      .....|++++|.+.|......  |.. +                  ....+..+..++.+.|++++|+..++...+.  .
T Consensus        20 ~~~~~g~~e~A~~~~~~AL~l~rG~~l~~~~~~~w~~~~r~~l~~~~~~a~~~la~~~~~~g~~~~Al~~~~~al~~--~   97 (179)
T d2ff4a2          20 HAAAAGRFEQASRHLSAALREWRGPVLDDLRDFQFVEPFATALVEDKVLAHTAKAEAEIACGRASAVIAELEALTFE--H   97 (179)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTTCCSSTTGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--S
T ss_pred             HHHHCCCHHHHHHHHHHHHhhCcccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCchHHHHHHHHHHHh--C
Confidence            456789999999999998863  211 1                  1245788899999999999999999999883  3


Q ss_pred             C-ChhhHHHHHHHHHccCCHHHHHHHHHHHH-----HcCCCCCHHh
Q 023915           63 P-DYNTFHILIKYFCKEKMYILAYRTMVDMH-----RKGHQPEEEL  102 (275)
Q Consensus        63 p-~~~t~~~li~~~~~~~~~~~a~~~~~~m~-----~~g~~~~~~~  102 (275)
                      | +...|..++.++.+.|+.++|++.|+++.     +.|+.|+..+
T Consensus        98 P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          98 PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            5 56789999999999999999999999985     4699998754

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=97.66  E-value=0.00096  Score=45.19  Aligned_cols=62  Identities=10%  Similarity=-0.083  Sum_probs=49.5

Q ss_pred             HhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhc
Q 023915          101 ELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSE  163 (275)
Q Consensus       101 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  163 (275)
                      .+|+.+..+|.+.|++++|++.++......+ .+...|..+-.++...|++++|...|++...
T Consensus        68 ~~~~Nla~~~~~l~~~~~Al~~~~~al~~~p-~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~  129 (153)
T d2fbna1          68 SCNLNLATCYNKNKDYPKAIDHASKVLKIDK-NNVKALYKLGVANMYFGFLEEAKENLYKAAS  129 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHhhHHHHHHHhcccchhhhhhhccccccc-hhhhhhHHhHHHHHHcCCHHHHHHHHHHHHH
Confidence            4677788888899999999999888775543 3455788888888899999999999888765

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=97.61  E-value=6e-05  Score=56.48  Aligned_cols=122  Identities=13%  Similarity=0.018  Sum_probs=77.7

Q ss_pred             hhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhh-HHHHHHHHHccCCHHH
Q 023915            5 FCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNT-FHILIKYFCKEKMYIL   83 (275)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t-~~~li~~~~~~~~~~~   83 (275)
                      ..+.|++++|+..+++..+..+. |...+..+...++..|++++|.+.|+...+  ..|+... +..+...+...+..+.
T Consensus         6 aL~~G~l~eAl~~l~~al~~~P~-d~~ar~~La~lL~~~G~~e~A~~~l~~a~~--l~P~~~~~~~~l~~ll~a~~~~~~   82 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAIKASPK-DASLRSSFIELLCIDGDFERADEQLMQSIK--LFPEYLPGASQLRHLVKAAQARKD   82 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHHTCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HCGGGHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCCCcHHHHHHHHHHHHhccccHH
Confidence            45679999999999999887655 888999999999999999999999999887  4465443 3233333322222222


Q ss_pred             HHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhc
Q 023915           84 AYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYS  129 (275)
Q Consensus        84 a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  129 (275)
                      +..-...-...+-+++...+......+.+.|+.++|.+.++.....
T Consensus        83 a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~  128 (264)
T d1zbpa1          83 FAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  128 (264)
T ss_dssp             HTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc
Confidence            1111000000111122233444556677789999999998887654

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.57  E-value=0.0015  Score=44.92  Aligned_cols=94  Identities=7%  Similarity=0.013  Sum_probs=56.1

Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHhhc--------------CCCC-ChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCC
Q 023915           34 NSMLCAYCRTGDMESVMHVMRKLDEL--------------AISP-DYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQP   98 (275)
Q Consensus        34 ~~li~~~~~~g~~~~a~~~~~~m~~~--------------g~~p-~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~   98 (275)
                      ......+.+.|++++|++.|.+..+.              .+.| +...|..+..++.+.|+++.|+..++..++.. +-
T Consensus        31 ~~~~~~~~~~~~y~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~-p~  109 (169)
T d1ihga1          31 KNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID-PS  109 (169)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhhhhhhhhhhhHHHHHhChhhHHHHHHHHHHHHhhcccchhhhhhhhhhhhh-hh
Confidence            34455567788888888888776431              0112 22344555566666666666666666666542 23


Q ss_pred             CHHhHHHHHHHHhccCCHHHHHHHHHHHHh
Q 023915           99 EEELCSSLIFHLGKMRAHSEALSVYNMLRY  128 (275)
Q Consensus        99 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  128 (275)
                      +..+|..+-.+|.+.|+++.|...|+....
T Consensus       110 ~~~a~~~~g~~~~~l~~~~~A~~~~~~al~  139 (169)
T d1ihga1         110 NTKALYRRAQGWQGLKEYDQALADLKKAQE  139 (169)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hhhHHHhHHHHHHHccCHHHHHHHHHHHHH
Confidence            445666666666666666666666666554

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=97.52  E-value=0.0053  Score=41.98  Aligned_cols=71  Identities=6%  Similarity=0.016  Sum_probs=51.7

Q ss_pred             hHHHHHHHHHhccchHHHHHHHHHhhc--CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHH
Q 023915          137 LHEKILHILISGKLLKDAYVVVKDNSE--SISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAI  209 (275)
Q Consensus       137 ~~~~li~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li  209 (275)
                      +|+.+-.+|.+.|++++|+..++....  ......|..+..+|...|++++|...|....+.  .|+.......+
T Consensus        66 ~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l--~P~n~~~~~~l  138 (168)
T d1kt1a1          66 AFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEV--NPQNKAARLQI  138 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--CTTCHHHHHHH
T ss_pred             HHHhHHHHHHHhhhcccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHH
Confidence            456666777888888888888888665  344457777888889999999999999888774  46554443333

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.50  E-value=0.0011  Score=45.64  Aligned_cols=102  Identities=11%  Similarity=0.047  Sum_probs=76.9

Q ss_pred             hhhhcCcHHHHHHHHHHHHhc--------------CCCC-cHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhH
Q 023915            4 AFCRGGCFEEAKQLAGDFEAK--------------YDKY-DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTF   68 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~--------------g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~   68 (275)
                      .+.+.|++++|++.|.+....              -..| +...|+.+-.++.+.|++++|+..++...+.. +-+..+|
T Consensus        36 ~~~~~~~y~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~-p~~~~a~  114 (169)
T d1ihga1          36 TFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID-PSNTKAL  114 (169)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhhhhhhhhhhhHHHHHhChhhHHHHHHHHHHHHhhcccchhhhhhhhhhhhh-hhhhhHH
Confidence            466789999999998776431              0112 44567778888999999999999999998743 2345678


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHcCCCCC-HHhHHHHHH
Q 023915           69 HILIKYFCKEKMYILAYRTMVDMHRKGHQPE-EELCSSLIF  108 (275)
Q Consensus        69 ~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~-~~~~~~li~  108 (275)
                      ..+..++.+.|+++.|...|+...+.  .|+ ......+..
T Consensus       115 ~~~g~~~~~l~~~~~A~~~~~~al~l--~p~n~~~~~~l~~  153 (169)
T d1ihga1         115 YRRAQGWQGLKEYDQALADLKKAQEI--APEDKAIQAELLK  153 (169)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             HhHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHHH
Confidence            89999999999999999999999986  454 344444433

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=97.48  E-value=0.0029  Score=43.38  Aligned_cols=97  Identities=11%  Similarity=-0.018  Sum_probs=62.2

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHhhc---CCCC-----------ChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCC
Q 023915           32 LLNSMLCAYCRTGDMESVMHVMRKLDEL---AISP-----------DYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQ   97 (275)
Q Consensus        32 ~~~~li~~~~~~g~~~~a~~~~~~m~~~---g~~p-----------~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~   97 (275)
                      .+.-.-..+.+.|++++|+..|.+....   ...+           ....|+.+..+|.+.|+++.|+..++...+.. +
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            3445556677788888888887765531   1111           11234556666777777777777777777653 4


Q ss_pred             CCHHhHHHHHHHHhccCCHHHHHHHHHHHHhc
Q 023915           98 PEEELCSSLIFHLGKMRAHSEALSVYNMLRYS  129 (275)
Q Consensus        98 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  129 (275)
                      .+..+|..+..++...|++++|...|+.....
T Consensus        96 ~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l  127 (168)
T d1kt1a1          96 ANEKGLYRRGEAQLLMNEFESAKGDFEKVLEV  127 (168)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS
T ss_pred             chHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            45567777777777777777777777776643

>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=97.30  E-value=0.0035  Score=42.35  Aligned_cols=97  Identities=10%  Similarity=0.031  Sum_probs=59.2

Q ss_pred             HhHHHH--HHHHHccCCHHHHHHHHHHHhhcC-CCCC----------hhhHHHHHHHHHccCCHHHHHHHHHHHHHc---
Q 023915           31 VLLNSM--LCAYCRTGDMESVMHVMRKLDELA-ISPD----------YNTFHILIKYFCKEKMYILAYRTMVDMHRK---   94 (275)
Q Consensus        31 ~~~~~l--i~~~~~~g~~~~a~~~~~~m~~~g-~~p~----------~~t~~~li~~~~~~~~~~~a~~~~~~m~~~---   94 (275)
                      .+|..+  ...+.+.|++++|++.|++..+.. -.|+          ..+|+.+..+|.+.|+++.|...+++..+.   
T Consensus         8 ~a~~~l~~g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~   87 (156)
T d2hr2a1           8 GAYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNR   87 (156)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccc
Confidence            355555  444556788888888888876521 1122          345777777777888888877777776532   


Q ss_pred             --CCCCC-----HHhHHHHHHHHhccCCHHHHHHHHHHHH
Q 023915           95 --GHQPE-----EELCSSLIFHLGKMRAHSEALSVYNMLR  127 (275)
Q Consensus        95 --g~~~~-----~~~~~~li~~~~~~g~~~~a~~~~~~m~  127 (275)
                        ...++     ..+++.+-.+|...|++++|+..|+...
T Consensus        88 ~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al  127 (156)
T d2hr2a1          88 RGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVV  127 (156)
T ss_dssp             HCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             cccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHH
Confidence              11121     1234555666677777777777766544

>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=97.28  E-value=0.017  Score=42.34  Aligned_cols=217  Identities=11%  Similarity=-0.027  Sum_probs=131.8

Q ss_pred             hhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHc----cCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHH----
Q 023915            5 FCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCR----TGDMESVMHVMRKLDELAISPDYNTFHILIKYFC----   76 (275)
Q Consensus         5 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~----   76 (275)
                      +-+.+++++|++.|+...+.|   +...+..|-..|..    ..+...|...+......+. |.  ....+...+.    
T Consensus        12 ~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~~-~~--a~~~l~~~~~~~~~   85 (265)
T d1ouva_          12 SYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLNY-SN--GCHLLGNLYYSGQG   85 (265)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC-HH--HHHHHHHHHHHTSS
T ss_pred             HHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhcccccccc-cc--hhhccccccccccc
Confidence            446789999999999888766   44555555555654    5678888888888776553 22  2223322222    


Q ss_pred             ccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHH----hccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHh----c
Q 023915           77 KEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHL----GKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILIS----G  148 (275)
Q Consensus        77 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~----~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~----~  148 (275)
                      ...+.+.|...++...+.|....   ...+...+    ........+...+......+   ....+..+-..+..    .
T Consensus        86 ~~~~~~~a~~~~~~a~~~g~~~a---~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~L~~~~~~~~~~~  159 (265)
T d1ouva_          86 VSQNTNKALQYYSKACDLKYAEG---CASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTILGSLYDAGRGTP  159 (265)
T ss_dssp             SCCCHHHHHHHHHHHHHTTCHHH---HHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSC
T ss_pred             cchhhHHHHHHHhhhhhhhhhhH---HHhhcccccCCCcccchhHHHHHHhhhhhccc---ccchhhhhhhhhccCCCcc
Confidence            35677888888888877664322   22222222    22345666666666544332   22345555555554    4


Q ss_pred             cchHHHHHHHHHhhcCCChhHHHHHHHHHHh----cCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHh---chhHHH
Q 023915          149 KLLKDAYVVVKDNSESISHPAIKKFASAFVR----LGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAE---REKKEL  221 (275)
Q Consensus       149 ~~~~~a~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~---~~~~~~  221 (275)
                      .+...+...++...+.+++.....+-..|..    ..+.+.|...|....+.|   +...+..|-..|..-   ..+.++
T Consensus       160 ~~~~~~~~~~~~a~~~g~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~LG~~y~~G~g~~~n~~~  236 (265)
T d1ouva_         160 KDLKKALASYDKACDLKDSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGAMQYNGEGVTRNEKQ  236 (265)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHTTSSSSCCSTT
T ss_pred             cccccchhhhhccccccccccccchhhhcccCcccccchhhhhhhHhhhhccc---CHHHHHHHHHHHHcCCCCccCHHH
Confidence            5567778888877777777766555555554    457888888888887766   334444455455311   225666


Q ss_pred             HHHHHHHHhhCCCCC
Q 023915          222 LLKLLEWMTGQGYVV  236 (275)
Q Consensus       222 a~~l~~~m~~~~~~p  236 (275)
                      |.++|++....|-.+
T Consensus       237 A~~~~~kAa~~g~~~  251 (265)
T d1ouva_         237 AIENFKKGCKLGAKG  251 (265)
T ss_dssp             HHHHHHHHHHHTCHH
T ss_pred             HHHHHHHHHHCcCHH
Confidence            888887776666433

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=97.19  E-value=0.0015  Score=48.52  Aligned_cols=119  Identities=11%  Similarity=-0.043  Sum_probs=61.1

Q ss_pred             HccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHH
Q 023915           76 CKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAY  155 (275)
Q Consensus        76 ~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~  155 (275)
                      .+.|++++|+..+++..+.. +-|...+..+...++..|++++|...|+...+..+... ..+..+-..+...+..+++.
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-PKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYL-PGASQLRHLVKAAQARKDFA   84 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGH-HHHHHHHHHHHHHHHHHHHT
T ss_pred             HHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCcH-HHHHHHHHHHHhccccHHHH
Confidence            45577777777777766552 34456667777777777777777777776654432221 12222222222222222221


Q ss_pred             HHHHHhhcCCChhHH---HHHHHHHHhcCChhHHHHHHHHHHHc
Q 023915          156 VVVKDNSESISHPAI---KKFASAFVRLGNINLVNDVMKAIHAT  196 (275)
Q Consensus       156 ~~~~~~~~~~~~~~~---~~li~~~~~~~~~~~a~~~~~~m~~~  196 (275)
                      .-.........++.+   ......+...|+.++|...+....+.
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            111111111222222   23345566777888888877776664

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=97.16  E-value=0.0032  Score=42.05  Aligned_cols=114  Identities=13%  Similarity=0.010  Sum_probs=74.4

Q ss_pred             hhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHcc----------CCHHHHHHHHHHHhhcCCCCC-hhhHHHHH
Q 023915            4 AFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRT----------GDMESVMHVMRKLDELAISPD-YNTFHILI   72 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~----------g~~~~a~~~~~~m~~~g~~p~-~~t~~~li   72 (275)
                      .|-+.+.+++|.+.|+...+..+. +..++..+-.++...          +.+++|+..|++..+  +.|+ ..+|..+-
T Consensus         6 ~~~r~~~fe~A~~~~e~al~~~P~-~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~--l~P~~~~a~~~lG   82 (145)
T d1zu2a1           6 EFDRILLFEQIRQDAENTYKSNPL-DADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALL--IDPKKDEAVWCIG   82 (145)
T ss_dssp             SHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHH
T ss_pred             HHHHHccHHHHHHHHHHHHhhCCc-chHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHH--hcchhhHHHhhHH
Confidence            456778899999999999987654 777787777777644          345778888888776  4454 45677777


Q ss_pred             HHHHccC-----------CHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHh
Q 023915           73 KYFCKEK-----------MYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRY  128 (275)
Q Consensus        73 ~~~~~~~-----------~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  128 (275)
                      .+|...|           .++.|.+.|+...+.  .|+...|..-+..+      .+|.+++.+..+
T Consensus        83 ~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~l--~P~~~~~~~~L~~~------~ka~~~~~e~~k  141 (145)
T d1zu2a1          83 NAYTSFAFLTPDETEAKHNFDLATQFFQQAVDE--QPDNTHYLKSLEMT------AKAPQLHAEAYK  141 (145)
T ss_dssp             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHH------HTHHHHHHHHHH
T ss_pred             HHHHHcccchhhHHHHHHhHHHhhhhhhccccc--CCCHHHHHHHHHHH------HHHHHHHHHHHH
Confidence            7766544           346677777776653  56665555444433      344455554443

>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=97.11  E-value=0.034  Score=42.52  Aligned_cols=163  Identities=7%  Similarity=0.078  Sum_probs=86.3

Q ss_pred             CChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHH
Q 023915           63 PDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKIL  142 (275)
Q Consensus        63 p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li  142 (275)
                      .+......++..|-..|.++....+++..... -.++...++.++..|++.+ .++..+.+....  + ..   -...++
T Consensus        97 ~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~-~~~~~~~~~~L~~lyak~~-~~kl~e~l~~~s--~-~y---~~~k~~  168 (336)
T d1b89a_          97 VHADELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSKFK-PQKMREHLELFW--S-RV---NIPKVL  168 (336)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS-TTCCHHHHHHHHHHHHTTC-HHHHHHHHHHHS--T-TS---CHHHHH
T ss_pred             cCHHHHHHHHHHHHHcCChHHHHHHHHHHHcC-CccchHHHHHHHHHHHHhC-hHHHHHHHHhcc--c-cC---CHHHHH
Confidence            34444456677777777777777777765422 2455566777777777754 334333333221  1 11   112344


Q ss_pred             HHHHhccchHHHHHHHHHhhc-----------CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHH
Q 023915          143 HILISGKLLKDAYVVVKDNSE-----------SISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIAR  211 (275)
Q Consensus       143 ~~~~~~~~~~~a~~~~~~~~~-----------~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~  211 (275)
                      ..|-..+.++++.-++.++..           .++......++..+.+..+.+...++.....+.  .|  ...+.++..
T Consensus       169 ~~c~~~~l~~elv~Ly~~~~~~~~A~~~~i~~~~~~~~~~~f~e~~~k~~N~e~~~~~i~~yL~~--~p--~~i~~lL~~  244 (336)
T d1b89a_         169 RAAEQAHLWAELVFLYDKYEEYDNAIITMMNHPTDAWKEGQFKDIITKVANVELYYRAIQFYLEF--KP--LLLNDLLMV  244 (336)
T ss_dssp             HHHHTTTCHHHHHHHHHHTTCHHHHHHHHHHSTTTTCCHHHHHHHHHHCSSTHHHHHHHHHHHHH--CG--GGHHHHHHH
T ss_pred             HHHHHcCChHHHHHHHHhcCCHHHHHHHHHHcchhhhhHHHHHHHHHccCChHHHHHHHHHHHHc--CH--HHHHHHHHH
Confidence            555555555555555554322           111223445667777777777766666665553  23  334555544


Q ss_pred             HHHhchhHHHHHHHHHHHhhCCCCCChhhH
Q 023915          212 YIAEREKKELLLKLLEWMTGQGYVVDSSTR  241 (275)
Q Consensus       212 ~~~~~~~~~~a~~l~~~m~~~~~~p~~~t~  241 (275)
                      ..   ++.+ ..++.+.+.+.+--|-..-|
T Consensus       245 v~---~~~d-~~r~V~~~~k~~~l~li~p~  270 (336)
T d1b89a_         245 LS---PRLD-HTRAVNYFSKVKQLPLVKPY  270 (336)
T ss_dssp             HG---GGCC-HHHHHHHHHHTTCTTTTHHH
T ss_pred             hc---cCCC-HHHHHHHHHhcCCcHHHHHH
Confidence            32   3333 45566666666655554444

>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=97.03  E-value=0.0054  Score=41.34  Aligned_cols=90  Identities=10%  Similarity=-0.035  Sum_probs=69.4

Q ss_pred             hhhhcCcHHHHHHHHHHHHhcCCC-C----------cHHhHHHHHHHHHccCCHHHHHHHHHHHhhc-----CCCCC---
Q 023915            4 AFCRGGCFEEAKQLAGDFEAKYDK-Y----------DVVLLNSMLCAYCRTGDMESVMHVMRKLDEL-----AISPD---   64 (275)
Q Consensus         4 ~~~~~g~~~~a~~~~~~m~~~g~~-p----------~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-----g~~p~---   64 (275)
                      .+.+.|++++|+..|++..+.... |          ...+|+.+-.+|.+.|++++|++-+++..+.     ...|+   
T Consensus        18 ~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~   97 (156)
T d2hr2a1          18 RQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGK   97 (156)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccc
Confidence            345679999999999998863221 2          2467899999999999999999999887642     12222   


Q ss_pred             --hhhHHHHHHHHHccCCHHHHHHHHHHHHH
Q 023915           65 --YNTFHILIKYFCKEKMYILAYRTMVDMHR   93 (275)
Q Consensus        65 --~~t~~~li~~~~~~~~~~~a~~~~~~m~~   93 (275)
                        ...|+.+-.+|...|++++|+..|++..+
T Consensus        98 ~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          98 LWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence              22567788899999999999999999764

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=96.92  E-value=0.052  Score=41.42  Aligned_cols=199  Identities=10%  Similarity=0.023  Sum_probs=122.9

Q ss_pred             hhhhhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHH
Q 023915            3 SAFCRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYI   82 (275)
Q Consensus         3 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~   82 (275)
                      ..|-+.|.++.|..++..+.         -|..++..+.+.++++.|.+++...      -+..+|.-+...+.+.....
T Consensus        22 ~~c~~~~lye~A~~lY~~~~---------d~~rl~~~~v~l~~~~~avd~~~k~------~~~~~~k~~~~~l~~~~e~~   86 (336)
T d1b89a_          22 DRCYDEKMYDAAKLLYNNVS---------NFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFR   86 (336)
T ss_dssp             -------CTTTHHHHHHHTT---------CHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHCCCHHHHHHHHHhCC---------CHHHHHHHHHhhccHHHHHHHHHHc------CCHHHHHHHHHHHHhCcHHH
Confidence            34668888999999987654         3778888889999999998887654      34558888888888877665


Q ss_pred             HHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhh
Q 023915           83 LAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNS  162 (275)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~  162 (275)
                      .+     ++.......+......++..|-..|.++....++...... ...+...++.++..|++.+. +...+.++...
T Consensus        87 la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~-~~~~~~~~~~L~~lyak~~~-~kl~e~l~~~s  159 (336)
T d1b89a_          87 LA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSKFKP-QKMREHLELFW  159 (336)
T ss_dssp             HH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS-TTCCHHHHHHHHHHHHTTCH-HHHHHHHHHHS
T ss_pred             HH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcC-CccchHHHHHHHHHHHHhCh-HHHHHHHHhcc
Confidence            42     3333444556667788999999999999999999876533 34456678889998888754 44444454433


Q ss_pred             cCCChh----------HHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhchhHHHHHHHHHHH
Q 023915          163 ESISHP----------AIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWM  229 (275)
Q Consensus       163 ~~~~~~----------~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~m  229 (275)
                      ...+.+          .|.-++-.|.+.|.++.|..+.   .+.  .|+..-....+..+. +..+.+...++....
T Consensus       160 ~~y~~~k~~~~c~~~~l~~elv~Ly~~~~~~~~A~~~~---i~~--~~~~~~~~~f~e~~~-k~~N~e~~~~~i~~y  230 (336)
T d1b89a_         160 SRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITM---MNH--PTDAWKEGQFKDIIT-KVANVELYYRAIQFY  230 (336)
T ss_dssp             TTSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHHH---HHS--TTTTCCHHHHHHHHH-HCSSTHHHHHHHHHH
T ss_pred             ccCCHHHHHHHHHHcCChHHHHHHHHhcCCHHHHHHHH---HHc--chhhhhHHHHHHHHH-ccCChHHHHHHHHHH
Confidence            333332          1334556666666666665552   221  233333344444443 444445444444443

>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=96.91  E-value=0.0062  Score=49.61  Aligned_cols=90  Identities=9%  Similarity=-0.146  Sum_probs=32.4

Q ss_pred             hHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhc-C-CChhHHHHHHHHHHh
Q 023915          102 LCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSE-S-ISHPAIKKFASAFVR  179 (275)
Q Consensus       102 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~-~-~~~~~~~~li~~~~~  179 (275)
                      .+..+-..+.+.|+.+.|...+.......  + ...+..+-..+...+++++|...|++... . .+...|+.+-..+..
T Consensus       122 ~~~~lg~~~~~~~~~~~A~~~~~~al~~~--~-~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~P~~~~~~~~Lg~~~~~  198 (497)
T d1ya0a1         122 KSSQLGIISNKQTHTSAIVKPQSSSCSYI--C-QHCLVHLGDIARYRNQTSQAESYYRHAAQLVPSNGQPYNQLAILASS  198 (497)
T ss_dssp             ---------------------CCHHHHHH--H-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTBSHHHHHHHHHHHH
T ss_pred             HHHHhHHHHHhCCCHHHHHHHHHHHhCCC--H-HHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCchHHHHHHHHHHHH
Confidence            44444445555555555554444322111  1 12334444455555556666665555443 2 222255555555555


Q ss_pred             cCChhHHHHHHHHHH
Q 023915          180 LGNINLVNDVMKAIH  194 (275)
Q Consensus       180 ~~~~~~a~~~~~~m~  194 (275)
                      .|+..+|...|.+-.
T Consensus       199 ~~~~~~A~~~y~ral  213 (497)
T d1ya0a1         199 KGDHLTTIFYYCRSI  213 (497)
T ss_dssp             TTCHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHH
Confidence            555555555554443

>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=96.80  E-value=0.0038  Score=41.66  Aligned_cols=44  Identities=14%  Similarity=0.108  Sum_probs=26.9

Q ss_pred             ChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhchhHHHHHHHHHHHhhCCC
Q 023915          182 NINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTGQGY  234 (275)
Q Consensus       182 ~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~~~  234 (275)
                      .++.|.+.|+...+.  .|+...|..-+..+       ..+.+++.+..+.|+
T Consensus       101 ~~~~A~~~~~kal~l--~P~~~~~~~~L~~~-------~ka~~~~~e~~k~~~  144 (145)
T d1zu2a1         101 NFDLATQFFQQAVDE--QPDNTHYLKSLEMT-------AKAPQLHAEAYKQGL  144 (145)
T ss_dssp             HHHHHHHHHHHHHHH--CTTCHHHHHHHHHH-------HTHHHHHHHHHHSSS
T ss_pred             hHHHhhhhhhccccc--CCCHHHHHHHHHHH-------HHHHHHHHHHHHHhc
Confidence            356777777776663  57777766555443       235566666655553

>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=96.72  E-value=0.0016  Score=53.22  Aligned_cols=226  Identities=6%  Similarity=-0.060  Sum_probs=108.4

Q ss_pred             HHHHHHHHHHhcCCCCcH-HhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHH
Q 023915           13 EAKQLAGDFEAKYDKYDV-VLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDM   91 (275)
Q Consensus        13 ~a~~~~~~m~~~g~~p~~-~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m   91 (275)
                      +|.+.|++..+.  +|+. ..+..+-.++...+++++|   |+++...  .|+...-..+-..+.+ ..+..+...++..
T Consensus         4 eA~q~~~qA~~l--~p~~a~a~~~la~~~~~~~~l~ea---ye~~i~~--dp~~a~~~~~e~~Lw~-~~y~~~ie~~r~~   75 (497)
T d1ya0a1           4 QSAQYLRQAEVL--KADMTDSKLGPAEVWTSRQALQDL---YQKMLVT--DLEYALDKKVEQDLWN-HAFKNQITTLQGQ   75 (497)
T ss_dssp             HHHHHHHHHHHH--HGGGTCSSSCSSSSHHHHHHHHHH---HHHHHHH--CHHHHHHHTHHHHHHH-HHTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHc--CCCCHHHHhhHHHHHHHHchHHHH---HHHHHHc--ChhhHHHHhHHHHHHH-HHHHHHHHHHHHh
Confidence            566667666643  3332 2444455555555666655   5555432  2322110001111111 1234455566665


Q ss_pred             HHcCCCCCHHhHHHHHHHHh--ccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhcCCChhH
Q 023915           92 HRKGHQPEEELCSSLIFHLG--KMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSESISHPA  169 (275)
Q Consensus        92 ~~~g~~~~~~~~~~li~~~~--~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~  169 (275)
                      .+..-.++..-....+..+.  ..+.++.++..+...... .......+..+-..+.+.|+.+.|...+...........
T Consensus        76 ~k~~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~~~l-~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~  154 (497)
T d1ya0a1          76 AKNRANPNRSEVQANLSLFLEAASGFYTQLLQELCTVFNV-DLPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSYICQHC  154 (497)
T ss_dssp             HSCSSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC--------------------------------CCHHHHHHHHHH
T ss_pred             cccccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC-ChhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCCCHHHH
Confidence            54443344332222222221  123344444333322111 122233455566666777888887776665443222235


Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCh-hhHHHHHHHHHHhchhHHHHHHHHHHHhhCCCCCChhhHHHHHHHH
Q 023915          170 IKKFASAFVRLGNINLVNDVMKAIHATGYRIDQ-GIFHIAIARYIAEREKKELLLKLLEWMTGQGYVVDSSTRNLILKNS  248 (275)
Q Consensus       170 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~-~~y~~li~~~~~~~~~~~~a~~l~~~m~~~~~~p~~~t~~~li~~~  248 (275)
                      +..+-..+...|++++|...|++..+.  .|+. .+|+.|-..+. ..|+..+|...|.+-.... +|-..++..|...+
T Consensus       155 ~~~LG~l~~~~~~~~~A~~~y~~A~~l--~P~~~~~~~~Lg~~~~-~~~~~~~A~~~y~ral~~~-~~~~~a~~nL~~~~  230 (497)
T d1ya0a1         155 LVHLGDIARYRNQTSQAESYYRHAAQL--VPSNGQPYNQLAILAS-SKGDHLTTIFYYCRSIAVK-FPFPAASTNLQKAL  230 (497)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTBSHHHHHHHHHHH-HTTCHHHHHHHHHHHHSSS-BCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHH--CCCchHHHHHHHHHHH-HcCCHHHHHHHHHHHHhCC-CCCHHHHHHHHHHH
Confidence            667788899999999999999998875  4654 68888888876 6688888999888876643 46677888887777


Q ss_pred             HHh
Q 023915          249 HLF  251 (275)
Q Consensus       249 ~~~  251 (275)
                      .+.
T Consensus       231 ~~~  233 (497)
T d1ya0a1         231 SKA  233 (497)
T ss_dssp             HHH
T ss_pred             HHh
Confidence            543

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.38  E-value=0.029  Score=33.98  Aligned_cols=65  Identities=8%  Similarity=-0.169  Sum_probs=42.0

Q ss_pred             HHhHHHHHHHHHccCCHHHHHHHHHHHhhcC-----CCCC-hhhHHHHHHHHHccCCHHHHHHHHHHHHHc
Q 023915           30 VVLLNSMLCAYCRTGDMESVMHVMRKLDELA-----ISPD-YNTFHILIKYFCKEKMYILAYRTMVDMHRK   94 (275)
Q Consensus        30 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g-----~~p~-~~t~~~li~~~~~~~~~~~a~~~~~~m~~~   94 (275)
                      ...+-.+-..+.+.|+++.|...|++..+..     ..++ ..+++.+..++.+.|++++|...+++.++.
T Consensus         5 addc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l   75 (95)
T d1tjca_           5 AEDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (95)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHh
Confidence            3344456666777777777777777665421     1122 345677777777777777777777777764

>d1ouva_ a.118.18.1 (A:) Cysteine rich protein C (HcpC) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein C (HcpC)
species: Helicobacter pylori [TaxId: 210]

Probab=96.11  E-value=0.14  Score=37.04  Aligned_cols=193  Identities=12%  Similarity=-0.023  Sum_probs=124.7

Q ss_pred             cHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHc----cCCHHHHHHHHHHHHHcCCCCCHHhHH
Q 023915           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCK----EKMYILAYRTMVDMHRKGHQPEEELCS  104 (275)
Q Consensus        29 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~----~~~~~~a~~~~~~m~~~g~~~~~~~~~  104 (275)
                      |+..+..|-..+.+.+++++|++.|++..+.|   |...+-.|-..|..    ..+...|...+......+..   ....
T Consensus         1 ~p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~~~---~a~~   74 (265)
T d1ouva_           1 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLNYS---NGCH   74 (265)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCH---HHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccccc---chhh
Confidence            34566667777778999999999999998876   33444455555554    67889999999988876632   2233


Q ss_pred             HHHHHH----hccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHH----hccchHHHHHHHHHhhcCCChhHHHHHHHH
Q 023915          105 SLIFHL----GKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILI----SGKLLKDAYVVVKDNSESISHPAIKKFASA  176 (275)
Q Consensus       105 ~li~~~----~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~li~~  176 (275)
                      .+...+    ....+.+.|...++.....+.....   ..+-..+.    .......+...+...........+..+...
T Consensus        75 ~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~~~a~---~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~L~~~  151 (265)
T d1ouva_          75 LLGNLYYSGQGVSQNTNKALQYYSKACDLKYAEGC---ASLGGIYHDGKVVTRDFKKAVEYFTKACDLNDGDGCTILGSL  151 (265)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHH---HHHHHHHHHCSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             ccccccccccccchhhHHHHHHHhhhhhhhhhhHH---HhhcccccCCCcccchhHHHHHHhhhhhcccccchhhhhhhh
Confidence            333333    2356788899999887766554332   22222222    345577788888887777777777777777


Q ss_pred             HHh----cCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHh---chhHHHHHHHHHHHhhCC
Q 023915          177 FVR----LGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAE---REKKELLLKLLEWMTGQG  233 (275)
Q Consensus       177 ~~~----~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~---~~~~~~a~~l~~~m~~~~  233 (275)
                      |..    ..+...+...++...+.|   +......+-..|...   ..+.++|..+|....+.|
T Consensus       152 ~~~~~~~~~~~~~~~~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g  212 (265)
T d1ouva_         152 YDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE  212 (265)
T ss_dssp             HHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT
T ss_pred             hccCCCcccccccchhhhhcccccc---ccccccchhhhcccCcccccchhhhhhhHhhhhccc
Confidence            775    345667777777666644   444444443333311   346777888888877766

>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=95.79  E-value=0.052  Score=32.80  Aligned_cols=64  Identities=16%  Similarity=-0.024  Sum_probs=45.8

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHHcC-----CCCC-HHhHHHHHHHHhccCCHHHHHHHHHHHHhcc
Q 023915           67 TFHILIKYFCKEKMYILAYRTMVDMHRKG-----HQPE-EELCSSLIFHLGKMRAHSEALSVYNMLRYSK  130 (275)
Q Consensus        67 t~~~li~~~~~~~~~~~a~~~~~~m~~~g-----~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  130 (275)
                      .+-.+-..+.+.|+++.|...|++..+..     ..++ ..++..+-.+|.+.|++++|...+++.....
T Consensus         7 dc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~   76 (95)
T d1tjca_           7 DSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELD   76 (95)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhC
Confidence            34456677888888888888888876431     1222 3567778888888888888888888876543

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=95.49  E-value=0.15  Score=32.48  Aligned_cols=138  Identities=9%  Similarity=0.028  Sum_probs=66.4

Q ss_pred             ccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhc-cccccHHhHHHHHHHHHhccchHHHH
Q 023915           77 KEKMYILAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYS-KRSMCKALHEKILHILISGKLLKDAY  155 (275)
Q Consensus        77 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~~~~~~~~~li~~~~~~~~~~~a~  155 (275)
                      -.|..++..++..+....   .+..-||.+|--....-+.+...++++.+-.. .+.|              ++++....
T Consensus        14 ldG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~FDls~--------------C~Nlk~vv   76 (161)
T d1wy6a1          14 LDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDLDK--------------CQNLKSVV   76 (161)
T ss_dssp             HTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCGGG--------------CSCTHHHH
T ss_pred             HhhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHHhhhcCchh--------------hhcHHHHH
Confidence            345556666666655542   33445555555555555666655555554321 1111              11111111


Q ss_pred             HHHHHhhcCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHHhchhHHHHHHHHHHHhhCCCC
Q 023915          156 VVVKDNSESISHPAIKKFASAFVRLGNINLVNDVMKAIHATGYRIDQGIFHIAIARYIAEREKKELLLKLLEWMTGQGYV  235 (275)
Q Consensus       156 ~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~~~~~~~a~~l~~~m~~~~~~  235 (275)
                      ..+-.  .......++..++.+...|+-+...++++.+.+. -+|++...-.+-.+| ++-|...++.+++.+.-++|++
T Consensus        77 ~C~~~--~n~~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn-~~i~~~~llkia~A~-kkig~~re~nell~~ACe~G~K  152 (161)
T d1wy6a1          77 ECGVI--NNTLNEHVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANAL-RRVGDERDATTLLIEACKKGEK  152 (161)
T ss_dssp             HHHHH--TTCCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHH-HHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHH--hcchHHHHHHHHHHHHHhccHHHHHHHHHHHHhc-CCCCHHHHHHHHHHH-HHhcchhhHHHHHHHHHHHhHH
Confidence            11111  1122233445555666666666666666664442 245555555555555 3555566666666666665553

>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=93.46  E-value=0.52  Score=30.01  Aligned_cols=24  Identities=8%  Similarity=-0.100  Sum_probs=10.6

Q ss_pred             chHHHHHHHHHhhcCCChhHHHHH
Q 023915          150 LLKDAYVVVKDNSESISHPAIKKF  173 (275)
Q Consensus       150 ~~~~a~~~~~~~~~~~~~~~~~~l  173 (275)
                      +.+.|.++|++..+.++++....|
T Consensus        74 d~~~A~~~~~~aa~~g~~~a~~~L   97 (133)
T d1klxa_          74 DLRKAAQYYSKACGLNDQDGCLIL   97 (133)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             hhHHHHHHHhhhhccCcchHHHHH
Confidence            344445555544444444433333

>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=93.38  E-value=0.42  Score=28.66  Aligned_cols=64  Identities=16%  Similarity=0.189  Sum_probs=43.3

Q ss_pred             CHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHH
Q 023915           45 DMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAYRTMVDMHRKGHQPEEELCSSLIFH  109 (275)
Q Consensus        45 ~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~  109 (275)
                      +.-++.+-++.+....+.|+.....+.+++|.+.+|+..|.++|+..+... .++...|..+++-
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K~-~~~k~~y~yilqe   84 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVIQE   84 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh-cCcHHHHHHHHHH
Confidence            455666667777777777888777788888888888888888877776432 2334456555554

>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=92.70  E-value=0.69  Score=29.33  Aligned_cols=141  Identities=11%  Similarity=0.033  Sum_probs=73.3

Q ss_pred             hhcCcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHccCCHHHHH
Q 023915            6 CRGGCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYILAY   85 (275)
Q Consensus         6 ~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~~~~~~~a~   85 (275)
                      .-.|.+++..+++.+....   .+..-||=+|......-+-+...++++..-+-   -|.          ...+++....
T Consensus        13 ildG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~---FDl----------s~C~Nlk~vv   76 (161)
T d1wy6a1          13 LLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSY---FDL----------DKCQNLKSVV   76 (161)
T ss_dssp             HHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG---SCG----------GGCSCTHHHH
T ss_pred             HHhhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHHhhh---cCc----------hhhhcHHHHH
Confidence            3457777777777776653   15556676776666666777777776665432   111          1112222222


Q ss_pred             HHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHHHHhccchHHHHHHHHHhhcCC
Q 023915           86 RTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYVVVKDNSESI  165 (275)
Q Consensus        86 ~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~  165 (275)
                      ..+-.+     -.+..-+...++...+.|+-++..++++.+.. +-.+++...-.+-.+|.+.|...++-+++.+.-+.+
T Consensus        77 ~C~~~~-----n~~se~vdlALd~lv~~~kkd~Ld~i~~~l~k-n~~i~~~~llkia~A~kkig~~re~nell~~ACe~G  150 (161)
T d1wy6a1          77 ECGVIN-----NTLNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEACKKG  150 (161)
T ss_dssp             HHHHHT-----TCCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHh-----cchHHHHHHHHHHHHHhccHHHHHHHHHHHHh-cCCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHh
Confidence            222111     11223344455555566666666666666444 333344445555666666666666666666655544


Q ss_pred             Chh
Q 023915          166 SHP  168 (275)
Q Consensus       166 ~~~  168 (275)
                      ...
T Consensus       151 ~Ke  153 (161)
T d1wy6a1         151 EKE  153 (161)
T ss_dssp             CHH
T ss_pred             HHH
Confidence            433

>d1v54e_ a.118.11.1 (E:) Cytochrome c oxidase subunit E {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Cytochrome c oxidase subunit E
family: Cytochrome c oxidase subunit E
domain: Cytochrome c oxidase subunit E
species: Cow (Bos taurus) [TaxId: 9913]

Probab=92.65  E-value=0.56  Score=28.12  Aligned_cols=61  Identities=8%  Similarity=0.118  Sum_probs=34.6

Q ss_pred             HHHHHHHHHHHcCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhccccccHHhHHHHHHH
Q 023915           83 LAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHI  144 (275)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~  144 (275)
                      .+.+-++.+....+.|++....+.+.||.|.+++..|.++|+.++.+.. .....|..+++.
T Consensus        24 e~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K~~-~~k~~y~yilqe   84 (105)
T d1v54e_          24 ELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAG-PHKEIYPYVIQE   84 (105)
T ss_dssp             HHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTT-TCTTHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhc-CcHHHHHHHHHH
Confidence            3455555555556666666666666666666666666666666553321 123345555444

>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=92.21  E-value=0.82  Score=29.01  Aligned_cols=79  Identities=13%  Similarity=-0.023  Sum_probs=38.9

Q ss_pred             CcHHHHHHHHHHHHhcCCCCcHHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHc----cCCHHHH
Q 023915            9 GCFEEAKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCK----EKMYILA   84 (275)
Q Consensus         9 g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~li~~~~~----~~~~~~a   84 (275)
                      .|+++|.++|+..-+.|..   ..+..|..  ....+.++|++.|++..+.|.   ...+..|-..|..    ..+.++|
T Consensus         7 kd~~~A~~~~~kaa~~g~~---~a~~~l~~--~~~~~~~~a~~~~~~aa~~g~---~~a~~~Lg~~y~~g~~~~~d~~~A   78 (133)
T d1klxa_           7 KDLKKAIQYYVKACELNEM---FGCLSLVS--NSQINKQKLFQYLSKACELNS---GNGCRFLGDFYENGKYVKKDLRKA   78 (133)
T ss_dssp             HHHHHHHHHHHHHHHTTCT---THHHHHHT--CTTSCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             cCHHHHHHHHHHHHHCCCh---hhhhhhcc--ccccCHHHHHHHHhhhhcccc---hhhhhhHHHhhhhccccchhhHHH
Confidence            4677777777777666522   22222221  233456666666666655543   1222222222222    3445555


Q ss_pred             HHHHHHHHHcC
Q 023915           85 YRTMVDMHRKG   95 (275)
Q Consensus        85 ~~~~~~m~~~g   95 (275)
                      ..+|+...+.|
T Consensus        79 ~~~~~~aa~~g   89 (133)
T d1klxa_          79 AQYYSKACGLN   89 (133)
T ss_dssp             HHHHHHHHHTT
T ss_pred             HHHHhhhhccC
Confidence            56665555544

>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=91.40  E-value=0.19  Score=31.90  Aligned_cols=82  Identities=10%  Similarity=0.028  Sum_probs=56.9

Q ss_pred             HHHHHHHhc-CCCCcHHhHHHHHHHHHccC---CHHHHHHHHHHHhhcCCCCC-h-hhHHHHHHHHHccCCHHHHHHHHH
Q 023915           16 QLAGDFEAK-YDKYDVVLLNSMLCAYCRTG---DMESVMHVMRKLDELAISPD-Y-NTFHILIKYFCKEKMYILAYRTMV   89 (275)
Q Consensus        16 ~~~~~m~~~-g~~p~~~~~~~li~~~~~~g---~~~~a~~~~~~m~~~g~~p~-~-~t~~~li~~~~~~~~~~~a~~~~~   89 (275)
                      .+-++.... +..|++.+--..-.++++..   +.++++.+|++....+  |+ . ..+-.|--+|.+.|+++.|...++
T Consensus        20 ~~~~q~~~e~~~~~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~--p~~~rd~lY~Lav~yyklgdy~~A~~~~~   97 (124)
T d2pqrb1          20 ILRQQVVSEGGPTATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEA--ESRRRECLYYLTIGCYKLGEYSMAKRYVD   97 (124)
T ss_dssp             HHHHHHHHTTGGGSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHC--GGGHHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCCCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcC--chhHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            333444444 34566666666666666554   4678999999988643  43 2 455677778999999999999999


Q ss_pred             HHHHcCCCCCHH
Q 023915           90 DMHRKGHQPEEE  101 (275)
Q Consensus        90 ~m~~~g~~~~~~  101 (275)
                      .+++.  .|+..
T Consensus        98 ~~L~i--eP~n~  107 (124)
T d2pqrb1          98 TLFEH--ERNNK  107 (124)
T ss_dssp             HHHHH--CTTCH
T ss_pred             HHHcc--CCCcH
Confidence            99975  56543

>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=89.01  E-value=1.7  Score=27.30  Aligned_cols=52  Identities=17%  Similarity=0.091  Sum_probs=40.3

Q ss_pred             CCHHHHHHHHHHHHHcCCCCCH-HhHHHHHHHHhccCCHHHHHHHHHHHHhccc
Q 023915           79 KMYILAYRTMVDMHRKGHQPEE-ELCSSLIFHLGKMRAHSEALSVYNMLRYSKR  131 (275)
Q Consensus        79 ~~~~~a~~~~~~m~~~g~~~~~-~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~  131 (275)
                      .+.+.++.++++..+.+ +.+. ..+-.|--+|.+.|++++|.+.++.+.+..+
T Consensus        52 ~d~~~gI~lLe~~~~~~-p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ieP  104 (124)
T d2pqrb1          52 NDERLGVKILTDIYKEA-ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHER  104 (124)
T ss_dssp             HHHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHHHhcC-chhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHccCC
Confidence            56778999999998753 2233 4556777889999999999999999886543

>d2d2sa1 a.118.17.2 (A:525-753) Exocyst complex component EXO84 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Cullin repeat-like
family: Exocyst complex component
domain: Exocyst complex component EXO84
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=85.13  E-value=4.6  Score=28.28  Aligned_cols=22  Identities=18%  Similarity=0.131  Sum_probs=16.0

Q ss_pred             HHHHHHccCCHHHHHHHHHHHH
Q 023915           71 LIKYFCKEKMYILAYRTMVDMH   92 (275)
Q Consensus        71 li~~~~~~~~~~~a~~~~~~m~   92 (275)
                      =++.+...+++++|++++++..
T Consensus        18 ~LDv~Ia~~~feeAl~ll~~~e   39 (229)
T d2d2sa1          18 EIDIELARLRFESAVETLLDIE   39 (229)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHccHHHHHHHHHHHH
Confidence            3667777888888888776654

>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=82.75  E-value=4  Score=25.69  Aligned_cols=67  Identities=10%  Similarity=0.101  Sum_probs=40.9

Q ss_pred             hHHHHHHHHHhccchHHHHHHHHHhhcCCChh--HHHHHHHHHHhcCCh--hHHHHHHHHHHHcCCCCChh
Q 023915          137 LHEKILHILISGKLLKDAYVVVKDNSESISHP--AIKKFASAFVRLGNI--NLVNDVMKAIHATGYRIDQG  203 (275)
Q Consensus       137 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~li~~~~~~~~~--~~a~~~~~~m~~~g~~p~~~  203 (275)
                      -...++.-|...++.++|...++++......+  .+..+..++-+.+.-  +.+..++..+...|+-+...
T Consensus         9 k~~~ll~EY~~~~D~~Ea~~~l~eL~~p~~~~e~V~~~i~~ale~~~~~r~~~~~~Ll~~L~~~~~is~~~   79 (129)
T d2nsza1           9 EIDMLLKEYLLSGDISEAEHCLKELEVPHFHHELVYEAIVMVLESTGESAFKMILDLLKSLWKSSTITIDQ   79 (129)
T ss_dssp             HHHHHHHHHHHHCCHHHHHHHHHHHTCGGGHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHTTCSCHHH
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHcCCchhhHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHCCCCCHHH
Confidence            45678888888899999888888875321112  223333444444433  34566888888776544433