Citrus Sinensis ID: 046694

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------12
Protein Sequence
MIEPRLDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQKAR
Secondary Structure (PSIPRED)
ccHHHHHHHHHcccHHHHHHHHcccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHcccccccHHHHHHHHHcccccHHHHHHHHHHHHHHccccccccHHHHHHHHHHccccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHHHcccHHHHHHHHHHcccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccccc
Coil and Loop (DISEMBL)
mieprldfytrtgriDLANKIfdrlpvkdsaSWITLILGYGMLGELDVAINLFEAMRedgveyypvsHIGVLTacslgglvekGKKFFDEMqarnvkptetHYACMVYLLIKYNQKAR
Flexible Loop (DISEMBL)
mieprldfytrtgridlankifdrlpvkdSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQArnvkptethyACMVYLLIKYNQKAR
Low Complexity Region (SEG)
MIEPRLDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQKAR
Disordered region (IsUnstruct)
*****LDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKY*****
Disordered Region (DISOPRED)
MIEPRLDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQK**
Disordered Region (DISEMBL)
MIEPRLDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQKAR
Disordered Region (DISPRO)
MIEPRLDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQKA*
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MIEPRLDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQKAR
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	118	2.2.26 [Sep-21-2011]
Q9STF3	657	Pentatricopeptide repeat-	yes	no	0.974	0.175	0.405	5e-19
Q3ECB8	467	Pentatricopeptide repeat-	no	no	0.974	0.246	0.387	2e-18
Q3E9N1	775	Pentatricopeptide repeat-	no	no	0.898	0.136	0.392	4e-18
Q9LUS3	654	Pentatricopeptide repeat-	no	no	0.906	0.163	0.394	5e-18
Q9SN39	871	Pentatricopeptide repeat-	no	no	0.906	0.122	0.416	7e-18
Q9ZVF4	584	Pentatricopeptide repeat-	no	no	0.898	0.181	0.394	8e-18
Q9LW32	659	Pentatricopeptide repeat-	no	no	0.889	0.159	0.424	9e-18
Q9LFI1	768	Pentatricopeptide repeat-	no	no	0.906	0.139	0.416	9e-18
Q9FI80	646	Pentatricopeptide repeat-	no	no	0.889	0.162	0.405	1e-17
Q0WN60	970	Pentatricopeptide repeat-	no	no	0.932	0.113	0.378	3e-17

>sp|Q9STF3|PP265_ARATH Pentatricopeptide repeat-containing protein At3g46790, chloroplastic OS=Arabidopsis thaliana GN=CRR2 PE=2 SV=1

 Score = 93.2 bits (230), Expect = 5e-19,   Method: Compositional matrix adjust.
 Identities = 47/116 (40%), Positives = 70/116 (60%), Gaps = 1/116 (0%)

Query: 1   MIEPRLDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDG 60
           +I   +  Y R G++++  ++FDR+  +D  SW +LI  YG+ G    AI +FE M  +G
Sbjct: 322 VISALVTMYGRCGKLEVGQRVFDRMHDRDVVSWNSLISSYGVHGYGKKAIQIFEEMLANG 381

Query: 61  VEYYPVSHIGVLTACSLGGLVEKGKKFFDEM-QARNVKPTETHYACMVYLLIKYNQ 115
               PV+ + VL ACS  GLVE+GK+ F+ M +   +KP   HYACMV LL + N+
Sbjct: 382 ASPTPVTFVSVLGACSHEGLVEEGKRLFETMWRDHGIKPQIEHYACMVDLLGRANR 437

Required for the intergenic processing between chloroplast rsp7 and ndhB transcripts.
Arabidopsis thaliana (taxid: 3702)

>sp|Q3ECB8|PP128_ARATH Pentatricopeptide repeat-containing protein At1g77170 OS=Arabidopsis thaliana GN=PCMP-E21 PE=2 SV=1

 Score = 90.9 bits (224), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 45/116 (38%), Positives = 71/116 (61%), Gaps = 1/116 (0%)

Query: 1   MIEPRLDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDG 60
           M+   +D Y + GR+DLA+ IF+ +  ++  SW ++I+GY   G    A+  F  MRE G
Sbjct: 257 MLNSLIDMYGKCGRMDLASHIFEEMRQRNVVSWSSMIVGYAANGNTLEALECFRQMREFG 316

Query: 61  VEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQAR-NVKPTETHYACMVYLLIKYNQ 115
           V    ++ +GVL+AC  GGLVE+GK +F  M++   ++P  +HY C+V LL +  Q
Sbjct: 317 VRPNKITFVGVLSACVHGGLVEEGKTYFAMMKSEFELEPGLSHYGCIVDLLSRDGQ 372

Arabidopsis thaliana (taxid: 3702)

>sp|Q3E9N1|PP359_ARATH Pentatricopeptide repeat-containing protein At4g39952, mitochondrial OS=Arabidopsis thaliana GN=PCMP-E98 PE=2 SV=2

 Score = 90.1 bits (222), Expect = 4e-18,   Method: Compositional matrix adjust.
 Identities = 42/107 (39%), Positives = 67/107 (62%)

Query: 6   LDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYP 65
           +D Y + G ++ + ++FD    KD+  W  +I GYGM G+++ AI LF+ M E  V+   
Sbjct: 575 IDMYAKCGHLEKSRELFDAGNQKDAVCWNVMISGYGMHGDVESAIALFDQMEESDVKPTG 634

Query: 66  VSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIK 112
            + + +L+AC+  GLVE+GKK F +M   +VKP   HY+C+V LL +
Sbjct: 635 PTFLALLSACTHAGLVEQGKKLFLKMHQYDVKPNLKHYSCLVDLLSR 681

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LUS3|PP237_ARATH Pentatricopeptide repeat-containing protein At3g16610 OS=Arabidopsis thaliana GN=PCMP-E91 PE=2 SV=1

 Score = 89.7 bits (221), Expect = 5e-18,   Method: Compositional matrix adjust.
 Identities = 43/109 (39%), Positives = 69/109 (63%), Gaps = 2/109 (1%)

Query: 6   LDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYP 65
           +D YT+ G++D+A ++FD +  +D  SW T++ G+G+ G    A++LF +M+E GV    
Sbjct: 451 MDMYTKCGKLDVAKRVFDTMHKRDIVSWNTMLFGFGIHGLGKEALSLFNSMQETGVNPDE 510

Query: 66  VSHIGVLTACSLGGLVEKGKKFFDEMQAR--NVKPTETHYACMVYLLIK 112
           V+ + +L+ACS  GLV++GK+ F+ M     NV P   HY CM  LL +
Sbjct: 511 VTLLAILSACSHSGLVDEGKQLFNSMSRGDFNVIPRIDHYNCMTDLLAR 559

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SN39|PP320_ARATH Pentatricopeptide repeat-containing protein At4g18750, chloroplastic OS=Arabidopsis thaliana GN=PCMP-H45 PE=2 SV=1

 Score = 89.4 bits (220), Expect = 7e-18,   Method: Compositional matrix adjust.
 Identities = 45/108 (41%), Positives = 67/108 (62%), Gaps = 1/108 (0%)

Query: 6   LDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYP 65
           +D Y + G + LA+ +FD +  KD  SW  +I GYGM G    AI LF  MR+ G+E   
Sbjct: 541 VDMYAKCGALLLAHMLFDDIASKDLVSWTVMIAGYGMHGFGKEAIALFNQMRQAGIEADE 600

Query: 66  VSHIGVLTACSLGGLVEKGKKFFDEMQAR-NVKPTETHYACMVYLLIK 112
           +S + +L ACS  GLV++G +FF+ M+    ++PT  HYAC+V +L +
Sbjct: 601 ISFVSLLYACSHSGLVDEGWRFFNIMRHECKIEPTVEHYACIVDMLAR 648

Arabidopsis thaliana (taxid: 3702)

>sp|Q9ZVF4|PP140_ARATH Pentatricopeptide repeat-containing protein At2g01510, mitochondrial OS=Arabidopsis thaliana GN=PCMP-H37 PE=3 SV=1

 Score = 89.0 bits (219), Expect = 8e-18,   Method: Compositional matrix adjust.
 Identities = 43/109 (39%), Positives = 68/109 (62%), Gaps = 3/109 (2%)

Query: 5   RLDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYY 64
           RLD + + G  + A  +F+ +  ++  SW T+I+GY M G+   A+ LF  M+ +G+   
Sbjct: 251 RLDMHLKCGNTEAARVLFEEMKQRNVVSWSTMIVGYAMNGDSREALTLFTTMQNEGLRPN 310

Query: 65  PVSHIGVLTACSLGGLVEKGKKFFDEM---QARNVKPTETHYACMVYLL 110
            V+ +GVL+ACS  GLV +GK++F  M     +N++P + HYACMV LL
Sbjct: 311 YVTFLGVLSACSHAGLVNEGKRYFSLMVQSNDKNLEPRKEHYACMVDLL 359

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LW32|PP258_ARATH Pentatricopeptide repeat-containing protein At3g26782, mitochondrial OS=Arabidopsis thaliana GN=PCMP-H34 PE=2 SV=1

 Score = 89.0 bits (219), Expect = 9e-18,   Method: Compositional matrix adjust.
 Identities = 45/106 (42%), Positives = 63/106 (59%), Gaps = 1/106 (0%)

Query: 6   LDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYP 65
           +D Y + GR++ A K FDR+  K+  SW  +I GYGM G    A+ LF AM + GV    
Sbjct: 329 IDMYCKCGRVETARKAFDRMKNKNVRSWTAMIAGYGMHGHAAKALELFPAMIDSGVRPNY 388

Query: 66  VSHIGVLTACSLGGLVEKGKKFFDEMQAR-NVKPTETHYACMVYLL 110
           ++ + VL ACS  GL  +G ++F+ M+ R  V+P   HY CMV LL
Sbjct: 389 ITFVSVLAACSHAGLHVEGWRWFNAMKGRFGVEPGLEHYGCMVDLL 434

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LFI1|PP280_ARATH Pentatricopeptide repeat-containing protein At3g53360, mitochondrial OS=Arabidopsis thaliana GN=PCMP-E86 PE=2 SV=1

 Score = 89.0 bits (219), Expect = 9e-18,   Method: Compositional matrix adjust.
 Identities = 45/108 (41%), Positives = 67/108 (62%), Gaps = 1/108 (0%)

Query: 6   LDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYP 65
           +D Y + G +  A +IFD +  +D  SW TLI+GY   G  + A+ LF+ M+  G+E   
Sbjct: 515 IDMYAKCGSLGQARRIFDSMDNRDVVSWSTLIVGYAQSGFGEEALILFKEMKSAGIEPNH 574

Query: 66  VSHIGVLTACSLGGLVEKGKKFFDEMQARN-VKPTETHYACMVYLLIK 112
           V+ +GVLTACS  GLVE+G K +  MQ  + + PT+ H +C+V LL +
Sbjct: 575 VTFVGVLTACSHVGLVEEGLKLYATMQTEHGISPTKEHCSCVVDLLAR 622

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FI80|PP425_ARATH Pentatricopeptide repeat-containing protein At5g48910 OS=Arabidopsis thaliana GN=PCMP-H38 PE=2 SV=1

 Score = 88.2 bits (217), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 43/106 (40%), Positives = 68/106 (64%), Gaps = 1/106 (0%)

Query: 6   LDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYP 65
           +D Y++ G I+ A  +F+RLP ++  +W  +I G+ + G+   AI+ F  MR+ GV    
Sbjct: 316 IDMYSKCGIIEKAIHVFERLPRENVITWSAMINGFAIHGQAGDAIDCFCKMRQAGVRPSD 375

Query: 66  VSHIGVLTACSLGGLVEKGKKFFDEM-QARNVKPTETHYACMVYLL 110
           V++I +LTACS GGLVE+G+++F +M     ++P   HY CMV LL
Sbjct: 376 VAYINLLTACSHGGLVEEGRRYFSQMVSVDGLEPRIEHYGCMVDLL 421

Arabidopsis thaliana (taxid: 3702)

>sp|Q0WN60|PPR48_ARATH Pentatricopeptide repeat-containing protein At1g18485 OS=Arabidopsis thaliana GN=PCMP-H8 PE=2 SV=2

 Score = 87.0 bits (214), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 42/111 (37%), Positives = 69/111 (62%), Gaps = 1/111 (0%)

Query: 6   LDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYP 65
           +D Y + G I  ++K+F+ L  K +ASW  +I+GYG+ G    AI LFE M+  G     
Sbjct: 639 IDMYAKNGSITQSSKVFNGLKEKSTASWNAMIMGYGIHGLAKEAIKLFEEMQRTGHNPDD 698

Query: 66  VSHIGVLTACSLGGLVEKGKKFFDEMQAR-NVKPTETHYACMVYLLIKYNQ 115
           ++ +GVLTAC+  GL+ +G ++ D+M++   +KP   HYAC++ +L +  Q
Sbjct: 699 LTFLGVLTACNHSGLIHEGLRYLDQMKSSFGLKPNLKHYACVIDMLGRAGQ 749

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	118
224103989	680	predicted protein [Populus trichocarpa]	0.881	0.152	0.685	8e-38
297742828	638	unnamed protein product [Vitis vinifera]	0.881	0.163	0.685	2e-35
356519887	813	PREDICTED: pentatricopeptide repeat-cont	0.881	0.127	0.676	1e-33
449445027	833	PREDICTED: pentatricopeptide repeat-cont	0.881	0.124	0.609	1e-31
449524410	684	PREDICTED: pentatricopeptide repeat-cont	0.881	0.152	0.609	1e-31
413946224	778	hypothetical protein ZEAMMB73_227843 [Ze	0.923	0.140	0.572	4e-31
242091211	771	hypothetical protein SORBIDRAFT_09g02670	0.906	0.138	0.572	1e-30
125579001	601	hypothetical protein OsJ_35746 [Oryza sa	0.949	0.186	0.539	2e-29
77554180	780	pentatricopeptide, putative, expressed [	0.949	0.143	0.539	3e-29
357154827	735	PREDICTED: pentatricopeptide repeat-cont	0.923	0.148	0.527	1e-27

>gi|224103989|ref|XP_002313273.1| predicted protein [Populus trichocarpa] gi|222849681|gb|EEE87228.1| predicted protein [Populus trichocarpa]

 Score =  160 bits (406), Expect = 8e-38,   Method: Compositional matrix adjust.
 Identities = 72/105 (68%), Positives = 90/105 (85%)

Query: 6   LDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYP 65
           LDFY + GRIDLA K+F ++P +D+ASW ++ILGYGMLGEL +AINLFEAM+EDGVEY  
Sbjct: 453 LDFYIKCGRIDLAGKVFRQIPSRDTASWNSMILGYGMLGELTIAINLFEAMKEDGVEYDS 512

Query: 66  VSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLL 110
           VS+I VL+ACS GGLVE+GKK+F+ MQ +N+KPT+ HYACMV LL
Sbjct: 513 VSYIAVLSACSHGGLVEEGKKYFEHMQVQNIKPTQMHYACMVDLL 557

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297742828|emb|CBI35582.3| unnamed protein product [Vitis vinifera]

 Score =  152 bits (385), Expect = 2e-35,   Method: Compositional matrix adjust.
 Identities = 72/105 (68%), Positives = 86/105 (81%)

Query: 6   LDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYP 65
           LDFYT+ GRI LA  IFDR+  KD ASW T+ILGYGMLGELD AI+LFE MR+D VEY  
Sbjct: 386 LDFYTKCGRIGLARNIFDRMTNKDVASWNTMILGYGMLGELDTAIDLFENMRKDDVEYDS 445

Query: 66  VSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLL 110
           VS I VL+ACS GGL+EKG+K+FDE++AR ++PT+ HYACMV LL
Sbjct: 446 VSFIAVLSACSHGGLLEKGRKYFDELKARGIEPTQMHYACMVDLL 490

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356519887|ref|XP_003528600.1| PREDICTED: pentatricopeptide repeat-containing protein At3g57430, chloroplastic-like [Glycine max]

 Score =  147 bits (370), Expect = 1e-33,   Method: Compositional matrix adjust.
 Identities = 71/105 (67%), Positives = 82/105 (78%)

Query: 6   LDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYP 65
           LD YTR GRIDLA K+F  +  KD ASW T+ILGYGM GELD AINLFEAM+EDGVEY  
Sbjct: 585 LDLYTRCGRIDLATKVFYCIQNKDVASWNTMILGYGMRGELDTAINLFEAMKEDGVEYDS 644

Query: 66  VSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLL 110
           VS + VL+ACS GGL+EKG+K+F  M   N++PT THYACMV LL
Sbjct: 645 VSFVAVLSACSHGGLIEKGRKYFKMMCDLNIEPTHTHYACMVDLL 689

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449445027|ref|XP_004140275.1| PREDICTED: pentatricopeptide repeat-containing protein At4g18750, chloroplastic-like [Cucumis sativus]

 Score =  140 bits (352), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 64/105 (60%), Positives = 86/105 (81%)

Query: 6   LDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYP 65
           LDFYT+ GRID+A ++F+++  KD ASW T+ILGYGM+GEL+ AI++FEAMR+D V+Y  
Sbjct: 605 LDFYTKCGRIDIACRLFNQILFKDVASWNTMILGYGMIGELETAISMFEAMRDDTVQYDL 664

Query: 66  VSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLL 110
           VS+I VL+ACS GGLVE+G ++F EM A+ ++PTE HY CMV LL
Sbjct: 665 VSYIAVLSACSHGGLVERGWQYFSEMLAQRLEPTEMHYTCMVDLL 709

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449524410|ref|XP_004169216.1| PREDICTED: pentatricopeptide repeat-containing protein At4g18750, chloroplastic-like [Cucumis sativus]

 Score =  140 bits (352), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 64/105 (60%), Positives = 86/105 (81%)

Query: 6   LDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYP 65
           LDFYT+ GRID+A ++F+++  KD ASW T+ILGYGM+GEL+ AI++FEAMR+D V+Y  
Sbjct: 456 LDFYTKCGRIDIACRLFNQILFKDVASWNTMILGYGMIGELETAISMFEAMRDDTVQYDL 515

Query: 66  VSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLL 110
           VS+I VL+ACS GGLVE+G ++F EM A+ ++PTE HY CMV LL
Sbjct: 516 VSYIAVLSACSHGGLVERGWQYFSEMLAQRLEPTEMHYTCMVDLL 560

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|413946224|gb|AFW78873.1| hypothetical protein ZEAMMB73_227843 [Zea mays]

 Score =  138 bits (348), Expect = 4e-31,   Method: Compositional matrix adjust.
 Identities = 63/110 (57%), Positives = 85/110 (77%)

Query: 6   LDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYP 65
           LD YT+ G +D A+KIF+R+  KD ASW T+ILGYGM G++DVA  LF+ M++DG+EY  
Sbjct: 564 LDVYTKGGMLDTASKIFNRITQKDVASWNTMILGYGMHGQIDVAFELFDLMKDDGIEYDH 623

Query: 66  VSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQ 115
           VS+I VL+ CS GGLV++GKK+F +M A+N+KP + HYACMV LL +  Q
Sbjct: 624 VSYIAVLSVCSHGGLVDRGKKYFSQMIAQNIKPQQMHYACMVDLLGRAGQ 673

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|242091211|ref|XP_002441438.1| hypothetical protein SORBIDRAFT_09g026705 [Sorghum bicolor] gi|241946723|gb|EES19868.1| hypothetical protein SORBIDRAFT_09g026705 [Sorghum bicolor]

 Score =  137 bits (344), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 63/110 (57%), Positives = 85/110 (77%)

Query: 6   LDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYP 65
           LD YT+ G +  A+KIF+R+  KD ASW T+ILGYGM G++DVA  LF+ M++DGV+Y  
Sbjct: 557 LDLYTKGGMLATASKIFNRITRKDVASWNTMILGYGMHGQIDVAFELFDLMKDDGVDYDH 616

Query: 66  VSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQ 115
           VS+I VL+ACS GGLV++GKK+F +M A+N+KP + HYACMV LL +  Q
Sbjct: 617 VSYIAVLSACSHGGLVDRGKKYFSQMIAQNIKPQQMHYACMVDLLGRAGQ 666

Source: Sorghum bicolor

Species: Sorghum bicolor

Genus: Sorghum

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|125579001|gb|EAZ20147.1| hypothetical protein OsJ_35746 [Oryza sativa Japonica Group]

 Score =  132 bits (333), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 61/113 (53%), Positives = 85/113 (75%)

Query: 6   LDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYP 65
           LD YT+ G +  A+KIF+++  KD ASW T+ILGYGM G++D+A  LFE M+ DG++Y  
Sbjct: 385 LDLYTKGGMLVTASKIFNKITKKDVASWNTMILGYGMHGQIDIAFELFELMKGDGLDYDH 444

Query: 66  VSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQKAR 118
           VS+I VL ACS GGLV+KGKK+F +M A+N++P + HYACMV LL +  Q ++
Sbjct: 445 VSYIAVLAACSHGGLVDKGKKYFSQMVAQNIEPQQMHYACMVDLLGRAGQLSK 497

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|77554180|gb|ABA96976.1| pentatricopeptide, putative, expressed [Oryza sativa Japonica Group]

 Score =  132 bits (332), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 61/113 (53%), Positives = 85/113 (75%)

Query: 6   LDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYP 65
           LD YT+ G +  A+KIF+++  KD ASW T+ILGYGM G++D+A  LFE M+ DG++Y  
Sbjct: 564 LDLYTKGGMLVTASKIFNKITKKDVASWNTMILGYGMHGQIDIAFELFELMKGDGLDYDH 623

Query: 66  VSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQKAR 118
           VS+I VL ACS GGLV+KGKK+F +M A+N++P + HYACMV LL +  Q ++
Sbjct: 624 VSYIAVLAACSHGGLVDKGKKYFSQMVAQNIEPQQMHYACMVDLLGRAGQLSK 676

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357154827|ref|XP_003576915.1| PREDICTED: pentatricopeptide repeat-containing protein At1g18485-like, partial [Brachypodium distachyon]

 Score =  126 bits (317), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 58/110 (52%), Positives = 80/110 (72%)

Query: 6   LDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYP 65
           L  YT+ G +D A+KIF+R+  KD ASW  +I+GYGM G++D A +LF+ M++ GV Y  
Sbjct: 521 LGLYTKGGMLDTASKIFNRIKEKDVASWNNMIMGYGMHGQIDAAFHLFDLMKDHGVTYDH 580

Query: 66  VSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQ 115
           VS+I VL+ CS GGLVE+GKK+F  M A+N++P + HYACMV LL +  Q
Sbjct: 581 VSYIAVLSVCSHGGLVERGKKYFSHMLAQNLEPQQMHYACMVDLLGRSGQ 630

Source: Brachypodium distachyon

Species: Brachypodium distachyon

Genus: Brachypodium

Family: Poaceae

Order: Poales

Class: Liliopsida

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	118
TAIR|locus:2195980	467	AT1G77170 "AT1G77170" [Arabido	0.974	0.246	0.387	2.3e-17
TAIR|locus:2102852	657	CRR2 "AT3G46790" [Arabidopsis	0.974	0.175	0.405	2.4e-17
TAIR|locus:2089333	654	AT3G16610 "AT3G16610" [Arabido	0.906	0.163	0.394	6.3e-17
TAIR|locus:2049562	584	AT2G01510 "AT2G01510" [Arabido	0.898	0.181	0.403	6.5e-17
TAIR|locus:2124137	871	DOT4 "DEFECTIVELY ORGANIZED TR	0.906	0.122	0.416	1e-16
TAIR|locus:2083961	768	AT3G53360 "AT3G53360" [Arabido	0.906	0.139	0.416	1.1e-16
TAIR|locus:4010713776	659	AT3G26782 [Arabidopsis thalian	0.949	0.169	0.417	1.3e-16
TAIR|locus:2018668	520	AT1G28690 [Arabidopsis thalian	0.889	0.201	0.415	2.3e-16
TAIR|locus:505006130	970	AT1G18485 [Arabidopsis thalian	0.932	0.113	0.378	3.2e-16
TAIR|locus:2154389	646	LPA66 "LOW PSII ACCUMULATION 6	0.889	0.162	0.405	3.5e-16

TAIR|locus:2195980 AT1G77170 "AT1G77170" [Arabidopsis thaliana (taxid:3702)]

 Score = 219 (82.2 bits), Expect = 2.3e-17, P = 2.3e-17
 Identities = 45/116 (38%), Positives = 71/116 (61%)

Query:     1 MIEPRLDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDG 60
             M+   +D Y + GR+DLA+ IF+ +  ++  SW ++I+GY   G    A+  F  MRE G
Sbjct:   257 MLNSLIDMYGKCGRMDLASHIFEEMRQRNVVSWSSMIVGYAANGNTLEALECFRQMREFG 316

Query:    61 VEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQAR-NVKPTETHYACMVYLLIKYNQ 115
             V    ++ +GVL+AC  GGLVE+GK +F  M++   ++P  +HY C+V LL +  Q
Sbjct:   317 VRPNKITFVGVLSACVHGGLVEEGKTYFAMMKSEFELEPGLSHYGCIVDLLSRDGQ 372

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2102852 CRR2 "AT3G46790" [Arabidopsis thaliana (taxid:3702)]

 Score = 222 (83.2 bits), Expect = 2.4e-17, P = 2.4e-17
 Identities = 47/116 (40%), Positives = 70/116 (60%)

Query:     1 MIEPRLDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDG 60
             +I   +  Y R G++++  ++FDR+  +D  SW +LI  YG+ G    AI +FE M  +G
Sbjct:   322 VISALVTMYGRCGKLEVGQRVFDRMHDRDVVSWNSLISSYGVHGYGKKAIQIFEEMLANG 381

Query:    61 VEYYPVSHIGVLTACSLGGLVEKGKKFFDEM-QARNVKPTETHYACMVYLLIKYNQ 115
                 PV+ + VL ACS  GLVE+GK+ F+ M +   +KP   HYACMV LL + N+
Sbjct:   382 ASPTPVTFVSVLGACSHEGLVEEGKRLFETMWRDHGIKPQIEHYACMVDLLGRANR 437

GO:0009507 "chloroplast" evidence=ISS

GO:0031425 "chloroplast RNA processing" evidence=IMP

GO:0031426 "polycistronic mRNA processing" evidence=IMP

GO:0000398 "mRNA splicing, via spliceosome" evidence=RCA

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

GO:0030422 "production of siRNA involved in RNA interference" evidence=RCA

GO:0035196 "production of miRNAs involved in gene silencing by miRNA" evidence=RCA

GO:0043687 "post-translational protein modification" evidence=RCA

GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=RCA

TAIR|locus:2089333 AT3G16610 "AT3G16610" [Arabidopsis thaliana (taxid:3702)]

 Score = 218 (81.8 bits), Expect = 6.3e-17, P = 6.3e-17
 Identities = 43/109 (39%), Positives = 69/109 (63%)

Query:     6 LDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYP 65
             +D YT+ G++D+A ++FD +  +D  SW T++ G+G+ G    A++LF +M+E GV    
Sbjct:   451 MDMYTKCGKLDVAKRVFDTMHKRDIVSWNTMLFGFGIHGLGKEALSLFNSMQETGVNPDE 510

Query:    66 VSHIGVLTACSLGGLVEKGKKFFDEMQAR--NVKPTETHYACMVYLLIK 112
             V+ + +L+ACS  GLV++GK+ F+ M     NV P   HY CM  LL +
Sbjct:   511 VTLLAILSACSHSGLVDEGKQLFNSMSRGDFNVIPRIDHYNCMTDLLAR 559

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0006302 "double-strand break repair" evidence=RCA

GO:0006312 "mitotic recombination" evidence=RCA

GO:0007062 "sister chromatid cohesion" evidence=RCA

GO:0007129 "synapsis" evidence=RCA

GO:0007131 "reciprocal meiotic recombination" evidence=RCA

GO:0042138 "meiotic DNA double-strand break formation" evidence=RCA

GO:0045132 "meiotic chromosome segregation" evidence=RCA

TAIR|locus:2049562 AT2G01510 "AT2G01510" [Arabidopsis thaliana (taxid:3702)]

 Score = 217 (81.4 bits), Expect = 6.5e-17, P = 6.5e-17
 Identities = 44/109 (40%), Positives = 70/109 (64%)

Query:     5 RLDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYY 64
             RLD + + G  + A  +F+ +  ++  SW T+I+GY M G+   A+ LF  M+ +G+   
Sbjct:   251 RLDMHLKCGNTEAARVLFEEMKQRNVVSWSTMIVGYAMNGDSREALTLFTTMQNEGLRPN 310

Query:    65 PVSHIGVLTACSLGGLVEKGKKFFDEM-QA--RNVKPTETHYACMVYLL 110
              V+ +GVL+ACS  GLV +GK++F  M Q+  +N++P + HYACMV LL
Sbjct:   311 YVTFLGVLSACSHAGLVNEGKRYFSLMVQSNDKNLEPRKEHYACMVDLL 359

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2124137 DOT4 "DEFECTIVELY ORGANIZED TRIBUTARIES 4" [Arabidopsis thaliana (taxid:3702)]

 Score = 218 (81.8 bits), Expect = 1.0e-16, P = 1.0e-16
 Identities = 45/108 (41%), Positives = 67/108 (62%)

Query:     6 LDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYP 65
             +D Y + G + LA+ +FD +  KD  SW  +I GYGM G    AI LF  MR+ G+E   
Sbjct:   541 VDMYAKCGALLLAHMLFDDIASKDLVSWTVMIAGYGMHGFGKEAIALFNQMRQAGIEADE 600

Query:    66 VSHIGVLTACSLGGLVEKGKKFFDEMQAR-NVKPTETHYACMVYLLIK 112
             +S + +L ACS  GLV++G +FF+ M+    ++PT  HYAC+V +L +
Sbjct:   601 ISFVSLLYACSHSGLVDEGWRFFNIMRHECKIEPTVEHYACIVDMLAR 648

GO:0009507 "chloroplast" evidence=ISM

GO:0010087 "phloem or xylem histogenesis" evidence=IMP

GO:0010305 "leaf vascular tissue pattern formation" evidence=IMP

GO:0010588 "cotyledon vascular tissue pattern formation" evidence=IMP

GO:0048366 "leaf development" evidence=IMP

TAIR|locus:2083961 AT3G53360 "AT3G53360" [Arabidopsis thaliana (taxid:3702)]

 Score = 217 (81.4 bits), Expect = 1.1e-16, P = 1.1e-16
 Identities = 45/108 (41%), Positives = 67/108 (62%)

Query:     6 LDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYP 65
             +D Y + G +  A +IFD +  +D  SW TLI+GY   G  + A+ LF+ M+  G+E   
Sbjct:   515 IDMYAKCGSLGQARRIFDSMDNRDVVSWSTLIVGYAQSGFGEEALILFKEMKSAGIEPNH 574

Query:    66 VSHIGVLTACSLGGLVEKGKKFFDEMQARN-VKPTETHYACMVYLLIK 112
             V+ +GVLTACS  GLVE+G K +  MQ  + + PT+ H +C+V LL +
Sbjct:   575 VTFVGVLTACSHVGLVEEGLKLYATMQTEHGISPTKEHCSCVVDLLAR 622

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:4010713776 AT3G26782 [Arabidopsis thaliana (taxid:3702)]

 Score = 215 (80.7 bits), Expect = 1.3e-16, P = 1.3e-16
 Identities = 48/115 (41%), Positives = 68/115 (59%)

Query:     6 LDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYP 65
             +D Y + GR++ A K FDR+  K+  SW  +I GYGM G    A+ LF AM + GV    
Sbjct:   329 IDMYCKCGRVETARKAFDRMKNKNVRSWTAMIAGYGMHGHAAKALELFPAMIDSGVRPNY 388

Query:    66 VSHIGVLTACSLGGLVEKGKKFFDEMQAR-NVKPTETHYACMVYLLIK--YNQKA 117
             ++ + VL ACS  GL  +G ++F+ M+ R  V+P   HY CMV LL +  + QKA
Sbjct:   389 ITFVSVLAACSHAGLHVEGWRWFNAMKGRFGVEPGLEHYGCMVDLLGRAGFLQKA 443

GO:0005739 "mitochondrion" evidence=ISM;IDA

TAIR|locus:2018668 AT1G28690 [Arabidopsis thaliana (taxid:3702)]

 Score = 211 (79.3 bits), Expect = 2.3e-16, P = 2.3e-16
 Identities = 44/106 (41%), Positives = 67/106 (63%)

Query:     6 LDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYP 65
             LD Y + G I+ A ++FD++  K+  SW ++I GYG  G  + A+ LF  M+E  +E   
Sbjct:   315 LDMYAKCGGINDARRVFDQMQEKNVFSWTSMIDGYGKNGNPEEALELFTRMKEFRIEPNY 374

Query:    66 VSHIGVLTACSLGGLVEKGKKFFDEMQAR-NVKPTETHYACMVYLL 110
             V+ +G L+ACS  GLV+KG + F+ MQ   ++KP   HYAC+V L+
Sbjct:   375 VTFLGALSACSHSGLVDKGYEIFESMQRDYSMKPKMEHYACIVDLM 420

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:505006130 AT1G18485 [Arabidopsis thaliana (taxid:3702)]

 Score = 214 (80.4 bits), Expect = 3.2e-16, P = 3.2e-16
 Identities = 42/111 (37%), Positives = 69/111 (62%)

Query:     6 LDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYP 65
             +D Y + G I  ++K+F+ L  K +ASW  +I+GYG+ G    AI LFE M+  G     
Sbjct:   639 IDMYAKNGSITQSSKVFNGLKEKSTASWNAMIMGYGIHGLAKEAIKLFEEMQRTGHNPDD 698

Query:    66 VSHIGVLTACSLGGLVEKGKKFFDEMQAR-NVKPTETHYACMVYLLIKYNQ 115
             ++ +GVLTAC+  GL+ +G ++ D+M++   +KP   HYAC++ +L +  Q
Sbjct:   699 LTFLGVLTACNHSGLIHEGLRYLDQMKSSFGLKPNLKHYACVIDMLGRAGQ 749

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0016556 "mRNA modification" evidence=RCA

TAIR|locus:2154389 LPA66 "LOW PSII ACCUMULATION 66" [Arabidopsis thaliana (taxid:3702)]

 Score = 211 (79.3 bits), Expect = 3.5e-16, P = 3.5e-16
 Identities = 43/106 (40%), Positives = 68/106 (64%)

Query:     6 LDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYP 65
             +D Y++ G I+ A  +F+RLP ++  +W  +I G+ + G+   AI+ F  MR+ GV    
Sbjct:   316 IDMYSKCGIIEKAIHVFERLPRENVITWSAMINGFAIHGQAGDAIDCFCKMRQAGVRPSD 375

Query:    66 VSHIGVLTACSLGGLVEKGKKFFDEM-QARNVKPTETHYACMVYLL 110
             V++I +LTACS GGLVE+G+++F +M     ++P   HY CMV LL
Sbjct:   376 VAYINLLTACSHGGLVEEGRRYFSQMVSVDGLEPRIEHYGCMVDLL 421

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0009451 "RNA modification" evidence=IMP

GO:0007020 "microtubule nucleation" evidence=RCA

---

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: eugene3.00090980 hypothetical protein (680 aa) (Populus trichocarpa)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	118
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-25
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-16
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	8e-09
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-08
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	8e-08
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-05
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	6e-04
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	7e-04
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	9e-04
pfam01535	31	pfam01535, PPR, PPR repeat	0.002
pfam13041	50	pfam13041, PPR_2, PPR repeat family	0.004

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

 Score = 99.6 bits (248), Expect = 1e-25
 Identities = 44/106 (41%), Positives = 63/106 (59%), Gaps = 1/106 (0%)

Query: 6   LDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYP 65
           +D Y++ GR++ A  +FDR+P K+  SW  LI GYG  G    A+ +FE M  +GV    
Sbjct: 367 VDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNH 426

Query: 66  VSHIGVLTACSLGGLVEKGKKFFDEM-QARNVKPTETHYACMVYLL 110
           V+ + VL+AC   GL E+G + F  M +   +KP   HYACM+ LL
Sbjct: 427 VTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELL 472

Length = 697

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

 Score = 74.1 bits (182), Expect = 1e-16
 Identities = 42/106 (39%), Positives = 60/106 (56%), Gaps = 2/106 (1%)

Query: 6   LDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYP 65
           LD Y R GR++ A   F+    KD  SW  L+ GY   G+  +A+ LF  M E GV    
Sbjct: 531 LDLYVRCGRMNYAWNQFN-SHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDE 589

Query: 66  VSHIGVLTACSLGGLVEKGKKFFDEMQAR-NVKPTETHYACMVYLL 110
           V+ I +L ACS  G+V +G ++F  M+ + ++ P   HYAC+V LL
Sbjct: 590 VTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLL 635

Length = 857

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

 Score = 51.8 bits (124), Expect = 8e-09
 Identities = 26/78 (33%), Positives = 39/78 (50%)

Query: 9   YTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSH 68
           Y   G    A K+F R+  KD+ SW  +I GY   G  D A+  +  M +D V    ++ 
Sbjct: 333 YLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITI 392

Query: 69  IGVLTACSLGGLVEKGKK 86
             VL+AC+  G ++ G K
Sbjct: 393 ASVLSACACLGDLDVGVK 410

Length = 857

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

 Score = 51.4 bits (123), Expect = 1e-08
 Identities = 31/89 (34%), Positives = 44/89 (49%), Gaps = 4/89 (4%)

Query: 9   YTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSH 68
           Y + G +  A  +FDR+P +D  SW  +I GY   GE    + LF  MRE  V+   ++ 
Sbjct: 232 YVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTI 291

Query: 69  IGVLTACSLGGLVEKGKKFFDEMQARNVK 97
             V++AC L G    G+    EM    VK
Sbjct: 292 TSVISACELLGDERLGR----EMHGYVVK 316

Length = 857

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

 Score = 48.7 bits (116), Expect = 8e-08
 Identities = 23/81 (28%), Positives = 44/81 (54%)

Query: 6   LDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYP 65
           +D Y++ G I+ A  +FD +P K + +W +++ GY + G  + A+ L+  MR+ GV    
Sbjct: 266 IDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQ 325

Query: 66  VSHIGVLTACSLGGLVEKGKK 86
            +   ++   S   L+E  K+
Sbjct: 326 FTFSIMIRIFSRLALLEHAKQ 346

Length = 697

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

 Score = 42.5 bits (100), Expect = 1e-05
 Identities = 23/81 (28%), Positives = 41/81 (50%), Gaps = 1/81 (1%)

Query: 6   LDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYP 65
           ++ Y++   ID A ++F  +P KD  SW ++I G  +      A+  F  M    ++   
Sbjct: 431 IEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLLT-LKPNS 489

Query: 66  VSHIGVLTACSLGGLVEKGKK 86
           V+ I  L+AC+  G +  GK+
Sbjct: 490 VTLIAALSACARIGALMCGKE 510

Length = 857

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

 Score = 37.5 bits (87), Expect = 6e-04
 Identities = 25/81 (30%), Positives = 41/81 (50%)

Query: 6   LDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYP 65
           L  + + G +  A ++FD +P ++ ASW T+I G    G    A  LF  M EDG +  P
Sbjct: 165 LLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEP 224

Query: 66  VSHIGVLTACSLGGLVEKGKK 86
            + + +L A +  G    G++
Sbjct: 225 RTFVVMLRASAGLGSARAGQQ 245

Length = 697

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

 Score = 37.2 bits (86), Expect = 7e-04
 Identities = 24/107 (22%), Positives = 49/107 (45%), Gaps = 12/107 (11%)

Query: 10  TRTGRIDLANKIFDRL--------PVK-DSASWITLILGYGMLGELDVAINLFEAMREDG 60
            ++G +D A   FD L        P+  D  +   L+      G++D A  +++ + E  
Sbjct: 553 GQSGAVDRA---FDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYN 609

Query: 61  VEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMV 107
           ++  P  +   + +CS  G  +     +D+M+ + VKP E  ++ +V
Sbjct: 610 IKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALV 656

Length = 1060

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

 Score = 37.1 bits (86), Expect = 9e-04
 Identities = 19/56 (33%), Positives = 28/56 (50%)

Query: 6   LDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGV 61
           L  + R G +  A  +F ++P +D  SW  L+ GY   G  D A+ L+  M   GV
Sbjct: 128 LSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGV 183

Length = 857

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

 Score = 33.2 bits (77), Expect = 0.002
 Identities = 13/30 (43%), Positives = 21/30 (70%)

Query: 32 SWITLILGYGMLGELDVAINLFEAMREDGV 61
          ++ +LI GY   G+L+ A+ LF+ M+E GV
Sbjct: 2  TYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 32.8 bits (76), Expect = 0.004
 Identities = 12/35 (34%), Positives = 22/35 (62%)

Query: 28 KDSASWITLILGYGMLGELDVAINLFEAMREDGVE 62
           D  ++ TLI GY   G+++ A+ LF  M++ G++
Sbjct: 1  PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIK 35

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	118
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	99.96
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	99.96
PLN03077	857	Protein ECB2; Provisional	99.95
PLN03077	857	Protein ECB2; Provisional	99.95
PLN03218	1060	maturation of RBCL 1; Provisional	99.95
PLN03218	1060	maturation of RBCL 1; Provisional	99.95
PF13041	50	PPR_2: PPR repeat family	99.79
PF13041	50	PPR_2: PPR repeat family	99.77
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.45
PF12854	34	PPR_1: PPR repeat	99.35
PF12854	34	PPR_1: PPR repeat	99.21
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	99.17
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.13
PF13812	34	PPR_3: Pentatricopeptide repeat domain	99.09
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.08
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	99.07
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.04
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	99.02
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.97
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.97
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.92
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.81
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	98.8
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	98.8
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.73
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	98.59
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	98.56
KOG3941	406	consensus Intermediate in Toll signal transduction	98.49
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.46
PRK12370	553	invasion protein regulator; Provisional	98.41
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	98.4
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.38
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.36
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	98.33
PRK15359	144	type III secretion system chaperone protein SscB;	98.31
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	98.29
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	98.28
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	98.25
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.25
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	98.24
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	98.2
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	98.17
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.13
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	98.12
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.1
PRK12370	553	invasion protein regulator; Provisional	98.03
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.01
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.99
PRK15359	144	type III secretion system chaperone protein SscB;	97.97
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	97.96
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	97.96
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.96
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	97.95
PRK10370	198	formate-dependent nitrite reductase complex subuni	97.94
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.93
PRK11189	296	lipoprotein NlpI; Provisional	97.92
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	97.92
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	97.91
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.91
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	97.91
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.91
KOG1126	638	consensus DNA-binding cell division cycle control	97.9
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.89
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.88
COG4783	484	Putative Zn-dependent protease, contains TPR repea	97.88
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	97.87
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	97.85
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	97.85
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.78
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	97.78
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	97.76
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.72
TIGR02552	135	LcrH_SycD type III secretion low calcium response	97.7
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	97.67
PRK14574	822	hmsH outer membrane protein; Provisional	97.67
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.67
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	97.66
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.65
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	97.65
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.64
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	97.63
KOG1129	478	consensus TPR repeat-containing protein [General f	97.62
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	97.62
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.59
PRK14574	822	hmsH outer membrane protein; Provisional	97.56
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.54
PRK10370	198	formate-dependent nitrite reductase complex subuni	97.51
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	97.5
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	97.5
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	97.49
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.48
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	97.47
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	97.44
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	97.42
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	97.41
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.41
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.38
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	97.35
PRK11189	296	lipoprotein NlpI; Provisional	97.32
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	97.31
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	97.26
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.24
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	97.23
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	97.21
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.19
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.18
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.18
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.17
KOG0553	304	consensus TPR repeat-containing protein [General f	97.15
KOG1126	638	consensus DNA-binding cell division cycle control	97.11
PRK10803	263	tol-pal system protein YbgF; Provisional	97.11
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	97.06
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	97.05
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	97.05
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	96.99
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	96.98
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	96.97
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	96.96
COG3629	280	DnrI DNA-binding transcriptional activator of the	96.93
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	96.9
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	96.85
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	96.84
PF13371	73	TPR_9: Tetratricopeptide repeat	96.82
KOG2003	840	consensus TPR repeat-containing protein [General f	96.82
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	96.79
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	96.78
PF13371	73	TPR_9: Tetratricopeptide repeat	96.76
KOG2076	895	consensus RNA polymerase III transcription factor	96.72
COG3629	280	DnrI DNA-binding transcriptional activator of the	96.7
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.69
COG4783	484	Putative Zn-dependent protease, contains TPR repea	96.66
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	96.63
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	96.59
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.58
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	96.51
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	96.49
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	96.45
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	96.44
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	96.39
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	96.37
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	96.22
KOG1125	579	consensus TPR repeat-containing protein [General f	96.13
PF13512	142	TPR_18: Tetratricopeptide repeat	96.13
KOG3785	557	consensus Uncharacterized conserved protein [Funct	96.12
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	96.07
KOG2003	840	consensus TPR repeat-containing protein [General f	96.03
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	96.03
PRK15331	165	chaperone protein SicA; Provisional	96.02
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	96.01
KOG3616	1636	consensus Selective LIM binding factor [Transcript	96.01
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	95.99
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	95.92
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	95.83
PF13762	145	MNE1: Mitochondrial splicing apparatus component	95.82
KOG1915	677	consensus Cell cycle control protein (crooked neck	95.79
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	95.74
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	95.74
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	95.71
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	95.7
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	95.69
PF12688	120	TPR_5: Tetratrico peptide repeat	95.59
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	95.51
PF12688	120	TPR_5: Tetratrico peptide repeat	95.51
KOG4340	459	consensus Uncharacterized conserved protein [Funct	95.45
PRK14720	906	transcript cleavage factor/unknown domain fusion p	95.29
PF13929	292	mRNA_stabil: mRNA stabilisation	95.07
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	95.06
KOG0547	606	consensus Translocase of outer mitochondrial membr	94.9
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	94.88
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	94.84
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	94.82
PRK10803	263	tol-pal system protein YbgF; Provisional	94.73
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	94.73
PLN02789	320	farnesyltranstransferase	94.7
smart00299	140	CLH Clathrin heavy chain repeat homology.	94.67
KOG3941	406	consensus Intermediate in Toll signal transduction	94.66
KOG2796	366	consensus Uncharacterized conserved protein [Funct	94.63
KOG1128	777	consensus Uncharacterized conserved protein, conta	94.4
KOG1129	478	consensus TPR repeat-containing protein [General f	94.36
KOG1125	579	consensus TPR repeat-containing protein [General f	94.28
KOG4570	418	consensus Uncharacterized conserved protein [Funct	94.21
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	94.13
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	94.07
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	94.05
PLN02789	320	farnesyltranstransferase	94.04
KOG2376	652	consensus Signal recognition particle, subunit Srp	93.99
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	93.98
PF13428	44	TPR_14: Tetratricopeptide repeat	93.95
KOG3616	1636	consensus Selective LIM binding factor [Transcript	93.91
KOG3060	289	consensus Uncharacterized conserved protein [Funct	93.9
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	93.7
PF13428	44	TPR_14: Tetratricopeptide repeat	93.66
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	93.66
KOG0547	606	consensus Translocase of outer mitochondrial membr	93.66
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	93.63
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	93.63
KOG1128	777	consensus Uncharacterized conserved protein, conta	93.54
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	93.47
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	93.35
PF13512	142	TPR_18: Tetratricopeptide repeat	93.23
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	93.13
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	93.13
PRK14720	906	transcript cleavage factor/unknown domain fusion p	93.13
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	93.08
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	92.97
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	92.97
PRK04841	903	transcriptional regulator MalT; Provisional	92.92
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	92.9
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	92.73
PF13929	292	mRNA_stabil: mRNA stabilisation	92.71
KOG3060	289	consensus Uncharacterized conserved protein [Funct	92.68
KOG2076	895	consensus RNA polymerase III transcription factor	92.6
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	92.26
KOG3785	557	consensus Uncharacterized conserved protein [Funct	92.04
KOG4077	149	consensus Cytochrome c oxidase, subunit Va/COX6 [E	92.03
PRK10564	303	maltose regulon periplasmic protein; Provisional	92.0
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	91.99
KOG2376	652	consensus Signal recognition particle, subunit Srp	91.99
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	91.58
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	91.38
PF11848	48	DUF3368: Domain of unknown function (DUF3368); Int	91.37
KOG4555	175	consensus TPR repeat-containing protein [Function	91.32
COG4455	273	ImpE Protein of avirulence locus involved in tempe	91.25
PF14669	233	Asp_Glu_race_2: Putative aspartate racemase	91.23
KOG0495	913	consensus HAT repeat protein [RNA processing and m	91.15
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	91.11
smart00299	140	CLH Clathrin heavy chain repeat homology.	91.1
PF11848	48	DUF3368: Domain of unknown function (DUF3368); Int	90.82
PF13762	145	MNE1: Mitochondrial splicing apparatus component	90.76
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	90.68
PF10366	108	Vps39_1: Vacuolar sorting protein 39 domain 1; Int	90.63
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	90.29
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	90.21
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	90.06
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	89.91
PF11846	193	DUF3366: Domain of unknown function (DUF3366); Int	89.87
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	89.78
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	89.74
COG2178	204	Predicted RNA-binding protein of the translin fami	89.7
COG4700	251	Uncharacterized protein conserved in bacteria cont	89.59
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	89.56
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	89.43
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	89.38
PRK11639	169	zinc uptake transcriptional repressor; Provisional	89.16
COG4105	254	ComL DNA uptake lipoprotein [General function pred	89.16
KOG0495	913	consensus HAT repeat protein [RNA processing and m	89.12
PF12796	89	Ank_2: Ankyrin repeats (3 copies); InterPro: IPR02	88.99
PF02847	113	MA3: MA3 domain; InterPro: IPR003891 This entry re	88.97
PRK04841	903	transcriptional regulator MalT; Provisional	88.87
COG3947	361	Response regulator containing CheY-like receiver a	88.85
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	88.83
PRK10564	303	maltose regulon periplasmic protein; Provisional	88.41
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	88.34
KOG4570	418	consensus Uncharacterized conserved protein [Funct	88.33
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	88.32
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	88.04
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	87.91
PF02847	113	MA3: MA3 domain; InterPro: IPR003891 This entry re	87.83
PF14689	62	SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical do	87.77
KOG2796	366	consensus Uncharacterized conserved protein [Funct	87.74
COG4455	273	ImpE Protein of avirulence locus involved in tempe	87.69
KOG1915	677	consensus Cell cycle control protein (crooked neck	87.56
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	87.51
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	87.43
COG4105	254	ComL DNA uptake lipoprotein [General function pred	86.81
cd07153	116	Fur_like Ferric uptake regulator(Fur) and related	86.5
PF09454	65	Vps23_core: Vps23 core domain; InterPro: IPR017916	86.29
smart00544	113	MA3 Domain in DAP-5, eIF4G, MA-3 and other protein	86.03
COG0735	145	Fur Fe2+/Zn2+ uptake regulation proteins [Inorgani	85.84
PF13431	34	TPR_17: Tetratricopeptide repeat	85.77
COG0735	145	Fur Fe2+/Zn2+ uptake regulation proteins [Inorgani	85.65
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	85.63
PF09454	65	Vps23_core: Vps23 core domain; InterPro: IPR017916	85.55
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	85.55
KOG0553	304	consensus TPR repeat-containing protein [General f	85.46
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	85.35
PF14689	62	SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical do	85.14
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	85.09
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	84.82
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	84.57
cd07153	116	Fur_like Ferric uptake regulator(Fur) and related	84.53
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	84.52
PF11846	193	DUF3366: Domain of unknown function (DUF3366); Int	84.49
KOG2047	835	consensus mRNA splicing factor [RNA processing and	84.38
PRK11639	169	zinc uptake transcriptional repressor; Provisional	84.26
PF11663	140	Toxin_YhaV: Toxin with endonuclease activity YhaV;	84.11
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	83.74
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	83.52
PF01475	120	FUR: Ferric uptake regulator family; InterPro: IPR	83.32
PF11817	247	Foie-gras_1: Foie gras liver health family 1; Inte	82.7
COG3947	361	Response regulator containing CheY-like receiver a	82.57
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	81.82
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	81.76
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	81.65
KOG2047	835	consensus mRNA splicing factor [RNA processing and	81.58
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	81.53
PRK09462	148	fur ferric uptake regulator; Provisional	81.48
PF02607	79	B12-binding_2: B12 binding domain; InterPro: IPR00	81.44
PF01475	120	FUR: Ferric uptake regulator family; InterPro: IPR	80.91
PF09797	365	NatB_MDM20: N-acetyltransferase B complex (NatB) n	80.87
PF07575	566	Nucleopor_Nup85: Nup85 Nucleoporin; InterPro: IPR0	80.08
KOG4567	370	consensus GTPase-activating protein [General funct	80.02

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

Probab=99.96  E-value=2.2e-29  Score=182.82  Aligned_cols=118  Identities=37%  Similarity=0.664  Sum_probs=114.3

Q ss_pred             CchHHHHHHHhcCCHHHHHHHhhhCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCC
Q 046694            1 MIEPRLDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGL   80 (118)
Q Consensus         1 t~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~   80 (118)
                      +||+||.+|+++|++++|.++|++|..||+.+||+||.+|++.|+.++|+++|++|.+.|+.||..||+++|.+|++.|.
T Consensus       362 ~~~~Li~~y~k~G~~~~A~~vf~~m~~~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~  441 (697)
T PLN03081        362 ANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGL  441 (697)
T ss_pred             ehHHHHHHHHHCCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCc
Confidence            58999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHh-hcCCCccHHHHHHHHHHHHHcccccC
Q 046694           81 VEKGKKFFDEMQ-ARNVKPTETHYACMVYLLIKYNQKAR  118 (118)
Q Consensus        81 ~~~a~~~~~~m~-~~g~~~~~~t~~~li~~~~~~g~~~~  118 (118)
                      +++|.++|+.|. +.|+.|+..+|++|+++|++.|++++
T Consensus       442 ~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~e  480 (697)
T PLN03081        442 SEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDE  480 (697)
T ss_pred             HHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHH
Confidence            999999999996 47999999999999999999998864

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

Probab=99.96  E-value=1.8e-28  Score=178.08  Aligned_cols=117  Identities=22%  Similarity=0.371  Sum_probs=114.7

Q ss_pred             CchHHHHHHHhcCCHHHHHHHhhhCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCC
Q 046694            1 MIEPRLDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGL   80 (118)
Q Consensus         1 t~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~   80 (118)
                      +||+||.+|+++|++++|.++|++|+.+|+.+||++|.+|++.|++++|+++|++|++.|++||..||+.++++|++.|+
T Consensus       261 ~~n~Li~~y~k~g~~~~A~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~  340 (697)
T PLN03081        261 VSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLAL  340 (697)
T ss_pred             eHHHHHHHHHHCCCHHHHHHHHHhCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccc
Confidence            57999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           81 VEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        81 ~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      ++.|.+++++|.+.|+.||..+|++||++|+++|+++
T Consensus       341 ~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~  377 (697)
T PLN03081        341 LEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRME  377 (697)
T ss_pred             hHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHH
Confidence            9999999999999999999999999999999999876

>PLN03077 Protein ECB2; Provisional

Probab=99.95  E-value=1.1e-27  Score=177.15  Aligned_cols=117  Identities=36%  Similarity=0.622  Sum_probs=113.3

Q ss_pred             CchHHHHHHHhcCCHHHHHHHhhhCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCC
Q 046694            1 MIEPRLDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGL   80 (118)
Q Consensus         1 t~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~   80 (118)
                      ++|+||.+|+++|++++|.++|+++ .+|..+||++|.+|++.|+.++|+++|++|.+.|++||..||+.+|.+|++.|+
T Consensus       526 ~~naLi~~y~k~G~~~~A~~~f~~~-~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~  604 (857)
T PLN03077        526 LPNALLDLYVRCGRMNYAWNQFNSH-EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGM  604 (857)
T ss_pred             echHHHHHHHHcCCHHHHHHHHHhc-CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcCh
Confidence            4789999999999999999999999 899999999999999999999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHh-hcCCCccHHHHHHHHHHHHHcccccC
Q 046694           81 VEKGKKFFDEMQ-ARNVKPTETHYACMVYLLIKYNQKAR  118 (118)
Q Consensus        81 ~~~a~~~~~~m~-~~g~~~~~~t~~~li~~~~~~g~~~~  118 (118)
                      +++|.++|++|. +.|+.|+..||++|+++|++.|++++
T Consensus       605 v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~~~e  643 (857)
T PLN03077        605 VTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTE  643 (857)
T ss_pred             HHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCCHHH
Confidence            999999999997 79999999999999999999998764

>PLN03077 Protein ECB2; Provisional

Probab=99.95  E-value=3.9e-27  Score=174.26  Aligned_cols=117  Identities=23%  Similarity=0.386  Sum_probs=114.7

Q ss_pred             CchHHHHHHHhcCCHHHHHHHhhhCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCC
Q 046694            1 MIEPRLDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGL   80 (118)
Q Consensus         1 t~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~   80 (118)
                      +||+||.+|+++|++++|.++|++|+.||..+||++|.+|++.|++++|+++|++|++.|+.||..||+.+|.+|++.|+
T Consensus       224 ~~n~Li~~y~k~g~~~~A~~lf~~m~~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~  303 (857)
T PLN03077        224 VVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGD  303 (857)
T ss_pred             hHhHHHHHHhcCCCHHHHHHHHhcCCCCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCC
Confidence            47999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           81 VEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        81 ~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      ++.|.+++..|.+.|+.||..+||+||.+|++.|+++
T Consensus       304 ~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~  340 (857)
T PLN03077        304 ERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWG  340 (857)
T ss_pred             hHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHH
Confidence            9999999999999999999999999999999999875

>PLN03218 maturation of RBCL 1; Provisional

Probab=99.95  E-value=4.4e-27  Score=175.51  Aligned_cols=117  Identities=18%  Similarity=0.324  Sum_probs=74.3

Q ss_pred             CchHHHHHHHhcCCHHHHHHHhhhCC----CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHh
Q 046694            1 MIEPRLDFYTRTGRIDLANKIFDRLP----VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACS   76 (118)
Q Consensus         1 t~~~ll~~~~~~~~~~~a~~~~~~m~----~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~   76 (118)
                      +||+||.+|++.|++++|.++|++|.    .||..+|+++|.+|++.|++++|.++|++|++.|+.||..+|+.+|.+|+
T Consensus       474 tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~  553 (1060)
T PLN03218        474 LYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACG  553 (1060)
T ss_pred             HHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            35666666666666666666666665    45666666666666666666666666666666666666666666666666


Q ss_pred             cCCChhhHHHHHHHHhh--cCCCccHHHHHHHHHHHHHccccc
Q 046694           77 LGGLVEKGKKFFDEMQA--RNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        77 ~~~~~~~a~~~~~~m~~--~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      +.|++++|.++|++|.+  .|+.||..||++||.+|++.|+++
T Consensus       554 k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ld  596 (1060)
T PLN03218        554 QSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVD  596 (1060)
T ss_pred             HCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHH
Confidence            66666666666666643  456666666666666666666543

>PLN03218 maturation of RBCL 1; Provisional

Probab=99.95  E-value=5.6e-27  Score=174.95  Aligned_cols=117  Identities=20%  Similarity=0.285  Sum_probs=111.1

Q ss_pred             CchHHHHHHHhcCCHHHHHHHhhhCC----CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHh
Q 046694            1 MIEPRLDFYTRTGRIDLANKIFDRLP----VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACS   76 (118)
Q Consensus         1 t~~~ll~~~~~~~~~~~a~~~~~~m~----~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~   76 (118)
                      |||.||.+|++.|++++|.++|++|.    .||..+|+++|.+|++.|++++|.++|++|.+.|+.||..+|+.+|++|+
T Consensus       439 Tyn~LL~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~  518 (1060)
T PLN03218        439 TFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCA  518 (1060)
T ss_pred             HHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            68999999999999999999999997    57999999999999999999999999999999999999999999999999


Q ss_pred             cCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           77 LGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        77 ~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      +.|++++|.++|++|.+.|+.||..||+.||.+|++.|+++
T Consensus       519 k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~d  559 (1060)
T PLN03218        519 RAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVD  559 (1060)
T ss_pred             HCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHH
Confidence            99999999999999999999999999999999999999875

>PF13041 PPR_2: PPR repeat family

Probab=99.79  E-value=6e-19  Score=88.21  Aligned_cols=50  Identities=24%  Similarity=0.396  Sum_probs=32.1

Q ss_pred             CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhc
Q 046694           28 KDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSL   77 (118)
Q Consensus        28 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~   77 (118)
                      ||+.+||++|++|++.|++++|.++|++|++.|++||..||+.+|++|+|
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            45666666666666666666666666666666666666666666666654

>PF13041 PPR_2: PPR repeat family

Probab=99.77  E-value=1.2e-18  Score=87.16  Aligned_cols=50  Identities=26%  Similarity=0.367  Sum_probs=48.9

Q ss_pred             ccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHH
Q 046694           63 YYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIK  112 (118)
Q Consensus        63 p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~  112 (118)
                      ||.++||++|++|++.|++++|.++|++|.+.|+.||..||++||++|+|
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

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.45  E-value=4.7e-13  Score=91.59  Aligned_cols=111  Identities=13%  Similarity=0.161  Sum_probs=95.5

Q ss_pred             CchHHHHHHHhcCCHHHHHHHhhhCCCC----CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHh
Q 046694            1 MIEPRLDFYTRTGRIDLANKIFDRLPVK----DSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACS   76 (118)
Q Consensus         1 t~~~ll~~~~~~~~~~~a~~~~~~m~~~----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~   76 (118)
                      |+.+||.+.||-...++|..++.+-...    +..+||.+|.+-    .+....++..+|.+..+.||..|||+++++.+
T Consensus       209 t~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~----S~~~~K~Lv~EMisqkm~Pnl~TfNalL~c~a  284 (625)
T KOG4422|consen  209 TVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGAS----SYSVGKKLVAEMISQKMTPNLFTFNALLSCAA  284 (625)
T ss_pred             hHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHH----HhhccHHHHHHHHHhhcCCchHhHHHHHHHHH
Confidence            6789999999999999999999988744    556677666543    34445899999999999999999999999999


Q ss_pred             cCCChhhH----HHHHHHHhhcCCCccHHHHHHHHHHHHHccc
Q 046694           77 LGGLVEKG----KKFFDEMQARNVKPTETHYACMVYLLIKYNQ  115 (118)
Q Consensus        77 ~~~~~~~a----~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~  115 (118)
                      +.|+++.|    .+++.+|++.|+.|...+|.-+|..+++-++
T Consensus       285 kfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~d  327 (625)
T KOG4422|consen  285 KFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESD  327 (625)
T ss_pred             HhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCC
Confidence            99988865    5778899999999999999999999887665

>PF12854 PPR_1: PPR repeat

Probab=99.35  E-value=1.5e-12  Score=59.62  Aligned_cols=34  Identities=26%  Similarity=0.367  Sum_probs=29.4

Q ss_pred             cCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHh
Q 046694           59 DGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQ   92 (118)
Q Consensus        59 ~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~   92 (118)
                      .|++||..||+++|++||+.|++++|.++|++|.
T Consensus         1 ~G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M~   34 (34)
T PF12854_consen    1 RGCEPDVVTYNTLIDGYCKAGRVDEAFELFDEMK   34 (34)
T ss_pred             CCCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence            4788999999999999999999999999998873

>PF12854 PPR_1: PPR repeat

Probab=99.21  E-value=2.1e-11  Score=55.80  Aligned_cols=31  Identities=39%  Similarity=0.613  Sum_probs=29.3

Q ss_pred             CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 046694           27 VKDSASWITLILGYGMLGELDVAINLFEAMR   57 (118)
Q Consensus        27 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~   57 (118)
                      .||..|||++|++||+.|++++|.++|++|+
T Consensus         4 ~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M~   34 (34)
T PF12854_consen    4 EPDVVTYNTLIDGYCKAGRVDEAFELFDEMK   34 (34)
T ss_pred             CCcHhHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence            6899999999999999999999999999984

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=99.17  E-value=6.6e-11  Score=54.11  Aligned_cols=33  Identities=36%  Similarity=0.526  Sum_probs=26.4

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcc
Q 046694           32 SWITLILGYGMLGELDVAINLFEAMREDGVEYY   64 (118)
Q Consensus        32 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~   64 (118)
                      +||++|.+|++.|++++|.++|++|++.|++||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            678888888888888888888888888887776

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.

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.13  E-value=1.7e-09  Score=74.15  Aligned_cols=74  Identities=12%  Similarity=0.090  Sum_probs=31.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHH
Q 046694           33 WITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLL  110 (118)
Q Consensus        33 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~  110 (118)
                      ++.+..+|...|++++|...++++.+.  .|+...+..+...+.+.|++++|..+++++.+.  .|+..+++.++..+
T Consensus       252 ~~~l~~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~~l~~~~  325 (389)
T PRK11788        252 LPKLMECYQALGDEAEGLEFLRRALEE--YPGADLLLALAQLLEEQEGPEAAQALLREQLRR--HPSLRGFHRLLDYH  325 (389)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHHHHHHHHHHh
Confidence            344444444444444444444444332  233333344444444444444444444444332  34444444444433

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=99.09  E-value=2.6e-10  Score=51.93  Aligned_cols=33  Identities=30%  Similarity=0.567  Sum_probs=23.9

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc
Q 046694           31 ASWITLILGYGMLGELDVAINLFEAMREDGVEY   63 (118)
Q Consensus        31 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p   63 (118)
                      .+|+++|.+|++.|+++.|.++|++|++.|++|
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            467777777777777777777777777777766

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.08  E-value=4.5e-09  Score=72.12  Aligned_cols=111  Identities=14%  Similarity=0.097  Sum_probs=52.4

Q ss_pred             HHHHHHHhcCCHHHHHHHhhhCCC---CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcc----HHHHHHHHHHHh
Q 046694            4 PRLDFYTRTGRIDLANKIFDRLPV---KDSASWITLILGYGMLGELDVAINLFEAMREDGVEYY----PVSHIGVLTACS   76 (118)
Q Consensus         4 ~ll~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~----~~~~~~ll~~~~   76 (118)
                      .+...|.+.|++++|..+|+++..   ++..+++.++..+.+.|++++|.+.++.+.+.+-.++    ...+..+...+.
T Consensus       112 ~La~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~  191 (389)
T PRK11788        112 ELGQDYLKAGLLDRAEELFLQLVDEGDFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQAL  191 (389)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHH
Confidence            345555555666666666655542   2444555555555555555555555555544322111    112233444444


Q ss_pred             cCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccc
Q 046694           77 LGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQ  115 (118)
Q Consensus        77 ~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~  115 (118)
                      +.|++++|.++++++.+.. +.+...+..+...+.+.|+
T Consensus       192 ~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~  229 (389)
T PRK11788        192 ARGDLDAARALLKKALAAD-PQCVRASILLGDLALAQGD  229 (389)
T ss_pred             hCCCHHHHHHHHHHHHhHC-cCCHHHHHHHHHHHHHCCC
Confidence            5555555555555554322 1123344444444444444

>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=99.07  E-value=3.2e-09  Score=67.25  Aligned_cols=97  Identities=18%  Similarity=0.269  Sum_probs=85.6

Q ss_pred             HHHhhhC--CCCCHhhHHHHHHHHHhc-----CCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcC-------------
Q 046694           19 NKIFDRL--PVKDSASWITLILGYGML-----GELDVAINLFEAMREDGVEYYPVSHIGVLTACSLG-------------   78 (118)
Q Consensus        19 ~~~~~~m--~~~~~~~~~~li~~~~~~-----~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~-------------   78 (118)
                      ...|++.  ..++..+|..+|..|.+.     |..+-....++.|.+-|++-|..+|+.||+++-+.             
T Consensus        34 ~~~f~~~~~~~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~  113 (228)
T PF06239_consen   34 EELFERAPGQAKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFM  113 (228)
T ss_pred             HHHHHHHhhccccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhc
Confidence            5666665  467999999999999876     67999999999999999999999999999999875             


Q ss_pred             ---CChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccc
Q 046694           79 ---GLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQ  115 (118)
Q Consensus        79 ---~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~  115 (118)
                         .+-+-|.+++++|.+.|+.||..|+..|++.+++.+.
T Consensus       114 hyp~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  114 HYPRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             cCcHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence               3456688999999999999999999999999998764

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

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.04  E-value=2.6e-09  Score=73.63  Aligned_cols=93  Identities=19%  Similarity=0.278  Sum_probs=81.0

Q ss_pred             HhhhCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccH
Q 046694           21 IFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTE  100 (118)
Q Consensus        21 ~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~  100 (118)
                      ++-+.......+|.+||.|.|+--..+.|.+++++-.....+.+..+||.+|.+-.    +....++..+|....+.||.
T Consensus       198 L~~E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S----~~~~K~Lv~EMisqkm~Pnl  273 (625)
T KOG4422|consen  198 LLFETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASS----YSVGKKLVAEMISQKMTPNL  273 (625)
T ss_pred             HHHhhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHH----hhccHHHHHHHHHhhcCCch
Confidence            44444445668999999999999999999999999999989999999999998754    33448999999999999999


Q ss_pred             HHHHHHHHHHHHccccc
Q 046694          101 THYACMVYLLIKYNQKA  117 (118)
Q Consensus       101 ~t~~~li~~~~~~g~~~  117 (118)
                      .|+|+++++.++.|+++
T Consensus       274 ~TfNalL~c~akfg~F~  290 (625)
T KOG4422|consen  274 FTFNALLSCAAKFGKFE  290 (625)
T ss_pred             HhHHHHHHHHHHhcchH
Confidence            99999999999999764

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=99.02  E-value=5.3e-10  Score=51.01  Aligned_cols=35  Identities=26%  Similarity=0.420  Sum_probs=33.0

Q ss_pred             HHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccH
Q 046694           66 VSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTE  100 (118)
Q Consensus        66 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~  100 (118)
                      .+||++|++|++.|++++|.++|++|.+.|+.||.
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            47999999999999999999999999999999984

This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.

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

Probab=98.97  E-value=3.7e-08  Score=56.42  Aligned_cols=83  Identities=14%  Similarity=0.183  Sum_probs=71.8

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-CccHHHHHHHHHHHhcCCC--------hhhHHHHHHHHhhcCCCccHH
Q 046694           31 ASWITLILGYGMLGELDVAINLFEAMREDGV-EYYPVSHIGVLTACSLGGL--------VEKGKKFFDEMQARNVKPTET  101 (118)
Q Consensus        31 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~p~~~~~~~ll~~~~~~~~--------~~~a~~~~~~m~~~g~~~~~~  101 (118)
                      .|-...|..+...+++.....+|+.+++.|+ .|+..+|+.++++.++...        +-....+|+.|...+++|+..
T Consensus        26 ~t~i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~e  105 (120)
T PF08579_consen   26 ETQIDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDE  105 (120)
T ss_pred             HHHHHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHH
Confidence            3556677778888999999999999999999 8999999999999987642        224668899999999999999


Q ss_pred             HHHHHHHHHHHc
Q 046694          102 HYACMVYLLIKY  113 (118)
Q Consensus       102 t~~~li~~~~~~  113 (118)
                      ||+.++..+.++
T Consensus       106 tYnivl~~Llkg  117 (120)
T PF08579_consen  106 TYNIVLGSLLKG  117 (120)
T ss_pred             HHHHHHHHHHHh
Confidence            999999998775

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

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.97  E-value=1.3e-09  Score=49.61  Aligned_cols=33  Identities=33%  Similarity=0.568  Sum_probs=31.9

Q ss_pred             HHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCc
Q 046694           66 VSHIGVLTACSLGGLVEKGKKFFDEMQARNVKP   98 (118)
Q Consensus        66 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~   98 (118)
                      .+|++++++|++.|+++.|.++|++|.+.|++|
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            689999999999999999999999999999988

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

Probab=98.92  E-value=2.1e-09  Score=47.75  Aligned_cols=29  Identities=38%  Similarity=0.823  Sum_probs=19.2

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 046694           32 SWITLILGYGMLGELDVAINLFEAMREDG   60 (118)
Q Consensus        32 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~   60 (118)
                      +||++|++|++.|++++|.++|++|++.|
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.

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

Probab=98.81  E-value=7e-09  Score=46.03  Aligned_cols=31  Identities=26%  Similarity=0.429  Sum_probs=29.3

Q ss_pred             HHHHHHHHHHhcCCChhhHHHHHHHHhhcCC
Q 046694           66 VSHIGVLTACSLGGLVEKGKKFFDEMQARNV   96 (118)
Q Consensus        66 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~   96 (118)
                      ++|+.++++|++.|++++|.++|++|.+.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            4899999999999999999999999999885

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.

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

Probab=98.80  E-value=1.5e-07  Score=69.70  Aligned_cols=112  Identities=13%  Similarity=0.038  Sum_probs=78.4

Q ss_pred             hHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCC
Q 046694            3 EPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGG   79 (118)
Q Consensus         3 ~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~   79 (118)
                      +.+...|.+.|++++|...|+++.   .++...++.+...+.+.|+ ++|+..+++..+.. +-+...+..+...+.+.|
T Consensus       774 ~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g  851 (899)
T TIGR02917       774 TALAELYLAQKDYDKAIKHYRTVVKKAPDNAVVLNNLAWLYLELKD-PRALEYAEKALKLA-PNIPAILDTLGWLLVEKG  851 (899)
T ss_pred             HHHHHHHHHCcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcC
Confidence            344555666666777766666553   3355666666666767766 66777777665532 124455566677788889


Q ss_pred             ChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           80 LVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        80 ~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      ++++|.++++++.+.+.. +..++..+..++.+.|+.+
T Consensus       852 ~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~g~~~  888 (899)
T TIGR02917       852 EADRALPLLRKAVNIAPE-AAAIRYHLALALLATGRKA  888 (899)
T ss_pred             CHHHHHHHHHHHHhhCCC-ChHHHHHHHHHHHHcCCHH
Confidence            999999999999887654 8889999999999998865

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=98.80  E-value=1.8e-07  Score=69.27  Aligned_cols=55  Identities=15%  Similarity=0.111  Sum_probs=24.4

Q ss_pred             hHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 046694            3 EPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMR   57 (118)
Q Consensus         3 ~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~   57 (118)
                      ..+..+|.+.|++++|...|+++.   ..+...+..+...+.+.|++++|...|+++.
T Consensus       605 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  662 (899)
T TIGR02917       605 LMLGRAQLAAGDLNKAVSSFKKLLALQPDSALALLLLADAYAVMKNYAKAITSLKRAL  662 (899)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            344444444555555555444432   1233344444444444444444444444443

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.

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

Probab=98.73  E-value=1.9e-07  Score=65.12  Aligned_cols=110  Identities=15%  Similarity=0.086  Sum_probs=92.3

Q ss_pred             HHHHHHHhcCCHHHHHHHhhhCC-CC-----CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhc
Q 046694            4 PRLDFYTRTGRIDLANKIFDRLP-VK-----DSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSL   77 (118)
Q Consensus         4 ~ll~~~~~~~~~~~a~~~~~~m~-~~-----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~   77 (118)
                      .+++.+....+++.+..++.+.+ +|     ...|..++|+.|.+.|..++++.+++.=...|+-||..+||.+++.+.+
T Consensus        71 ~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n~Lmd~fl~  150 (429)
T PF10037_consen   71 IFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFNLLMDHFLK  150 (429)
T ss_pred             HHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHHHHHHHHhh
Confidence            34555556667788888877765 22     3456679999999999999999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHc
Q 046694           78 GGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKY  113 (118)
Q Consensus        78 ~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~  113 (118)
                      .|++..|.++...|...+.-.+..|+.--+.+|.+.
T Consensus       151 ~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  151 KGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             cccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            999999999999998888777888887777766665

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 [].

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=98.59  E-value=4.6e-06  Score=52.56  Aligned_cols=17  Identities=18%  Similarity=0.337  Sum_probs=6.5

Q ss_pred             HhcCCChhhHHHHHHHH
Q 046694           75 CSLGGLVEKGKKFFDEM   91 (118)
Q Consensus        75 ~~~~~~~~~a~~~~~~m   91 (118)
                      +.+.|++++|.+.+++.
T Consensus       145 ~~~~g~~~~A~~~~~~~  161 (234)
T TIGR02521       145 ALKAGDFDKAEKYLTRA  161 (234)
T ss_pred             HHHcCCHHHHHHHHHHH
Confidence            33333333333333333

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

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=98.56  E-value=5.6e-06  Score=52.19  Aligned_cols=114  Identities=17%  Similarity=0.102  Sum_probs=90.5

Q ss_pred             hHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCC
Q 046694            3 EPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGG   79 (118)
Q Consensus         3 ~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~   79 (118)
                      ..+...|.+.|++++|...|++..   ..+...+..+...+...|++++|.+.+++..+.. +.+...+..+...+...|
T Consensus        35 ~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~~~~g  113 (234)
T TIGR02521        35 VQLALGYLEQGDLEVAKENLDKALEHDPDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGTFLCQQG  113 (234)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcc
Confidence            456678889999999999998764   3367788888999999999999999999998753 335667788888999999


Q ss_pred             ChhhHHHHHHHHhhcCCC-ccHHHHHHHHHHHHHccccc
Q 046694           80 LVEKGKKFFDEMQARNVK-PTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        80 ~~~~a~~~~~~m~~~g~~-~~~~t~~~li~~~~~~g~~~  117 (118)
                      ++++|.+.+++..+.... .....+..+-.++.+.|+.+
T Consensus       114 ~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  152 (234)
T TIGR02521       114 KYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFD  152 (234)
T ss_pred             cHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHH
Confidence            999999999999765332 23556667777777777654

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.

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=98.49  E-value=2.8e-06  Score=56.32  Aligned_cols=98  Identities=18%  Similarity=0.248  Sum_probs=83.9

Q ss_pred             HHHHhhhCC--CCCHhhHHHHHHHHHhc-----CCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCC----------
Q 046694           18 ANKIFDRLP--VKDSASWITLILGYGML-----GELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGL----------   80 (118)
Q Consensus        18 a~~~~~~m~--~~~~~~~~~li~~~~~~-----~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~----------   80 (118)
                      .++.|+...  ++|..+|-+.+..+...     +.++-....++.|++-|++-|..+|+.+|+.+-|...          
T Consensus        53 ~e~~F~aa~~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F  132 (406)
T KOG3941|consen   53 VEKQFEAAEPEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVF  132 (406)
T ss_pred             hhhhhhccCcccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHH
Confidence            456676666  67888999999888766     5688899999999999999999999999999987643          


Q ss_pred             ------hhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccc
Q 046694           81 ------VEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQ  115 (118)
Q Consensus        81 ------~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~  115 (118)
                            -+-+++++++|...|+.||-.+-..|+.++++-+.
T Consensus       133 ~HYP~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~  173 (406)
T KOG3941|consen  133 LHYPQQQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNF  173 (406)
T ss_pred             hhCchhhhHHHHHHHHHHHcCCCCchHHHHHHHHHhccccc
Confidence                  33477999999999999999999999999998763

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

Probab=98.46  E-value=8.7e-06  Score=56.55  Aligned_cols=111  Identities=14%  Similarity=0.067  Sum_probs=93.8

Q ss_pred             HHHHHHHhcCCHHHHHHHhhhCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhh
Q 046694            4 PRLDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEK   83 (118)
Q Consensus         4 ~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~   83 (118)
                      +|+..+...++++.|+.+|+++.+.+......+.+.+...++-.+|.+++.+..... +-+........+.+.+.++.+.
T Consensus       174 ~Ll~~l~~t~~~~~ai~lle~L~~~~pev~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fLl~k~~~~l  252 (395)
T PF09295_consen  174 TLLKYLSLTQRYDEAIELLEKLRERDPEVAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFLLSKKKYEL  252 (395)
T ss_pred             HHHHHHhhcccHHHHHHHHHHHHhcCCcHHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCHHH
Confidence            466777788999999999999997777777788899989999999999999998552 3366777777788889999999


Q ss_pred             HHHHHHHHhhcCCCc-cHHHHHHHHHHHHHccccc
Q 046694           84 GKKFFDEMQARNVKP-TETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        84 a~~~~~~m~~~g~~~-~~~t~~~li~~~~~~g~~~  117 (118)
                      |.++.++..+  ..| +..+|..|..+|.+.|+++
T Consensus       253 AL~iAk~av~--lsP~~f~~W~~La~~Yi~~~d~e  285 (395)
T PF09295_consen  253 ALEIAKKAVE--LSPSEFETWYQLAECYIQLGDFE  285 (395)
T ss_pred             HHHHHHHHHH--hCchhHHHHHHHHHHHHhcCCHH
Confidence            9999999977  345 4779999999999999876

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

>PRK12370 invasion protein regulator; Provisional

Probab=98.41  E-value=1.3e-05  Score=58.03  Aligned_cols=112  Identities=11%  Similarity=0.016  Sum_probs=72.0

Q ss_pred             HHHHHHHhcCCHHHHHHHhhhCC--CC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcc-HHHHHHHHHHHhcCC
Q 046694            4 PRLDFYTRTGRIDLANKIFDRLP--VK-DSASWITLILGYGMLGELDVAINLFEAMREDGVEYY-PVSHIGVLTACSLGG   79 (118)
Q Consensus         4 ~ll~~~~~~~~~~~a~~~~~~m~--~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~   79 (118)
                      .+-..+...|++++|+..|++..  .| +...|..+-..+...|++++|...+++..+..  |+ ...+..+...+...|
T Consensus       343 ~lg~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~--P~~~~~~~~~~~~~~~~g  420 (553)
T PRK12370        343 LLGLINTIHSEYIVGSLLFKQANLLSPISADIKYYYGWNLFMAGQLEEALQTINECLKLD--PTRAAAGITKLWITYYHT  420 (553)
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CCChhhHHHHHHHHHhcc
Confidence            44456667788888888887654  23 55567777777788888888888888876653  32 222333344455677


Q ss_pred             ChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           80 LVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        80 ~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      ++++|...+++..+..-+-+...+..+-.++...|+.+
T Consensus       421 ~~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~  458 (553)
T PRK12370        421 GIDDAIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHE  458 (553)
T ss_pred             CHHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHH
Confidence            78888888877765432223444566666676777654

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

Probab=98.40  E-value=2e-06  Score=56.93  Aligned_cols=109  Identities=15%  Similarity=0.095  Sum_probs=48.4

Q ss_pred             HHHHhcCCHHHHHHHhhhCC--CC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhh
Q 046694            7 DFYTRTGRIDLANKIFDRLP--VK-DSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEK   83 (118)
Q Consensus         7 ~~~~~~~~~~~a~~~~~~m~--~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~   83 (118)
                      ..+.+.|+.++|++.|++..  .| |....+.++..+...|+.+++.++++...+.. +.|...+..+-.++...|+.++
T Consensus       154 ~~~~~~G~~~~A~~~~~~al~~~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~  232 (280)
T PF13429_consen  154 EIYEQLGDPDKALRDYRKALELDPDDPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEE  232 (280)
T ss_dssp             HHHHHCCHHHHHHHHHHHHHHH-TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhcccccccc
Confidence            34444555555555554443  22 34444555555555555555555555544332 2333444455555555555555


Q ss_pred             HHHHHHHHhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           84 GKKFFDEMQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        84 a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      |..++++..+.. +.|+.+...+.+++...|+.+
T Consensus       233 Al~~~~~~~~~~-p~d~~~~~~~a~~l~~~g~~~  265 (280)
T PF13429_consen  233 ALEYLEKALKLN-PDDPLWLLAYADALEQAGRKD  265 (280)
T ss_dssp             HHHHHHHHHHHS-TT-HHHHHHHHHHHT------
T ss_pred             cccccccccccc-ccccccccccccccccccccc
Confidence            555555554321 224555555555555555543

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

Probab=98.38  E-value=3.3e-06  Score=48.52  Aligned_cols=73  Identities=7%  Similarity=0.099  Sum_probs=63.3

Q ss_pred             HHHHHHhcCCHHHHHHHhhhCC-----CCCHhhHHHHHHHHHhcC--------CHHHHHHHHHHHHHcCCCccHHHHHHH
Q 046694            5 RLDFYTRTGRIDLANKIFDRLP-----VKDSASWITLILGYGMLG--------ELDVAINLFEAMREDGVEYYPVSHIGV   71 (118)
Q Consensus         5 ll~~~~~~~~~~~a~~~~~~m~-----~~~~~~~~~li~~~~~~~--------~~~~a~~~~~~m~~~~~~p~~~~~~~l   71 (118)
                      .|..+...+++.....+|+.++     .|++.+|+.++.+.++..        .+.+.+.+++.|...+++|+..+|+.+
T Consensus        31 ~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYniv  110 (120)
T PF08579_consen   31 NINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNIV  110 (120)
T ss_pred             HHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHHH
Confidence            4566667799999999998876     578899999999988773        477899999999999999999999999


Q ss_pred             HHHHhc
Q 046694           72 LTACSL   77 (118)
Q Consensus        72 l~~~~~   77 (118)
                      ++.+.+
T Consensus       111 l~~Llk  116 (120)
T PF08579_consen  111 LGSLLK  116 (120)
T ss_pred             HHHHHH
Confidence            998765

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 [, , ].

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

Probab=98.36  E-value=3.3e-05  Score=45.53  Aligned_cols=99  Identities=21%  Similarity=0.154  Sum_probs=80.0

Q ss_pred             HHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCCh
Q 046694            5 RLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLV   81 (118)
Q Consensus         5 ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~   81 (118)
                      +...+.+.|++++|...|++..   ..+...|..+-..+.+.|++++|...+++..+.. +.+...+..+-..+...|+.
T Consensus        23 ~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~g~~  101 (135)
T TIGR02552        23 LAYNLYQQGRYDEALKLFQLLAAYDPYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAECLLALGEP  101 (135)
T ss_pred             HHHHHHHcccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHHcCCH
Confidence            4567788999999999998764   3477888889999999999999999999987664 44677777788899999999


Q ss_pred             hhHHHHHHHHhhcCCCccHHHHHHH
Q 046694           82 EKGKKFFDEMQARNVKPTETHYACM  106 (118)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~~t~~~l  106 (118)
                      +.|...|+...+.  .|+...+..+
T Consensus       102 ~~A~~~~~~al~~--~p~~~~~~~~  124 (135)
T TIGR02552       102 ESALKALDLAIEI--CGENPEYSEL  124 (135)
T ss_pred             HHHHHHHHHHHHh--ccccchHHHH
Confidence            9999999998774  4555554433

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

>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=98.33  E-value=2.3e-05  Score=57.34  Aligned_cols=108  Identities=17%  Similarity=0.112  Sum_probs=49.6

Q ss_pred             HHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhh
Q 046694            7 DFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEK   83 (118)
Q Consensus         7 ~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~   83 (118)
                      ..+...|++++|...|++..   ..+...|..+-..+...|++++|...|++..+.. +.+...+..+-..+.+.|++++
T Consensus       373 ~~~~~~g~~~eA~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~e  451 (615)
T TIGR00990       373 SMNLELGDPDKAEEDFDKALKLNSEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFSHIQLGVTQYKEGSIAS  451 (615)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHHHHHHHHHHHHCCCHHH
Confidence            33444455555555544332   1234444445555555555555555555544331 1123334444444455555555


Q ss_pred             HHHHHHHHhhcCCCccHHHHHHHHHHHHHcccc
Q 046694           84 GKKFFDEMQARNVKPTETHYACMVYLLIKYNQK  116 (118)
Q Consensus        84 a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~  116 (118)
                      |...|++..+. .+.+...++.+-.++...|++
T Consensus       452 A~~~~~~al~~-~P~~~~~~~~lg~~~~~~g~~  483 (615)
T TIGR00990       452 SMATFRRCKKN-FPEAPDVYNYYGELLLDQNKF  483 (615)
T ss_pred             HHHHHHHHHHh-CCCChHHHHHHHHHHHHccCH
Confidence            55555554432 122344455555555555443

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.31  E-value=4.6e-05  Score=45.87  Aligned_cols=89  Identities=17%  Similarity=0.008  Sum_probs=76.4

Q ss_pred             HHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCCh
Q 046694            5 RLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLV   81 (118)
Q Consensus         5 ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~   81 (118)
                      +-..+...|++++|...|++..   ..+...|..+-..+...|++++|...|++..... +.+...+..+-.++...|+.
T Consensus        30 ~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~-p~~~~a~~~lg~~l~~~g~~  108 (144)
T PRK15359         30 SGYASWQEGDYSRAVIDFSWLVMAQPWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD-ASHPEPVYQTGVCLKMMGEP  108 (144)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCH
Confidence            3456778999999999999765   3488889999999999999999999999998753 34778888888899999999


Q ss_pred             hhHHHHHHHHhhc
Q 046694           82 EKGKKFFDEMQAR   94 (118)
Q Consensus        82 ~~a~~~~~~m~~~   94 (118)
                      ++|...|+...+.
T Consensus       109 ~eAi~~~~~Al~~  121 (144)
T PRK15359        109 GLAREAFQTAIKM  121 (144)
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999998774

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

Probab=98.29  E-value=4.5e-06  Score=55.28  Aligned_cols=107  Identities=16%  Similarity=0.245  Sum_probs=44.6

Q ss_pred             HHHHHhcCCHHHHHHHhhhCC-----CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc-cHHHHHHHHHHHhcCC
Q 046694            6 LDFYTRTGRIDLANKIFDRLP-----VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEY-YPVSHIGVLTACSLGG   79 (118)
Q Consensus         6 l~~~~~~~~~~~a~~~~~~m~-----~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~   79 (118)
                      +..+.+.++++++..++++..     .++...|..+-..+.+.|++++|++.+++..+.  .| |....+.++..+...|
T Consensus       117 l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~--~P~~~~~~~~l~~~li~~~  194 (280)
T PF13429_consen  117 LQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKALEL--DPDDPDARNALAWLLIDMG  194 (280)
T ss_dssp             -H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH---TT-HHHHHHHHHHHCTTC
T ss_pred             HHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHCC
Confidence            344444455555544444421     123444444444444555555555555554433  23 2344444444445555


Q ss_pred             ChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccc
Q 046694           80 LVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQ  115 (118)
Q Consensus        80 ~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~  115 (118)
                      +.+++.++++...+.. +.|+..+..+-.+|...|+
T Consensus       195 ~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~  229 (280)
T PF13429_consen  195 DYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGR  229 (280)
T ss_dssp             HHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-
T ss_pred             ChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhccccc
Confidence            5555444444443322 3333344444444444443

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=98.28  E-value=4.7e-05  Score=56.28  Aligned_cols=43  Identities=7%  Similarity=-0.036  Sum_probs=18.3

Q ss_pred             HHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccc
Q 046694           72 LTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQ  115 (118)
Q Consensus        72 l~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~  115 (118)
                      ...+.+.|++++|...+++..+.. +.+...+..+-..|.+.|+
T Consensus       219 ~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~~~~Lg~~l~~~G~  261 (656)
T PRK15174        219 VDTLCAVGKYQEAIQTGESALARG-LDGAALRRSLGLAYYQSGR  261 (656)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCC
Confidence            334444444444444444443322 1123344444444444444

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=98.25  E-value=4.3e-05  Score=56.45  Aligned_cols=112  Identities=5%  Similarity=-0.088  Sum_probs=66.5

Q ss_pred             HHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCC
Q 046694            4 PRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGL   80 (118)
Q Consensus         4 ~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~   80 (118)
                      .+...+.+.|++++|...|++..   ..+...+..+...+...|++++|...++.+....-.+ ...+..+ ..+...|+
T Consensus       115 ~la~~l~~~g~~~~Ai~~l~~Al~l~P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P~~-~~a~~~~-~~l~~~g~  192 (656)
T PRK15174        115 LVASVLLKSKQYATVADLAEQAWLAFSGNSQIFALHLRTLVLMDKELQAISLARTQAQEVPPR-GDMIATC-LSFLNKSR  192 (656)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCCCC-HHHHHHH-HHHHHcCC
Confidence            34455666777777777776654   2355666777777777777777777777665442222 2222222 23566777


Q ss_pred             hhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           81 VEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        81 ~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      +++|...++.+.+..-.++...+..+..++.+.|+.+
T Consensus       193 ~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~  229 (656)
T PRK15174        193 LPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQ  229 (656)
T ss_pred             HHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHH
Confidence            7777777777755543334444455556666666543

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

Probab=98.25  E-value=2.4e-05  Score=41.96  Aligned_cols=91  Identities=15%  Similarity=0.163  Sum_probs=73.4

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcC
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLG   78 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~   78 (118)
                      |..+...+...|++++|..+|++..   ..+...+..+...+...+++++|.+.|++..... +.+...+..+...+...
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~   81 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYKL   81 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHHH
Confidence            4556778888999999999998764   2344677788888888999999999999987653 33446788888899999


Q ss_pred             CChhhHHHHHHHHhh
Q 046694           79 GLVEKGKKFFDEMQA   93 (118)
Q Consensus        79 ~~~~~a~~~~~~m~~   93 (118)
                      |+.+.|.+.+....+
T Consensus        82 ~~~~~a~~~~~~~~~   96 (100)
T cd00189          82 GKYEEALEAYEKALE   96 (100)
T ss_pred             HhHHHHHHHHHHHHc
Confidence            999999999988755

>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=98.24  E-value=6.5e-05  Score=55.04  Aligned_cols=114  Identities=14%  Similarity=-0.058  Sum_probs=88.9

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC--CC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcC
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP--VK-DSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLG   78 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~--~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~   78 (118)
                      |+.+...+...|++++|+..|++..  .| +...|..+-..+...|++++|...|++..+.. +-+...|..+-..+...
T Consensus       334 ~~~lg~~~~~~g~~~eA~~~~~kal~l~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~lg~~~~~~  412 (615)
T TIGR00990       334 LNLRGTFKCLKGKHLEALADLSKSIELDPRVTQSYIKRASMNLELGDPDKAEEDFDKALKLN-SEDPDIYYHRAQLHFIK  412 (615)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHc
Confidence            3445566778899999999998765  33 46678888888889999999999999987652 23577888888899999


Q ss_pred             CChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           79 GLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        79 ~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      |++++|...|++..+.. +.+...+..+-.++.+.|+.+
T Consensus       413 g~~~~A~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~  450 (615)
T TIGR00990       413 GEFAQAGKDYQKSIDLD-PDFIFSHIQLGVTQYKEGSIA  450 (615)
T ss_pred             CCHHHHHHHHHHHHHcC-ccCHHHHHHHHHHHHHCCCHH
Confidence            99999999999987753 234666777778888877764

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

Probab=98.20  E-value=1.7e-05  Score=59.29  Aligned_cols=85  Identities=20%  Similarity=0.147  Sum_probs=78.2

Q ss_pred             CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHH
Q 046694           28 KDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMV  107 (118)
Q Consensus        28 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li  107 (118)
                      ++..+|..++..-..+|+.+.|..++.+|++.|++.+.--|-.+|-+   .++...++.+...|.+.|+.|+..|+...+
T Consensus       202 ~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyv  278 (1088)
T KOG4318|consen  202 PTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYV  278 (1088)
T ss_pred             CChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHH
Confidence            68999999999999999999999999999999999999888888766   899999999999999999999999999888


Q ss_pred             HHHHHccc
Q 046694          108 YLLIKYNQ  115 (118)
Q Consensus       108 ~~~~~~g~  115 (118)
                      ..+.++|.
T Consensus       279 ip~l~N~~  286 (1088)
T KOG4318|consen  279 IPQLSNGQ  286 (1088)
T ss_pred             Hhhhcchh
Confidence            87777654

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

Probab=98.17  E-value=1.6e-06  Score=64.52  Aligned_cols=79  Identities=15%  Similarity=0.225  Sum_probs=70.1

Q ss_pred             CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHH
Q 046694           27 VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACM  106 (118)
Q Consensus        27 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~l  106 (118)
                      .||.+||..+|.-||..|+.+.|- +|.-|+-...+.+...|+.++.+-..+++.+.+.           .|-..||+.|
T Consensus        22 ~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-----------ep~aDtyt~L   89 (1088)
T KOG4318|consen   22 LPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK-----------EPLADTYTNL   89 (1088)
T ss_pred             CCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC-----------CCchhHHHHH
Confidence            688899999999999999999888 9998887777788999999999999999888776           8899999999


Q ss_pred             HHHHHHccccc
Q 046694          107 VYLLIKYNQKA  117 (118)
Q Consensus       107 i~~~~~~g~~~  117 (118)
                      ..+|.+.||+.
T Consensus        90 l~ayr~hGDli  100 (1088)
T KOG4318|consen   90 LKAYRIHGDLI  100 (1088)
T ss_pred             HHHHHhccchH
Confidence            99999999864

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.13  E-value=0.00016  Score=41.27  Aligned_cols=93  Identities=16%  Similarity=0.041  Sum_probs=74.4

Q ss_pred             hHHHHHHHhcCCHHHHHHHhhhCC--CCC----HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCccHHHHHHHHHH
Q 046694            3 EPRLDFYTRTGRIDLANKIFDRLP--VKD----SASWITLILGYGMLGELDVAINLFEAMREDG--VEYYPVSHIGVLTA   74 (118)
Q Consensus         3 ~~ll~~~~~~~~~~~a~~~~~~m~--~~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~--~~p~~~~~~~ll~~   74 (118)
                      -.+...+.+.|++++|...|++..  .|+    ...+..+...+.+.|+++.|.+.|++.....  .+.....+..+...
T Consensus         6 ~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~   85 (119)
T TIGR02795         6 YDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGMS   85 (119)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHHH
Confidence            356677889999999999999885  232    3456678899999999999999999997642  11224567778888


Q ss_pred             HhcCCChhhHHHHHHHHhhcC
Q 046694           75 CSLGGLVEKGKKFFDEMQARN   95 (118)
Q Consensus        75 ~~~~~~~~~a~~~~~~m~~~g   95 (118)
                      +.+.|+.+.|.+.++++.+..
T Consensus        86 ~~~~~~~~~A~~~~~~~~~~~  106 (119)
T TIGR02795        86 LQELGDKEKAKATLQQVIKRY  106 (119)
T ss_pred             HHHhCChHHHHHHHHHHHHHC
Confidence            899999999999999998764

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.

>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase

Probab=98.12  E-value=0.00014  Score=42.91  Aligned_cols=53  Identities=8%  Similarity=0.024  Sum_probs=35.5

Q ss_pred             CCCccHHHHHHHHHHHhcCCChhhHHHHHHHH-hhcCCCccHHHHHHHHHHHHH
Q 046694           60 GVEYYPVSHIGVLTACSLGGLVEKGKKFFDEM-QARNVKPTETHYACMVYLLIK  112 (118)
Q Consensus        60 ~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m-~~~g~~~~~~t~~~li~~~~~  112 (118)
                      ...|+..+..+++.+|+..+++..|.++.+.+ ...+++.+..+|..|++-...
T Consensus        47 pl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~v  100 (126)
T PF12921_consen   47 PLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWAYV  100 (126)
T ss_pred             CCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Confidence            34566777777777777777777777777776 556666667777776665543

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

>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=98.10  E-value=0.0001  Score=49.45  Aligned_cols=111  Identities=14%  Similarity=0.122  Sum_probs=78.3

Q ss_pred             HHHHHHHhcCCHHHHHHHhhhCCCC--CHh---hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcC
Q 046694            4 PRLDFYTRTGRIDLANKIFDRLPVK--DSA---SWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLG   78 (118)
Q Consensus         4 ~ll~~~~~~~~~~~a~~~~~~m~~~--~~~---~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~   78 (118)
                      ..+.+|.+.++++.|.+.++.|++.  |..   ...+.+..+.-...+.+|..+|+++.+ ...+++.+.+.+.-+....
T Consensus       136 l~Vqi~L~~~R~dlA~k~l~~~~~~~eD~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~-~~~~t~~~lng~A~~~l~~  214 (290)
T PF04733_consen  136 LAVQILLKMNRPDLAEKELKNMQQIDEDSILTQLAEAWVNLATGGEKYQDAFYIFEELSD-KFGSTPKLLNGLAVCHLQL  214 (290)
T ss_dssp             HHHHHHHHTT-HHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHC-CS--SHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHh-ccCCCHHHHHHHHHHHHHh
Confidence            3578899999999999999998732  322   222333333333469999999999754 4678889999999999999


Q ss_pred             CChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHcccc
Q 046694           79 GLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQK  116 (118)
Q Consensus        79 ~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~  116 (118)
                      |++++|.+++.+..+.. +-++.|..+++-+..-.|+-
T Consensus       215 ~~~~eAe~~L~~al~~~-~~~~d~LaNliv~~~~~gk~  251 (290)
T PF04733_consen  215 GHYEEAEELLEEALEKD-PNDPDTLANLIVCSLHLGKP  251 (290)
T ss_dssp             T-HHHHHHHHHHHCCC--CCHHHHHHHHHHHHHHTT-T
T ss_pred             CCHHHHHHHHHHHHHhc-cCCHHHHHHHHHHHHHhCCC
Confidence            99999999999986544 33577777787777666643

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.

>PRK12370 invasion protein regulator; Provisional

Probab=98.03  E-value=0.00026  Score=51.37  Aligned_cols=111  Identities=16%  Similarity=0.008  Sum_probs=77.9

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC--CC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc-cHHHHHHHHHHHhc
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP--VK-DSASWITLILGYGMLGELDVAINLFEAMREDGVEY-YPVSHIGVLTACSL   77 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~--~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~   77 (118)
                      |..+-.++...|++++|...+++..  .| +...+..+...+...|++++|...+++..+.. +| +...+..+-..+..
T Consensus       375 ~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~~~~~~~~~~~~~~~~g~~eeA~~~~~~~l~~~-~p~~~~~~~~la~~l~~  453 (553)
T PRK12370        375 KYYYGWNLFMAGQLEEALQTINECLKLDPTRAAAGITKLWITYYHTGIDDAIRLGDELRSQH-LQDNPILLSMQVMFLSL  453 (553)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhcCCCChhhHHHHHHHHHhccCHHHHHHHHHHHHHhc-cccCHHHHHHHHHHHHh
Confidence            3456677889999999999999875  34 33334444555677899999999999987653 34 34556777778889


Q ss_pred             CCChhhHHHHHHHHhhcCCCcc-HHHHHHHHHHHHHccc
Q 046694           78 GGLVEKGKKFFDEMQARNVKPT-ETHYACMVYLLIKYNQ  115 (118)
Q Consensus        78 ~~~~~~a~~~~~~m~~~g~~~~-~~t~~~li~~~~~~g~  115 (118)
                      .|+.++|...+.++...  .|+ ....+.+-..|.+.|+
T Consensus       454 ~G~~~eA~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~  490 (553)
T PRK12370        454 KGKHELARKLTKEISTQ--EITGLIAVNLLYAEYCQNSE  490 (553)
T ss_pred             CCCHHHHHHHHHHhhhc--cchhHHHHHHHHHHHhccHH
Confidence            99999999999987543  333 3444455555555553

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

Probab=98.01  E-value=1.2e-05  Score=43.81  Aligned_cols=76  Identities=22%  Similarity=0.223  Sum_probs=55.9

Q ss_pred             cCCHHHHHHHhhhCC--CC---CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc-cHHHHHHHHHHHhcCCChhhHH
Q 046694           12 TGRIDLANKIFDRLP--VK---DSASWITLILGYGMLGELDVAINLFEAMREDGVEY-YPVSHIGVLTACSLGGLVEKGK   85 (118)
Q Consensus        12 ~~~~~~a~~~~~~m~--~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~~a~   85 (118)
                      .|+++.|+.+|+++.  .|   +...+-.+-.+|.+.|++++|..++++ .+  ..| +....-.+-.++.+.|++++|.
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            578999999999886  23   344555578999999999999999998 22  223 2333345578888999999999


Q ss_pred             HHHHH
Q 046694           86 KFFDE   90 (118)
Q Consensus        86 ~~~~~   90 (118)
                      +++++
T Consensus        79 ~~l~~   83 (84)
T PF12895_consen   79 KALEK   83 (84)
T ss_dssp             HHHHH
T ss_pred             HHHhc
Confidence            99875

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

Probab=97.99  E-value=0.00044  Score=47.66  Aligned_cols=98  Identities=11%  Similarity=0.067  Sum_probs=78.9

Q ss_pred             HHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhh
Q 046694            7 DFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEK   83 (118)
Q Consensus         7 ~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~   83 (118)
                      ......|++++|+.+|++..   ..+...|..+-.+|.+.|++++|+..+++..+.. +.+...|..+-.+|...|+++.
T Consensus        10 ~~a~~~~~~~~Ai~~~~~Al~~~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~~~e   88 (356)
T PLN03088         10 KEAFVDDDFALAVDLYTQAIDLDPNNAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEEYQT   88 (356)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCCHHH
Confidence            45567899999999999775   3477888888999999999999999999998753 2367788888899999999999


Q ss_pred             HHHHHHHHhhcCCCccHHHHHHHH
Q 046694           84 GKKFFDEMQARNVKPTETHYACMV  107 (118)
Q Consensus        84 a~~~~~~m~~~g~~~~~~t~~~li  107 (118)
                      |...|++..+.  .|+......++
T Consensus        89 A~~~~~~al~l--~P~~~~~~~~l  110 (356)
T PLN03088         89 AKAALEKGASL--APGDSRFTKLI  110 (356)
T ss_pred             HHHHHHHHHHh--CCCCHHHHHHH
Confidence            99999999774  34444444333

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=97.97  E-value=0.00025  Score=42.68  Aligned_cols=96  Identities=10%  Similarity=-0.006  Sum_probs=76.2

Q ss_pred             HHhhhCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCcc
Q 046694           20 KIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPT   99 (118)
Q Consensus        20 ~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~   99 (118)
                      .+|++-.+-+...+...-..+...|++++|...|++..... +.+...+..+-.++.+.|++++|...|++..+.. +.+
T Consensus        14 ~~~~~al~~~p~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~-p~~   91 (144)
T PRK15359         14 DILKQLLSVDPETVYASGYASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD-ASH   91 (144)
T ss_pred             HHHHHHHHcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCC
Confidence            34444433344446667788889999999999999988753 3478889999999999999999999999998753 447


Q ss_pred             HHHHHHHHHHHHHccccc
Q 046694          100 ETHYACMVYLLIKYNQKA  117 (118)
Q Consensus       100 ~~t~~~li~~~~~~g~~~  117 (118)
                      ...+..+-.++.+.|+.+
T Consensus        92 ~~a~~~lg~~l~~~g~~~  109 (144)
T PRK15359         92 PEPVYQTGVCLKMMGEPG  109 (144)
T ss_pred             cHHHHHHHHHHHHcCCHH
Confidence            888888999999888765

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=97.96  E-value=0.00037  Score=48.64  Aligned_cols=110  Identities=10%  Similarity=0.037  Sum_probs=83.2

Q ss_pred             HHHHHHHhcCCHHHHHHHhhhCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc-cHHHHHHHHHHHhcCCChh
Q 046694            4 PRLDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEY-YPVSHIGVLTACSLGGLVE   82 (118)
Q Consensus         4 ~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~   82 (118)
                      .+...+...|+.++|.+++++........--.++.+....++++++++..+...+.  .| |.....++-+.+.+.++++
T Consensus       268 ~~A~~l~~~g~~~~A~~~L~~~l~~~~~~~l~~l~~~l~~~~~~~al~~~e~~lk~--~P~~~~l~l~lgrl~~~~~~~~  345 (398)
T PRK10747        268 AMAEHLIECDDHDTAQQIILDGLKRQYDERLVLLIPRLKTNNPEQLEKVLRQQIKQ--HGDTPLLWSTLGQLLMKHGEWQ  345 (398)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhcCCCHHHHHHHhhccCCChHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHCCCHH
Confidence            34567778899999998887665322222222445555668899999999888765  34 5666888888999999999


Q ss_pred             hHHHHHHHHhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           83 KGKKFFDEMQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      +|.+.|+...+  ..|+..++..+-.++-+.|+.+
T Consensus       346 ~A~~~le~al~--~~P~~~~~~~La~~~~~~g~~~  378 (398)
T PRK10747        346 EASLAFRAALK--QRPDAYDYAWLADALDRLHKPE  378 (398)
T ss_pred             HHHHHHHHHHh--cCCCHHHHHHHHHHHHHcCCHH
Confidence            99999999987  4689999889999998888754

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

Probab=97.96  E-value=0.00076  Score=44.12  Aligned_cols=110  Identities=14%  Similarity=0.074  Sum_probs=88.6

Q ss_pred             HHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc-cHHHHHHHHHHHhcCCC
Q 046694            5 RLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEY-YPVSHIGVLTACSLGGL   80 (118)
Q Consensus         5 ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~   80 (118)
                      ......+.|++..|...|.+..   .+|...|+.+--+|-+.|+++.|..-|.+..+-  .| +...+|.+.-.+.-.|+
T Consensus       106 ~gk~~~~~g~~~~A~~~~rkA~~l~p~d~~~~~~lgaaldq~Gr~~~Ar~ay~qAl~L--~~~~p~~~nNlgms~~L~gd  183 (257)
T COG5010         106 QGKNQIRNGNFGEAVSVLRKAARLAPTDWEAWNLLGAALDQLGRFDEARRAYRQALEL--APNEPSIANNLGMSLLLRGD  183 (257)
T ss_pred             HHHHHHHhcchHHHHHHHHHHhccCCCChhhhhHHHHHHHHccChhHHHHHHHHHHHh--ccCCchhhhhHHHHHHHcCC
Confidence            4566678899999999999775   459999999999999999999999999998775  33 66778888888888999


Q ss_pred             hhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           81 VEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        81 ~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      ++.|..++......+- -|...-..+....+.-|+++
T Consensus       184 ~~~A~~lll~a~l~~~-ad~~v~~NLAl~~~~~g~~~  219 (257)
T COG5010         184 LEDAETLLLPAYLSPA-ADSRVRQNLALVVGLQGDFR  219 (257)
T ss_pred             HHHHHHHHHHHHhCCC-CchHHHHHHHHHHhhcCChH
Confidence            9999999999866543 35566666666666666654

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.96  E-value=0.00014  Score=49.33  Aligned_cols=98  Identities=15%  Similarity=0.175  Sum_probs=80.0

Q ss_pred             hHHHHHHHhcCCHHHHHHHhhhCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChh
Q 046694            3 EPRLDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVE   82 (118)
Q Consensus         3 ~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~   82 (118)
                      +..|.-+...|+...|.++-.+.+-|+..-|...+.+++..++|++..++...      +-++.-|-.++.+|.+.|+.+
T Consensus       181 ~~Ti~~li~~~~~k~A~kl~k~Fkv~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~~~~~~~  254 (319)
T PF04840_consen  181 NDTIRKLIEMGQEKQAEKLKKEFKVPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACLKYGNKK  254 (319)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHHHCCCHH
Confidence            44567778899999999999999999999999999999999999998886543      225588999999999999999


Q ss_pred             hHHHHHHHHhhcCCCccHHHHHHHHHHHHHcccc
Q 046694           83 KGKKFFDEMQARNVKPTETHYACMVYLLIKYNQK  116 (118)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~  116 (118)
                      +|.++..++          ++..-+..|.++|++
T Consensus       255 eA~~yI~k~----------~~~~rv~~y~~~~~~  278 (319)
T PF04840_consen  255 EASKYIPKI----------PDEERVEMYLKCGDY  278 (319)
T ss_pred             HHHHHHHhC----------ChHHHHHHHHHCCCH
Confidence            999888872          224456666666654

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

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=97.95  E-value=0.00048  Score=53.17  Aligned_cols=103  Identities=7%  Similarity=-0.025  Sum_probs=45.8

Q ss_pred             HhcCCHHHHHHHhhhCC--CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHH
Q 046694           10 TRTGRIDLANKIFDRLP--VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKF   87 (118)
Q Consensus        10 ~~~~~~~~a~~~~~~m~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~   87 (118)
                      ...|++++|+..|+++.  .|+...+..+...+.+.|++++|...+++..+.. +.+...+..+.....+.|++++|...
T Consensus       520 ~~~Gr~eeAi~~~rka~~~~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~-P~~~~l~~~La~~l~~~Gr~~eAl~~  598 (987)
T PRK09782        520 YQVEDYATALAAWQKISLHDMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRG-LGDNALYWWLHAQRYIPGQPELALND  598 (987)
T ss_pred             HHCCCHHHHHHHHHHHhccCCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHhCCCHHHHHHH
Confidence            35666666666665543  1222333444444555555555555555554432 11112222222222233555555555


Q ss_pred             HHHHhhcCCCccHHHHHHHHHHHHHccc
Q 046694           88 FDEMQARNVKPTETHYACMVYLLIKYNQ  115 (118)
Q Consensus        88 ~~~m~~~g~~~~~~t~~~li~~~~~~g~  115 (118)
                      +++..+.  .|+...+..+-.++.+.|+
T Consensus       599 ~~~AL~l--~P~~~a~~~LA~~l~~lG~  624 (987)
T PRK09782        599 LTRSLNI--APSANAYVARATIYRQRHN  624 (987)
T ss_pred             HHHHHHh--CCCHHHHHHHHHHHHHCCC
Confidence            5544432  2334444444444444444

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

Probab=97.94  E-value=0.0007  Score=42.95  Aligned_cols=106  Identities=8%  Similarity=0.052  Sum_probs=78.5

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHH-HHhcCC--HHHHHHHHHHHHHcCCCccHHHHHHHHHHH
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILG-YGMLGE--LDVAINLFEAMREDGVEYYPVSHIGVLTAC   75 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~-~~~~~~--~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~   75 (118)
                      |..|-..|...|++++|...|++..   ..+...+..+-.+ +...|+  .++|.+++++..+..- -+...+..+-..+
T Consensus        76 w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP-~~~~al~~LA~~~  154 (198)
T PRK10370         76 WALLGEYYLWRNDYDNALLAYRQALQLRGENAELYAALATVLYYQAGQHMTPQTREMIDKALALDA-NEVTALMLLASDA  154 (198)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCC-CChhHHHHHHHHH
Confidence            5566778889999999999998665   3377777777765 466676  5999999999987632 2667788888888


Q ss_pred             hcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHH
Q 046694           76 SLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLL  110 (118)
Q Consensus        76 ~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~  110 (118)
                      .+.|++++|...|+++.+.. .|+..-+. +|+..
T Consensus       155 ~~~g~~~~Ai~~~~~aL~l~-~~~~~r~~-~i~~i  187 (198)
T PRK10370        155 FMQADYAQAIELWQKVLDLN-SPRVNRTQ-LVESI  187 (198)
T ss_pred             HHcCCHHHHHHHHHHHHhhC-CCCccHHH-HHHHH
Confidence            89999999999999997743 44444433 33543

>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=97.93  E-value=0.00018  Score=43.10  Aligned_cols=73  Identities=12%  Similarity=0.136  Sum_probs=54.9

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHH-----hhcCCCccHHHHHH
Q 046694           32 SWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEM-----QARNVKPTETHYAC  105 (118)
Q Consensus        32 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m-----~~~g~~~~~~t~~~  105 (118)
                      ....++..+...|++++|.++.+.+.... +.+...|..++.++...|+...|.+.|+.+     .+.|+.|+..|-..
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~~l  141 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETRAL  141 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHHHH
Confidence            45566667778999999999999998752 458999999999999999999999999987     46899999877543

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

>PRK11189 lipoprotein NlpI; Provisional

Probab=97.92  E-value=0.0007  Score=45.46  Aligned_cols=89  Identities=19%  Similarity=0.151  Sum_probs=65.0

Q ss_pred             HHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc-cHHHHHHHHHHHhcCC
Q 046694            4 PRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEY-YPVSHIGVLTACSLGG   79 (118)
Q Consensus         4 ~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~   79 (118)
                      .+-..|.+.|+.++|...|++..   ..+...|+.+-..+...|++++|...|++..+.  .| +...+..+-..+...|
T Consensus        69 ~~g~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l--~P~~~~a~~~lg~~l~~~g  146 (296)
T PRK11189         69 ERGVLYDSLGLRALARNDFSQALALRPDMADAYNYLGIYLTQAGNFDAAYEAFDSVLEL--DPTYNYAYLNRGIALYYGG  146 (296)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCC
Confidence            34456677788888888887654   336677888888888888888888888887754  34 3566666777777788


Q ss_pred             ChhhHHHHHHHHhhc
Q 046694           80 LVEKGKKFFDEMQAR   94 (118)
Q Consensus        80 ~~~~a~~~~~~m~~~   94 (118)
                      ++++|.+.|+...+.
T Consensus       147 ~~~eA~~~~~~al~~  161 (296)
T PRK11189        147 RYELAQDDLLAFYQD  161 (296)
T ss_pred             CHHHHHHHHHHHHHh
Confidence            888888888887654

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=97.92  E-value=0.0004  Score=54.47  Aligned_cols=111  Identities=14%  Similarity=0.100  Sum_probs=73.0

Q ss_pred             HHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc-cHHHHHHHHHHHhcCC
Q 046694            4 PRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEY-YPVSHIGVLTACSLGG   79 (118)
Q Consensus         4 ~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~   79 (118)
                      .+-..+.+.|++++|+..|++..   ..+...+..+...|...|++++|.+.++...+.  .| +......+-.++...|
T Consensus       608 ~La~~~~~~g~~~~A~~~y~~al~~~P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~--~p~~~~~~~~la~~~~~~g  685 (1157)
T PRK11447        608 TLADWAQQRGDYAAARAAYQRVLTREPGNADARLGLIEVDIAQGDLAAARAQLAKLPAT--ANDSLNTQRRVALAWAALG  685 (1157)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCChHHHHHHHHHHHhCC
Confidence            34556677788888888777664   236677777888888888888888888876543  33 3455566666777788


Q ss_pred             ChhhHHHHHHHHhhcCCC--c---cHHHHHHHHHHHHHcccc
Q 046694           80 LVEKGKKFFDEMQARNVK--P---TETHYACMVYLLIKYNQK  116 (118)
Q Consensus        80 ~~~~a~~~~~~m~~~g~~--~---~~~t~~~li~~~~~~g~~  116 (118)
                      +.++|.++++++....-.  |   +...+..+-..+.+.|+.
T Consensus       686 ~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~  727 (1157)
T PRK11447        686 DTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQP  727 (1157)
T ss_pred             CHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCH
Confidence            888888888887654321  1   223444445556665554

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=97.91  E-value=0.00099  Score=50.25  Aligned_cols=110  Identities=11%  Similarity=0.009  Sum_probs=71.7

Q ss_pred             hHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCC
Q 046694            3 EPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGG   79 (118)
Q Consensus         3 ~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~   79 (118)
                      ..+...+.+.|++++|..+|++..   ..+...+..+...+...|++++|...+++..+.. +.+.. +..+-..+...|
T Consensus        53 ~~lA~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~l~~~g~~~eA~~~l~~~l~~~-P~~~~-~~~la~~l~~~g  130 (765)
T PRK10049         53 AAVAVAYRNLKQWQNSLTLWQKALSLEPQNDDYQRGLILTLADAGQYDEALVKAKQLVSGA-PDKAN-LLALAYVYKRAG  130 (765)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHH-HHHHHHHHHHCC
Confidence            345556777788888888887742   3355566677777777888888888888876651 22344 666777777788


Q ss_pred             ChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccc
Q 046694           80 LVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQ  115 (118)
Q Consensus        80 ~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~  115 (118)
                      +.++|...+++..+.... +...+..+..++.+.|.
T Consensus       131 ~~~~Al~~l~~al~~~P~-~~~~~~~la~~l~~~~~  165 (765)
T PRK10049        131 RHWDELRAMTQALPRAPQ-TQQYPTEYVQALRNNRL  165 (765)
T ss_pred             CHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCC
Confidence            888888888887664322 34444455555555443

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

Probab=97.91  E-value=0.00011  Score=48.99  Aligned_cols=115  Identities=16%  Similarity=0.180  Sum_probs=82.9

Q ss_pred             CchHHHHHHHhcCCHHHHHHHhhhCCCCCHhhHHHHH---HH-HHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHh
Q 046694            1 MIEPRLDFYTRTGRIDLANKIFDRLPVKDSASWITLI---LG-YGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACS   76 (118)
Q Consensus         1 t~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li---~~-~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~   76 (118)
                      +|-.+|...-+.+.++.|+.+|.+.......+|...+   .. |...++.+.|.++|+...+. +.-+...|..-++-+.
T Consensus         3 v~i~~m~~~~r~~g~~~aR~vF~~a~~~~~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~l~   81 (280)
T PF05843_consen    3 VWIQYMRFMRRTEGIEAARKVFKRARKDKRCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDFLI   81 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCCCCS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCChHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHH
Confidence            3677888888999999999999988644333333333   22 33357788899999999765 4557788888899999


Q ss_pred             cCCChhhHHHHHHHHhhcCCCcc---HHHHHHHHHHHHHccccc
Q 046694           77 LGGLVEKGKKFFDEMQARNVKPT---ETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        77 ~~~~~~~a~~~~~~m~~~g~~~~---~~t~~~li~~~~~~g~~~  117 (118)
                      +.++.+.|..+|++.... +.++   ...|...++.=.+.|+++
T Consensus        82 ~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~  124 (280)
T PF05843_consen   82 KLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLE  124 (280)
T ss_dssp             HTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HH
T ss_pred             HhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHH
Confidence            999999999999999664 3333   358888888888887654

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.

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=97.91  E-value=0.00037  Score=53.75  Aligned_cols=102  Identities=13%  Similarity=0.093  Sum_probs=58.8

Q ss_pred             CCHHHHHHHhhhCC--CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc-cHHHHHHHHHHHhcCCChhhHHHHHH
Q 046694           13 GRIDLANKIFDRLP--VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEY-YPVSHIGVLTACSLGGLVEKGKKFFD   89 (118)
Q Consensus        13 ~~~~~a~~~~~~m~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~   89 (118)
                      |++++|...|++..  .|+...|..+-..+.+.|++++|...|++..+.  .| +...++.+-..+...|+.++|...++
T Consensus       590 Gr~~eAl~~~~~AL~l~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l--~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~  667 (987)
T PRK09782        590 GQPELALNDLTRSLNIAPSANAYVARATIYRQRHNVPAAVSDLRAALEL--EPNNSNYQAALGYALWDSGDIAQSREMLE  667 (987)
T ss_pred             CCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            66666666665543  345555666666666666666666666665554  23 34445555556666666666666666


Q ss_pred             HHhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           90 EMQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        90 ~m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      +..+.. +-+...+..+-.++.+.|+.+
T Consensus       668 ~AL~l~-P~~~~a~~nLA~al~~lGd~~  694 (987)
T PRK09782        668 RAHKGL-PDDPALIRQLAYVNQRLDDMA  694 (987)
T ss_pred             HHHHhC-CCCHHHHHHHHHHHHHCCCHH
Confidence            665532 224555666666666666543

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

Probab=97.91  E-value=0.00014  Score=51.12  Aligned_cols=89  Identities=11%  Similarity=0.149  Sum_probs=75.8

Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc--CCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHH
Q 046694           29 DSASWITLILGYGMLGELDVAINLFEAMRED--GVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACM  106 (118)
Q Consensus        29 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~--~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~l  106 (118)
                      +......+++.+....+++.+..++-+.+..  ....-..|..++++.|.+.|..+.+..++..=...|+=||..|+|.|
T Consensus        65 S~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n~L  144 (429)
T PF10037_consen   65 SSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFNLL  144 (429)
T ss_pred             cHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHHHH
Confidence            5566777888888888899999999999865  33333445569999999999999999999999999999999999999


Q ss_pred             HHHHHHccccc
Q 046694          107 VYLLIKYNQKA  117 (118)
Q Consensus       107 i~~~~~~g~~~  117 (118)
                      |+.+.+.|++.
T Consensus       145 md~fl~~~~~~  155 (429)
T PF10037_consen  145 MDHFLKKGNYK  155 (429)
T ss_pred             HHHHhhcccHH
Confidence            99999999864

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 [].

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

Probab=97.90  E-value=4.6e-05  Score=55.17  Aligned_cols=112  Identities=14%  Similarity=0.006  Sum_probs=86.7

Q ss_pred             CchHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHH---HH
Q 046694            1 MIEPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVL---TA   74 (118)
Q Consensus         1 t~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll---~~   74 (118)
                      ||.++-.+|+-.++.+.|++.|++-.   .....+|+.+-.-+.....++.|...|+.-.    ..|+..||++-   -.
T Consensus       423 sWca~GNcfSLQkdh~~Aik~f~RAiQldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al----~~~~rhYnAwYGlG~v  498 (638)
T KOG1126|consen  423 SWCALGNCFSLQKDHDTAIKCFKRAIQLDPRFAYAYTLLGHESIATEEFDKAMKSFRKAL----GVDPRHYNAWYGLGTV  498 (638)
T ss_pred             HHHHhcchhhhhhHHHHHHHHHHHhhccCCccchhhhhcCChhhhhHHHHhHHHHHHhhh----cCCchhhHHHHhhhhh
Confidence            79999999999999999999999775   3366788888888888899999999998755    56777888764   45


Q ss_pred             HhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           75 CSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        75 ~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      |.|.+.++.|+..|++..+-+.. +.+....+-..+.+.|+.|
T Consensus       499 y~Kqek~e~Ae~~fqkA~~INP~-nsvi~~~~g~~~~~~k~~d  540 (638)
T KOG1126|consen  499 YLKQEKLEFAEFHFQKAVEINPS-NSVILCHIGRIQHQLKRKD  540 (638)
T ss_pred             eeccchhhHHHHHHHhhhcCCcc-chhHHhhhhHHHHHhhhhh
Confidence            77889999999998888764432 4455555566666666544

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.89  E-value=0.00059  Score=41.90  Aligned_cols=114  Identities=14%  Similarity=0.042  Sum_probs=74.9

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC--CC----CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHH
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP--VK----DSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTAC   75 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~--~~----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~   75 (118)
                      |..+...+...|++++|+..|++..  .+    ...+|..+-..+...|++++|...+++..+.. +....++..+...+
T Consensus        38 ~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~-~~~~~~~~~la~i~  116 (168)
T CHL00033         38 YYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERN-PFLPQALNNMAVIC  116 (168)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHH
Confidence            3455666777899999999988763  22    23478888888999999999999999887642 22345556666666


Q ss_pred             h-------cCCChhhHHHHHHHHh---hcCCCccHHHHHHHHHHHHHcccc
Q 046694           76 S-------LGGLVEKGKKFFDEMQ---ARNVKPTETHYACMVYLLIKYNQK  116 (118)
Q Consensus        76 ~-------~~~~~~~a~~~~~~m~---~~g~~~~~~t~~~li~~~~~~g~~  116 (118)
                      .       +.|+++.|...+++-.   +..+..++..+......+...|++
T Consensus       117 ~~~~~~~~~~g~~~~A~~~~~~a~~~~~~a~~~~p~~~~~~~~~~~~~~~~  167 (168)
T CHL00033        117 HYRGEQAIEQGDSEIAEAWFDQAAEYWKQAIALAPGNYIEAQNWLKITGRF  167 (168)
T ss_pred             HHhhHHHHHcccHHHHHHHHHHHHHHHHHHHHhCcccHHHHHHHHHHhcCC
Confidence            6       7888887776666542   122334444445555555555554

>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=97.88  E-value=0.00018  Score=46.03  Aligned_cols=62  Identities=19%  Similarity=0.184  Sum_probs=51.3

Q ss_pred             CCCHhhHHHHHHHHHhcC----------------CHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCCh-hhHHHHH
Q 046694           27 VKDSASWITLILGYGMLG----------------ELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLV-EKGKKFF   88 (118)
Q Consensus        27 ~~~~~~~~~li~~~~~~~----------------~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~-~~a~~~~   88 (118)
                      ..|+.+|+.|++.+=+..                +-+-|++++++|...|+-||..++..+++.+++.+.. .+..++.
T Consensus        84 ~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~p~~K~~rmm  162 (228)
T PF06239_consen   84 EKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSHPMKKYRRMM  162 (228)
T ss_pred             cccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccHHHHHHHHHH
Confidence            579999999999886632                3588999999999999999999999999999988864 3344433

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

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

Probab=97.88  E-value=0.00055  Score=48.31  Aligned_cols=107  Identities=11%  Similarity=0.021  Sum_probs=88.9

Q ss_pred             HHHhcCCHHHHHHHhhhCC--CC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcc-HHHHHHHHHHHhcCCChhh
Q 046694            8 FYTRTGRIDLANKIFDRLP--VK-DSASWITLILGYGMLGELDVAINLFEAMREDGVEYY-PVSHIGVLTACSLGGLVEK   83 (118)
Q Consensus         8 ~~~~~~~~~~a~~~~~~m~--~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~   83 (118)
                      .+...|.+++|+..++.+.  .| |+.-+......+.+.|+..+|.+.++++...  .|+ ....-.+-+++.+.|++.+
T Consensus       315 ~~~~~~~~d~A~~~l~~L~~~~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~a~all~~g~~~e  392 (484)
T COG4783         315 QTYLAGQYDEALKLLQPLIAAQPDNPYYLELAGDILLEANKAKEAIERLKKALAL--DPNSPLLQLNLAQALLKGGKPQE  392 (484)
T ss_pred             HHHHhcccchHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCCccHHHHHHHHHHHhcCChHH
Confidence            4556788999999998875  34 7777778889999999999999999999875  565 5666667888999999999


Q ss_pred             HHHHHHHHhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           84 GKKFFDEMQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        84 a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      |+++++..... .+-|+..|.-|-++|.+.|+..
T Consensus       393 ai~~L~~~~~~-~p~dp~~w~~LAqay~~~g~~~  425 (484)
T COG4783         393 AIRILNRYLFN-DPEDPNGWDLLAQAYAELGNRA  425 (484)
T ss_pred             HHHHHHHHhhc-CCCCchHHHHHHHHHHHhCchH
Confidence            99999998663 5668999999999999998754

>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=97.87  E-value=0.00018  Score=48.31  Aligned_cols=106  Identities=9%  Similarity=0.056  Sum_probs=78.3

Q ss_pred             HHHhcCCHHHHHHHhhhCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHH---HHHHHHHhcCCChhhH
Q 046694            8 FYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSH---IGVLTACSLGGLVEKG   84 (118)
Q Consensus         8 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~---~~ll~~~~~~~~~~~a   84 (118)
                      .+...|++++|.+++++-  .+.-.....+..|.+.++++.|.+.++.|++-  ..|....   .+.++...-...++.|
T Consensus       111 i~~~~~~~~~AL~~l~~~--~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~--~eD~~l~qLa~awv~l~~g~e~~~~A  186 (290)
T PF04733_consen  111 ILFHEGDYEEALKLLHKG--GSLELLALAVQILLKMNRPDLAEKELKNMQQI--DEDSILTQLAEAWVNLATGGEKYQDA  186 (290)
T ss_dssp             HHCCCCHHHHHHCCCTTT--TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCC--SCCHHHHHHHHHHHHHHHTTTCCCHH
T ss_pred             HHHHcCCHHHHHHHHHcc--CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcHHHHHHHHHHHHHHhCchhHHHH
Confidence            456689999999999876  45666678889999999999999999999864  3343333   3334444344579999


Q ss_pred             HHHHHHHhhcCCCccHHHHHHHHHHHHHcccccC
Q 046694           85 KKFFDEMQARNVKPTETHYACMVYLLIKYNQKAR  118 (118)
Q Consensus        85 ~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~~  118 (118)
                      ..+|+++.+. +.+++.+.|.+.-+....|++++
T Consensus       187 ~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~e  219 (290)
T PF04733_consen  187 FYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEE  219 (290)
T ss_dssp             HHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHH
T ss_pred             HHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHH
Confidence            9999998654 67889999999999988888763

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.

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

Probab=97.85  E-value=0.00039  Score=41.79  Aligned_cols=112  Identities=11%  Similarity=0.064  Sum_probs=77.4

Q ss_pred             hHHHHHHHhcCCHHHHHHHhhhCCCC--CH----hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccH--HHHHHHHHH
Q 046694            3 EPRLDFYTRTGRIDLANKIFDRLPVK--DS----ASWITLILGYGMLGELDVAINLFEAMREDGVEYYP--VSHIGVLTA   74 (118)
Q Consensus         3 ~~ll~~~~~~~~~~~a~~~~~~m~~~--~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~--~~~~~ll~~   74 (118)
                      ..++..+ ..++...+...++++...  +.    ...=.+-..+...|++++|...|+........|+.  .....+-..
T Consensus        16 ~~~~~~~-~~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~   94 (145)
T PF09976_consen   16 EQALQAL-QAGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARI   94 (145)
T ss_pred             HHHHHHH-HCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHH
Confidence            3445555 478888888888877632  11    12222346777889999999999999887633432  344456788


Q ss_pred             HhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           75 CSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        75 ~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      +...|++++|...++......+  ....+...=++|.+.|+.+
T Consensus        95 ~~~~~~~d~Al~~L~~~~~~~~--~~~~~~~~Gdi~~~~g~~~  135 (145)
T PF09976_consen   95 LLQQGQYDEALATLQQIPDEAF--KALAAELLGDIYLAQGDYD  135 (145)
T ss_pred             HHHcCCHHHHHHHHHhccCcch--HHHHHHHHHHHHHHCCCHH
Confidence            8899999999999977544333  3445667778888888765

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=97.85  E-value=0.00075  Score=50.33  Aligned_cols=110  Identities=11%  Similarity=0.059  Sum_probs=84.3

Q ss_pred             HHHHHHhcCCHHHHHHHhhhCC--CC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc-cHHHHHHHHHHHhcCCC
Q 046694            5 RLDFYTRTGRIDLANKIFDRLP--VK-DSASWITLILGYGMLGELDVAINLFEAMREDGVEY-YPVSHIGVLTACSLGGL   80 (118)
Q Consensus         5 ll~~~~~~~~~~~a~~~~~~m~--~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~   80 (118)
                      |.....+.|+.++|..+++...  .| +......+...+.+.+.+++|+..+++..+.  .| +......+-.++.+.|+
T Consensus        92 La~i~~~~g~~~ea~~~l~~~~~~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~--~p~~~~~~~~~a~~l~~~g~  169 (694)
T PRK15179         92 VARALEAAHRSDEGLAVWRGIHQRFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSG--GSSSAREILLEAKSWDEIGQ  169 (694)
T ss_pred             HHHHHHHcCCcHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhc--CCCCHHHHHHHHHHHHHhcc
Confidence            3445567788999999998665  34 6677888888888999999999999988776  34 56667777778888899


Q ss_pred             hhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           81 VEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        81 ~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      .++|..+|++..+.+ .-+..++..+-.++-+.|+.+
T Consensus       170 ~~~A~~~y~~~~~~~-p~~~~~~~~~a~~l~~~G~~~  205 (694)
T PRK15179        170 SEQADACFERLSRQH-PEFENGYVGWAQSLTRRGALW  205 (694)
T ss_pred             hHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHH
Confidence            999999999987732 234777788888887777754

>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=97.78  E-value=0.00059  Score=40.28  Aligned_cols=81  Identities=12%  Similarity=0.110  Sum_probs=69.1

Q ss_pred             CchHHHHHHHhcCCHHHHHHHhhhCC-------------------CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHH-cC
Q 046694            1 MIEPRLDFYTRTGRIDLANKIFDRLP-------------------VKDSASWITLILGYGMLGELDVAINLFEAMRE-DG   60 (118)
Q Consensus         1 t~~~ll~~~~~~~~~~~a~~~~~~m~-------------------~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-~~   60 (118)
                      ++.++|.++++.|+++....+.+..-                   .|+..+-.+++.+|+..|++..|+++.+...+ -+
T Consensus         4 ~~~~ii~al~r~g~~~~i~~~i~~~WgI~~~~~~~~~~~~~~spl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~   83 (126)
T PF12921_consen    4 LLCNIIYALGRSGQLDSIKSYIKSVWGIDVNGKKKEGDYPPSSPLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYP   83 (126)
T ss_pred             HHHHHHHHHhhcCCHHHHHHHHHHhcCCCCCCccccCccCCCCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcC
Confidence            36789999999999999988886542                   25788999999999999999999999999964 47


Q ss_pred             CCccHHHHHHHHHHHhcCCCh
Q 046694           61 VEYYPVSHIGVLTACSLGGLV   81 (118)
Q Consensus        61 ~~p~~~~~~~ll~~~~~~~~~   81 (118)
                      ++.+..+|..+++.+....+.
T Consensus        84 I~i~~~~W~~Ll~W~~v~s~~  104 (126)
T PF12921_consen   84 IPIPKEFWRRLLEWAYVLSSK  104 (126)
T ss_pred             CCCCHHHHHHHHHHHHHhcCC
Confidence            888999999999988866553

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

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=97.78  E-value=0.0012  Score=49.80  Aligned_cols=110  Identities=9%  Similarity=0.128  Sum_probs=89.0

Q ss_pred             HHHHHHhcCCHHHHHHHhhhCCC---CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCCh
Q 046694            5 RLDFYTRTGRIDLANKIFDRLPV---KDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLV   81 (118)
Q Consensus         5 ll~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~   81 (118)
                      .+......|+.++|+++|.+...   .+...+..+...+.+.|++++|..+|++..+.. +.+......+...+.+.|+.
T Consensus        21 ~~~ia~~~g~~~~A~~~~~~~~~~~~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~l~~~g~~   99 (765)
T PRK10049         21 WLQIALWAGQDAEVITVYNRYRVHMQLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLE-PQNDDYQRGLILTLADAGQY   99 (765)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCH
Confidence            45677889999999999998763   355568999999999999999999999987652 33566677888889999999


Q ss_pred             hhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           82 EKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      ++|...+++..+. .+.+.. +..+-.++...|+.+
T Consensus       100 ~eA~~~l~~~l~~-~P~~~~-~~~la~~l~~~g~~~  133 (765)
T PRK10049        100 DEALVKAKQLVSG-APDKAN-LLALAYVYKRAGRHW  133 (765)
T ss_pred             HHHHHHHHHHHHh-CCCCHH-HHHHHHHHHHCCCHH
Confidence            9999999999775 233455 888888888887754

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=97.76  E-value=0.0016  Score=51.25  Aligned_cols=109  Identities=9%  Similarity=0.052  Sum_probs=87.3

Q ss_pred             HHHHHhcCCHHHHHHHhhhCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHH
Q 046694            6 LDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGK   85 (118)
Q Consensus         6 l~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~   85 (118)
                      ...+...|+.++|+.+++.- ..+...+..+-..+.+.|+.++|+..|++..+.. +.+......+...+...|+.++|.
T Consensus       580 a~~l~~~G~~~eA~~~l~~~-p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~-P~~~~a~~~la~~~~~~g~~~eA~  657 (1157)
T PRK11447        580 ANRLRDSGKEAEAEALLRQQ-PPSTRIDLTLADWAQQRGDYAAARAAYQRVLTRE-PGNADARLGLIEVDIAQGDLAAAR  657 (1157)
T ss_pred             HHHHHHCCCHHHHHHHHHhC-CCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHH
Confidence            45678899999999999843 3455667788899999999999999999998763 336888999999999999999999


Q ss_pred             HHHHHHhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           86 KFFDEMQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        86 ~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      +.++...+.. +.+...+..+-.++.+.|+.+
T Consensus       658 ~~l~~ll~~~-p~~~~~~~~la~~~~~~g~~~  688 (1157)
T PRK11447        658 AQLAKLPATA-NDSLNTQRRVALAWAALGDTA  688 (1157)
T ss_pred             HHHHHHhccC-CCChHHHHHHHHHHHhCCCHH
Confidence            9999886532 224556667777887777764

>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=97.72  E-value=0.00087  Score=35.59  Aligned_cols=84  Identities=15%  Similarity=0.099  Sum_probs=65.1

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHH
Q 046694           32 SWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLI  111 (118)
Q Consensus        32 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~  111 (118)
                      .|..+...+...|++++|...|++..+.. +.+...+..+...+...++++.|.+.++...+.. +.+..++..+..++.
T Consensus         2 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~   79 (100)
T cd00189           2 ALLNLGNLYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYY   79 (100)
T ss_pred             HHHHHHHHHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHH
Confidence            35566777888999999999999987653 2344778888888899999999999999987754 334467778888887


Q ss_pred             Hccccc
Q 046694          112 KYNQKA  117 (118)
Q Consensus       112 ~~g~~~  117 (118)
                      ..|+.+
T Consensus        80 ~~~~~~   85 (100)
T cd00189          80 KLGKYE   85 (100)
T ss_pred             HHHhHH
Confidence            777653

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

Probab=97.70  E-value=0.0011  Score=38.93  Aligned_cols=87  Identities=15%  Similarity=0.185  Sum_probs=70.7

Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHH
Q 046694           29 DSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVY  108 (118)
Q Consensus        29 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~  108 (118)
                      +......+...+...|++++|.+.|+.....+ +.+...+..+-..+.+.|+++.|..+++...+.+ +.+..++..+-.
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            44556677788889999999999999997753 3477888888899999999999999999987754 446777777888


Q ss_pred             HHHHccccc
Q 046694          109 LLIKYNQKA  117 (118)
Q Consensus       109 ~~~~~g~~~  117 (118)
                      +|...|+.+
T Consensus        94 ~~~~~g~~~  102 (135)
T TIGR02552        94 CLLALGEPE  102 (135)
T ss_pred             HHHHcCCHH
Confidence            888888764

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

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=97.67  E-value=0.002  Score=45.08  Aligned_cols=73  Identities=8%  Similarity=-0.113  Sum_probs=30.9

Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCccHHHHH--HHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHcccc
Q 046694           41 GMLGELDVAINLFEAMREDGVEYYPVSHI--GVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQK  116 (118)
Q Consensus        41 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~--~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~  116 (118)
                      .+.|+++.|.+.+.++.+.  .|+...+.  .....+...|+.+.|.+.++++.+.. +-++.....+...|.+.|++
T Consensus       129 ~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~Al~~l~~~~~~~-P~~~~al~ll~~~~~~~gdw  203 (398)
T PRK10747        129 QQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAARHGVDKLLEVA-PRHPEVLRLAEQAYIRTGAW  203 (398)
T ss_pred             HHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHHhH
Confidence            4445555555555554432  22222111  12334444455555555555544432 12344444444444444443

>PRK14574 hmsH outer membrane protein; Provisional

Probab=97.67  E-value=0.0013  Score=50.00  Aligned_cols=88  Identities=16%  Similarity=0.102  Sum_probs=46.2

Q ss_pred             HHHHHHhcCCHHHHHHHhhhCCCC-CHhhHHHH--HHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCCh
Q 046694            5 RLDFYTRTGRIDLANKIFDRLPVK-DSASWITL--ILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLV   81 (118)
Q Consensus         5 ll~~~~~~~~~~~a~~~~~~m~~~-~~~~~~~l--i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~   81 (118)
                      ++..+...|+.++|+..+++...| +...+..+  ...|...|++++|.++|+++.+.. +-+...+..+...+...++.
T Consensus        74 ll~l~~~~G~~~~A~~~~eka~~p~n~~~~~llalA~ly~~~gdyd~Aiely~kaL~~d-P~n~~~l~gLa~~y~~~~q~  152 (822)
T PRK14574         74 WLQIAGWAGRDQEVIDVYERYQSSMNISSRGLASAARAYRNEKRWDQALALWQSSLKKD-PTNPDLISGMIMTQADAGRG  152 (822)
T ss_pred             HHHHHHHcCCcHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHhhcCCH
Confidence            345555556666666666655544 22222222  234555566666666666665442 11334444555555666666


Q ss_pred             hhHHHHHHHHhh
Q 046694           82 EKGKKFFDEMQA   93 (118)
Q Consensus        82 ~~a~~~~~~m~~   93 (118)
                      ++|.+.++++..
T Consensus       153 ~eAl~~l~~l~~  164 (822)
T PRK14574        153 GVVLKQATELAE  164 (822)
T ss_pred             HHHHHHHHHhcc
Confidence            666666666544

>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=97.67  E-value=0.00015  Score=37.58  Aligned_cols=51  Identities=16%  Similarity=0.260  Sum_probs=31.8

Q ss_pred             hcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhh
Q 046694           42 MLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQA   93 (118)
Q Consensus        42 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~   93 (118)
                      +.|++++|.++|++..... +-+......+..+|.+.|++++|.++++.+..
T Consensus         3 ~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~   53 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQRN-PDNPEARLLLAQCYLKQGQYDEAEELLERLLK   53 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHHT-TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHG
T ss_pred             hccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            4566777777777765542 12555555667777777777777777776655

...

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

Probab=97.66  E-value=0.0032  Score=40.81  Aligned_cols=111  Identities=14%  Similarity=-0.009  Sum_probs=81.0

Q ss_pred             HHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc-cHHHHHHHHHHHhcCCC
Q 046694            5 RLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEY-YPVSHIGVLTACSLGGL   80 (118)
Q Consensus         5 ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~   80 (118)
                      |--.|...|+...|.+-+++-.   ..+..+|..+-..|.+.|..+.|.+-|++-.+.  .| +..+.|..---+|..|.
T Consensus        41 Lal~YL~~gd~~~A~~nlekAL~~DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl--~p~~GdVLNNYG~FLC~qg~  118 (250)
T COG3063          41 LALGYLQQGDYAQAKKNLEKALEHDPSYYLAHLVRAHYYQKLGENDLADESYRKALSL--APNNGDVLNNYGAFLCAQGR  118 (250)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChhhHHHHHHHHHhc--CCCccchhhhhhHHHHhCCC
Confidence            4456788888888888888765   335667888888888889999999888887664  34 45666666666778888


Q ss_pred             hhhHHHHHHHHhhcCCCc-cHHHHHHHHHHHHHccccc
Q 046694           81 VEKGKKFFDEMQARNVKP-TETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        81 ~~~a~~~~~~m~~~g~~~-~~~t~~~li~~~~~~g~~~  117 (118)
                      +++|...|++....---| -..||.++--|..+.|+.+
T Consensus       119 ~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~  156 (250)
T COG3063         119 PEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFD  156 (250)
T ss_pred             hHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCch
Confidence            889888888876544332 3567777777777777654

>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=97.65  E-value=0.00031  Score=42.13  Aligned_cols=66  Identities=20%  Similarity=0.272  Sum_probs=49.6

Q ss_pred             HHHHHHHhcCCHHHHHHHhhhCC--CC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHH-----HcCCCccHHHHH
Q 046694            4 PRLDFYTRTGRIDLANKIFDRLP--VK-DSASWITLILGYGMLGELDVAINLFEAMR-----EDGVEYYPVSHI   69 (118)
Q Consensus         4 ~ll~~~~~~~~~~~a~~~~~~m~--~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~-----~~~~~p~~~~~~   69 (118)
                      .++..+...|++++|..+.+...  .| |-..|..+|.+|...|+..+|.+.|++++     +-|+.|+..+-.
T Consensus        67 ~l~~~~~~~~~~~~a~~~~~~~l~~dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~~  140 (146)
T PF03704_consen   67 RLAEALLEAGDYEEALRLLQRALALDPYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETRA  140 (146)
T ss_dssp             HHHHHHHHTT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHHH
T ss_pred             HHHHHHHhccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHHH
Confidence            45667788999999999999876  33 78899999999999999999999999995     349999876643

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

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

Probab=97.65  E-value=0.00015  Score=52.90  Aligned_cols=112  Identities=14%  Similarity=0.108  Sum_probs=70.7

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCCC--C-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc-cHHHHHHHHHHHhc
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLPV--K-DSASWITLILGYGMLGELDVAINLFEAMREDGVEY-YPVSHIGVLTACSL   77 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~   77 (118)
                      |+.|-..+-..|++-.|+..|++-.+  | =...|-.+-..|...+.+++|+..+.+...  ..| ..+.|..+-..|-.
T Consensus       221 wsnLg~~f~~~Gei~~aiq~y~eAvkldP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~--lrpn~A~a~gNla~iYye  298 (966)
T KOG4626|consen  221 WSNLGCVFNAQGEIWLAIQHYEEAVKLDPNFLDAYINLGNVYKEARIFDRAVSCYLRALN--LRPNHAVAHGNLACIYYE  298 (966)
T ss_pred             ehhcchHHhhcchHHHHHHHHHHhhcCCCcchHHHhhHHHHHHHHhcchHHHHHHHHHHh--cCCcchhhccceEEEEec
Confidence            56666677777888888888876652  3 233566666666666666666666666443  244 34566666666666


Q ss_pred             CCChhhHHHHHHHHhhcCCCcc-HHHHHHHHHHHHHccccc
Q 046694           78 GGLVEKGKKFFDEMQARNVKPT-ETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        78 ~~~~~~a~~~~~~m~~~g~~~~-~~t~~~li~~~~~~g~~~  117 (118)
                      .|++|.|+..|++..+  +.|+ ...|+.|-.++...|+++
T Consensus       299 qG~ldlAI~~Ykral~--~~P~F~~Ay~NlanALkd~G~V~  337 (966)
T KOG4626|consen  299 QGLLDLAIDTYKRALE--LQPNFPDAYNNLANALKDKGSVT  337 (966)
T ss_pred             cccHHHHHHHHHHHHh--cCCCchHHHhHHHHHHHhccchH
Confidence            6777777777766655  3444 556666666666666654

>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=97.64  E-value=0.0004  Score=35.96  Aligned_cols=61  Identities=18%  Similarity=0.196  Sum_probs=48.6

Q ss_pred             HhcCCHHHHHHHhhhCC--CC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHH
Q 046694           10 TRTGRIDLANKIFDRLP--VK-DSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVL   72 (118)
Q Consensus        10 ~~~~~~~~a~~~~~~m~--~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll   72 (118)
                      .+.|++++|+.+|++..  .| +...+-.+...|.+.|++++|.++++++...  .|+...|..++
T Consensus         2 l~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~--~~~~~~~~~l~   65 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQRNPDNPEARLLLAQCYLKQGQYDEAEELLERLLKQ--DPDNPEYQQLL   65 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG--GTTHHHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCHHHHHHHH
Confidence            46899999999999875  33 7888889999999999999999999999876  45544444443

...

>TIGR00540 hemY_coli hemY protein

Probab=97.63  E-value=0.0017  Score=45.52  Aligned_cols=112  Identities=12%  Similarity=-0.029  Sum_probs=80.5

Q ss_pred             HHHHHHHhcCCHHHHHHHhhhCC--CCCHhh---HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccH---HHHHHHHHHH
Q 046694            4 PRLDFYTRTGRIDLANKIFDRLP--VKDSAS---WITLILGYGMLGELDVAINLFEAMREDGVEYYP---VSHIGVLTAC   75 (118)
Q Consensus         4 ~ll~~~~~~~~~~~a~~~~~~m~--~~~~~~---~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~---~~~~~ll~~~   75 (118)
                      .+...+...|+.++|.+++++..  .||...   ...........++.+.+.+.++...+.  .|+.   ....++-..+
T Consensus       268 ~~a~~l~~~g~~~~A~~~l~~~l~~~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~--~p~~~~~~ll~sLg~l~  345 (409)
T TIGR00540       268 ALAEHLIDCDDHDSAQEIIFDGLKKLGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKN--VDDKPKCCINRALGQLL  345 (409)
T ss_pred             HHHHHHHHCCChHHHHHHHHHHHhhCCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHh--CCCChhHHHHHHHHHHH
Confidence            45677888999999999998775  343321   122222233457788888888877654  3433   4555777888


Q ss_pred             hcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           76 SLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        76 ~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      .+.|++++|.+.|+........|+...+..+...+-+.|+.+
T Consensus       346 ~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~  387 (409)
T TIGR00540       346 MKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKA  387 (409)
T ss_pred             HHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHH
Confidence            899999999999997555556789888889999998888754

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.

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

Probab=97.62  E-value=0.0036  Score=42.81  Aligned_cols=111  Identities=10%  Similarity=0.059  Sum_probs=74.8

Q ss_pred             hHHHHHHHhcCCHHHHHHHhhhCC--CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHH-HHHHHhcC-
Q 046694            3 EPRLDFYTRTGRIDLANKIFDRLP--VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIG-VLTACSLG-   78 (118)
Q Consensus         3 ~~ll~~~~~~~~~~~a~~~~~~m~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~-ll~~~~~~-   78 (118)
                      +.|-.+|.+.|...+|++.|+.-.  .|-+.||-.+-+.|.+..+++.|+.+|.+-.+.  .|-.+||.. +-+.+-.. 
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q~~~~dTfllLskvY~ridQP~~AL~~~~~gld~--fP~~VT~l~g~ARi~eam~  304 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQFPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS--FPFDVTYLLGQARIHEAME  304 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhcCCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc--CCchhhhhhhhHHHHHHHH
Confidence            356788999999999999998664  567788888999999999999999998887654  344444433 33333333 


Q ss_pred             ---------------------------------CChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHcccc
Q 046694           79 ---------------------------------GLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQK  116 (118)
Q Consensus        79 ---------------------------------~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~  116 (118)
                                                       +++|.|.++|+++...|+. ++..|+.+--||.-.+++
T Consensus       305 ~~~~a~~lYk~vlk~~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~  374 (478)
T KOG1129|consen  305 QQEDALQLYKLVLKLHPINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQI  374 (478)
T ss_pred             hHHHHHHHHHHHHhcCCccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcch
Confidence                                             4555555666666666654 455555555555544443

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

Probab=97.62  E-value=0.0027  Score=45.02  Aligned_cols=111  Identities=12%  Similarity=0.061  Sum_probs=72.4

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc-cHHHHHHHHHHHhc
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEY-YPVSHIGVLTACSL   77 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~   77 (118)
                      |+.|-+-|....+...|+.-|+.-.   ..|-..|-.+-++|.-.+++.=|+-.|++...  .+| |...|.++-++|.+
T Consensus       367 WTLmGHEyvEmKNt~AAi~sYRrAvdi~p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~--~kPnDsRlw~aLG~CY~k  444 (559)
T KOG1155|consen  367 WTLMGHEYVEMKNTHAAIESYRRAVDINPRDYRAWYGLGQAYEIMKMHFYALYYFQKALE--LKPNDSRLWVALGECYEK  444 (559)
T ss_pred             HHHhhHHHHHhcccHHHHHHHHHHHhcCchhHHHHhhhhHHHHHhcchHHHHHHHHHHHh--cCCCchHHHHHHHHHHHH
Confidence            4455555555555555555554332   33666666777777777777777777776544  355 67888888888888


Q ss_pred             CCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccc
Q 046694           78 GGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQ  115 (118)
Q Consensus        78 ~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~  115 (118)
                      .+++++|++.|......|-. +...+..|-+.|-+-++
T Consensus       445 l~~~~eAiKCykrai~~~dt-e~~~l~~LakLye~l~d  481 (559)
T KOG1155|consen  445 LNRLEEAIKCYKRAILLGDT-EGSALVRLAKLYEELKD  481 (559)
T ss_pred             hccHHHHHHHHHHHHhcccc-chHHHHHHHHHHHHHHh
Confidence            88888888888887665533 45666666666655444

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.59  E-value=0.0026  Score=38.86  Aligned_cols=87  Identities=11%  Similarity=-0.013  Sum_probs=72.0

Q ss_pred             HHHHhcCCHHHHHHHhhhCC--CC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhh
Q 046694            7 DFYTRTGRIDLANKIFDRLP--VK-DSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEK   83 (118)
Q Consensus         7 ~~~~~~~~~~~a~~~~~~m~--~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~   83 (118)
                      ..+...|++++|+++|+-.-  .| +..-|-.|--.+-..|++++|+..|........ -|+..+-.+-.++...|+.+.
T Consensus        43 ~~ly~~G~l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~-ddp~~~~~ag~c~L~lG~~~~  121 (157)
T PRK15363         43 MQLMEVKEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKI-DAPQAPWAAAECYLACDNVCY  121 (157)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCchHHHHHHHHHHHcCCHHH
Confidence            34567899999999999664  34 666777777888888999999999999987653 378888888899999999999


Q ss_pred             HHHHHHHHhhc
Q 046694           84 GKKFFDEMQAR   94 (118)
Q Consensus        84 a~~~~~~m~~~   94 (118)
                      |.+.|+.....
T Consensus       122 A~~aF~~Ai~~  132 (157)
T PRK15363        122 AIKALKAVVRI  132 (157)
T ss_pred             HHHHHHHHHHH
Confidence            99999987543

>PRK14574 hmsH outer membrane protein; Provisional

Probab=97.56  E-value=0.0039  Score=47.48  Aligned_cols=107  Identities=10%  Similarity=-0.017  Sum_probs=82.0

Q ss_pred             HHHHHhcCCHHHHHHHhhhCC--CC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChh
Q 046694            6 LDFYTRTGRIDLANKIFDRLP--VK-DSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVE   82 (118)
Q Consensus         6 l~~~~~~~~~~~a~~~~~~m~--~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~   82 (118)
                      ...|...|++++|+.+|+++.  .| +...+..+...+...++.++|++.++++...  .|+...+..++..+...++..
T Consensus       109 A~ly~~~gdyd~Aiely~kaL~~dP~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~~  186 (822)
T PRK14574        109 ARAYRNEKRWDQALALWQSSLKKDPTNPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRNY  186 (822)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchHH
Confidence            346777899999999999886  23 6677778889999999999999999998765  566666655555554566666


Q ss_pred             hHHHHHHHHhhcCCCccHHHHHHHHHHHHHccc
Q 046694           83 KGKKFFDEMQARNVKPTETHYACMVYLLIKYNQ  115 (118)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~  115 (118)
                      +|.+.++++.+.. +-+...+..++.++.+.|-
T Consensus       187 ~AL~~~ekll~~~-P~n~e~~~~~~~~l~~~~~  218 (822)
T PRK14574        187 DALQASSEAVRLA-PTSEEVLKNHLEILQRNRI  218 (822)
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCC
Confidence            6999999998864 3356677777787777663

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.54  E-value=0.0066  Score=37.44  Aligned_cols=107  Identities=14%  Similarity=0.081  Sum_probs=71.3

Q ss_pred             hHHHHHHHhcCCHHHHHHHhhhCC--CCC----HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc-cHHHHHHHHHHH
Q 046694            3 EPRLDFYTRTGRIDLANKIFDRLP--VKD----SASWITLILGYGMLGELDVAINLFEAMREDGVEY-YPVSHIGVLTAC   75 (118)
Q Consensus         3 ~~ll~~~~~~~~~~~a~~~~~~m~--~~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~   75 (118)
                      ..+...+...|++++|...|++..  .|+    ...+..+...+.+.|++++|...+++..+.  .| +...+..+...+
T Consensus        39 ~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~  116 (172)
T PRK02603         39 YRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALEL--NPKQPSALNNIAVIY  116 (172)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcccHHHHHHHHHHH
Confidence            344556778899999999998764  222    457888889999999999999999998764  33 455555566666


Q ss_pred             hcCCC-------h-------hhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccc
Q 046694           76 SLGGL-------V-------EKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQ  115 (118)
Q Consensus        76 ~~~~~-------~-------~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~  115 (118)
                      ...|+       .       ++|.+++++...    .++..+..++..+...|+
T Consensus       117 ~~~g~~~~a~~~~~~A~~~~~~A~~~~~~a~~----~~p~~~~~~~~~~~~~~~  166 (172)
T PRK02603        117 HKRGEKAEEAGDQDEAEALFDKAAEYWKQAIR----LAPNNYIEAQNWLKTTGR  166 (172)
T ss_pred             HHcCChHhHhhCHHHHHHHHHHHHHHHHHHHh----hCchhHHHHHHHHHhcCc
Confidence            66555       3       444444444433    233346666666666554

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

Probab=97.51  E-value=0.0051  Score=39.05  Aligned_cols=88  Identities=14%  Similarity=0.058  Sum_probs=70.7

Q ss_pred             CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHH-hcCCC--hhhHHHHHHHHhhcCCCccHHHHH
Q 046694           28 KDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTAC-SLGGL--VEKGKKFFDEMQARNVKPTETHYA  104 (118)
Q Consensus        28 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~-~~~~~--~~~a~~~~~~m~~~g~~~~~~t~~  104 (118)
                      .|...|..+-..|...|++++|...|++..+.. +-+...+..+-.++ ...|+  .++|.+++++..+.... +...+.
T Consensus        71 ~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~-P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~-~~~al~  148 (198)
T PRK10370         71 QNSEQWALLGEYYLWRNDYDNALLAYRQALQLR-GENAELYAALATVLYYQAGQHMTPQTREMIDKALALDAN-EVTALM  148 (198)
T ss_pred             CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCC-ChhHHH
Confidence            488899999999999999999999999987753 22667777777664 67677  59999999999886533 677888


Q ss_pred             HHHHHHHHccccc
Q 046694          105 CMVYLLIKYNQKA  117 (118)
Q Consensus       105 ~li~~~~~~g~~~  117 (118)
                      .+-..+.+.|+++
T Consensus       149 ~LA~~~~~~g~~~  161 (198)
T PRK10370        149 LLASDAFMQADYA  161 (198)
T ss_pred             HHHHHHHHcCCHH
Confidence            8888888888875

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=97.50  E-value=0.003  Score=40.69  Aligned_cols=45  Identities=18%  Similarity=0.089  Sum_probs=27.3

Q ss_pred             HHHhcCCChhhHHHHHHHHhhcCC--CccHHHHHHHHHHHHHccccc
Q 046694           73 TACSLGGLVEKGKKFFDEMQARNV--KPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        73 ~~~~~~~~~~~a~~~~~~m~~~g~--~~~~~t~~~li~~~~~~g~~~  117 (118)
                      ..+.+.|+++.|...+++..+..-  +.....+..+..++.+.|+.+
T Consensus       174 ~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~  220 (235)
T TIGR03302       174 RFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKD  220 (235)
T ss_pred             HHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHH
Confidence            345566777777777777654321  223556667777777777654

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).

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

Probab=97.50  E-value=0.0015  Score=39.18  Aligned_cols=84  Identities=11%  Similarity=0.115  Sum_probs=64.2

Q ss_pred             HHHHHHhcCCHHHHHHHhhhCCC--CCH----hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcC
Q 046694            5 RLDFYTRTGRIDLANKIFDRLPV--KDS----ASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLG   78 (118)
Q Consensus         5 ll~~~~~~~~~~~a~~~~~~m~~--~~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~   78 (118)
                      +-..+...|++++|...|++...  |+.    ...-.+-..+...|++++|+..++......  .....+...-+.+.+.
T Consensus        54 lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d~Al~~L~~~~~~~--~~~~~~~~~Gdi~~~~  131 (145)
T PF09976_consen   54 LAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQYDEALATLQQIPDEA--FKALAAELLGDIYLAQ  131 (145)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHhccCcc--hHHHHHHHHHHHHHHC
Confidence            34677789999999999998762  322    234446677888999999999997754332  3455667788899999


Q ss_pred             CChhhHHHHHHH
Q 046694           79 GLVEKGKKFFDE   90 (118)
Q Consensus        79 ~~~~~a~~~~~~   90 (118)
                      |+.++|...|+.
T Consensus       132 g~~~~A~~~y~~  143 (145)
T PF09976_consen  132 GDYDEARAAYQK  143 (145)
T ss_pred             CCHHHHHHHHHH
Confidence            999999999976

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

Probab=97.49  E-value=0.0022  Score=47.17  Aligned_cols=81  Identities=14%  Similarity=0.092  Sum_probs=34.8

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcc-HHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCcc-HHHHHHHHHH
Q 046694           32 SWITLILGYGMLGELDVAINLFEAMREDGVEYY-PVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPT-ETHYACMVYL  109 (118)
Q Consensus        32 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~-~~t~~~li~~  109 (118)
                      .+|.+-..|-+.|++++|+..+++..+  ++|+ ...|+.+-+.|-..|+++.|...+.+...  +.|. ....+.|-..
T Consensus       390 a~nNLa~i~kqqgnl~~Ai~~Ykealr--I~P~fAda~~NmGnt~ke~g~v~~A~q~y~rAI~--~nPt~AeAhsNLasi  465 (966)
T KOG4626|consen  390 AHNNLASIYKQQGNLDDAIMCYKEALR--IKPTFADALSNMGNTYKEMGDVSAAIQCYTRAIQ--INPTFAEAHSNLASI  465 (966)
T ss_pred             hhhhHHHHHHhcccHHHHHHHHHHHHh--cCchHHHHHHhcchHHHHhhhHHHHHHHHHHHHh--cCcHHHHHHhhHHHH
Confidence            334444444444444444444444332  2333 23444444444444444444444444332  2222 3444455555


Q ss_pred             HHHcccc
Q 046694          110 LIKYNQK  116 (118)
Q Consensus       110 ~~~~g~~  116 (118)
                      |..+|++
T Consensus       466 ~kDsGni  472 (966)
T KOG4626|consen  466 YKDSGNI  472 (966)
T ss_pred             hhccCCc
Confidence            5555544

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

Probab=97.48  E-value=0.0014  Score=33.69  Aligned_cols=55  Identities=15%  Similarity=0.131  Sum_probs=34.3

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhh
Q 046694           38 LGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQA   93 (118)
Q Consensus        38 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~   93 (118)
                      ..+.+.|++++|.+.|++..+.. +-+...+..+-.++.+.|++++|..+|++..+
T Consensus         5 ~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~   59 (65)
T PF13432_consen    5 RALYQQGDYDEAIAAFEQALKQD-PDNPEAWYLLGRILYQQGRYDEALAYYERALE   59 (65)
T ss_dssp             HHHHHCTHHHHHHHHHHHHHCCS-TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            44556677777777777766553 22556666666666677777777777776644

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

Probab=97.47  E-value=0.0041  Score=41.17  Aligned_cols=104  Identities=19%  Similarity=0.275  Sum_probs=72.4

Q ss_pred             HHhcCCHHHHHHHhhhCCCC-CHhhHHHHHHHHHhc----CCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhh
Q 046694            9 YTRTGRIDLANKIFDRLPVK-DSASWITLILGYGML----GELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEK   83 (118)
Q Consensus         9 ~~~~~~~~~a~~~~~~m~~~-~~~~~~~li~~~~~~----~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~   83 (118)
                      +.|..+++-|++..++|..- +-.|-+.+-.++.+.    +...+|.-+|++|-+. .+|+..+-+-...++...|++++
T Consensus       147 ~lk~~r~d~A~~~lk~mq~ided~tLtQLA~awv~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~ee  225 (299)
T KOG3081|consen  147 LLKMHRFDLAEKELKKMQQIDEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEE  225 (299)
T ss_pred             HHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHH
Confidence            34444555555555555532 445566555555544    5799999999998753 68999999999999999999999


Q ss_pred             HHHHHHHHhhcCCCccHHHHHHHHHHHHHcc
Q 046694           84 GKKFFDEMQARNVKPTETHYACMVYLLIKYN  114 (118)
Q Consensus        84 a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g  114 (118)
                      |..++++..++.-. ++.|...+|-+-.-.|
T Consensus       226 Ae~lL~eaL~kd~~-dpetL~Nliv~a~~~G  255 (299)
T KOG3081|consen  226 AESLLEEALDKDAK-DPETLANLIVLALHLG  255 (299)
T ss_pred             HHHHHHHHHhccCC-CHHHHHHHHHHHHHhC
Confidence            99999999665433 4555555555444333

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

Probab=97.44  E-value=0.0016  Score=44.20  Aligned_cols=112  Identities=17%  Similarity=0.097  Sum_probs=66.3

Q ss_pred             HHHHHhcCCHHHHHHHhhhCCC-C--CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC--------------------
Q 046694            6 LDFYTRTGRIDLANKIFDRLPV-K--DSASWITLILGYGMLGELDVAINLFEAMREDGVE--------------------   62 (118)
Q Consensus         6 l~~~~~~~~~~~a~~~~~~m~~-~--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~--------------------   62 (118)
                      -.-|...|-+|+|+.+|..+.. +  -...-..++..|-+..+|++|+++-.++...+-.                    
T Consensus       114 ~~Dym~aGl~DRAE~~f~~L~de~efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~  193 (389)
T COG2956         114 GRDYMAAGLLDRAEDIFNQLVDEGEFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALAS  193 (389)
T ss_pred             HHHHHHhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhh
Confidence            3456666777777777766653 2  2233444555555555555555555555443221                    


Q ss_pred             -----------------ccHHHHHH-HHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           63 -----------------YYPVSHIG-VLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        63 -----------------p~~~~~~~-ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                                       |+-+--+. +-+.....|+.+.|.+.++...+.+...-..+...|..+|...|+.+
T Consensus       194 ~~~d~A~~~l~kAlqa~~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~  266 (389)
T COG2956         194 SDVDRARELLKKALQADKKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPA  266 (389)
T ss_pred             hhHHHHHHHHHHHHhhCccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHH
Confidence                             11111111 22334455778888888888877777777778888888888888764

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

Probab=97.42  E-value=0.012  Score=40.10  Aligned_cols=88  Identities=16%  Similarity=0.045  Sum_probs=68.6

Q ss_pred             HHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-CccH--HHHHHHHHHHhcCC
Q 046694            6 LDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGV-EYYP--VSHIGVLTACSLGG   79 (118)
Q Consensus         6 l~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~p~~--~~~~~ll~~~~~~~   79 (118)
                      ...+...|++++|...+++..   ..+...+..+-..+...|++++|...+++.....- .|+.  ..|..+...+...|
T Consensus       121 a~~~~~~G~~~~A~~~~~~al~~~p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G  200 (355)
T cd05804         121 AFGLEEAGQYDRAEEAARRALELNPDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERG  200 (355)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCC
Confidence            346678899999999998775   33566788888899999999999999998876422 2332  34556788888999


Q ss_pred             ChhhHHHHHHHHhh
Q 046694           80 LVEKGKKFFDEMQA   93 (118)
Q Consensus        80 ~~~~a~~~~~~m~~   93 (118)
                      +.++|..++++...
T Consensus       201 ~~~~A~~~~~~~~~  214 (355)
T cd05804         201 DYEAALAIYDTHIA  214 (355)
T ss_pred             CHHHHHHHHHHHhc
Confidence            99999999999854

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.

>TIGR00540 hemY_coli hemY protein

Probab=97.41  E-value=0.0031  Score=44.20  Aligned_cols=91  Identities=13%  Similarity=-0.027  Sum_probs=61.8

Q ss_pred             HHHHhcCCHHHHHHHhhhCC--CCCH--hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChh
Q 046694            7 DFYTRTGRIDLANKIFDRLP--VKDS--ASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVE   82 (118)
Q Consensus         7 ~~~~~~~~~~~a~~~~~~m~--~~~~--~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~   82 (118)
                      .+..+.|+.++|...+++..  .|+.  ..--.....+...|+++.|...++++.+.. +-+......+...+...|+++
T Consensus       126 ~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~Al~~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~  204 (409)
T TIGR00540       126 EAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAARHGVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQ  204 (409)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHH
Confidence            34556688888888887653  2332  233334666677788888888888887764 225566777788888888888


Q ss_pred             hHHHHHHHHhhcCCCc
Q 046694           83 KGKKFFDEMQARNVKP   98 (118)
Q Consensus        83 ~a~~~~~~m~~~g~~~   98 (118)
                      .+.+++..+.+.++.+
T Consensus       205 ~a~~~l~~l~k~~~~~  220 (409)
T TIGR00540       205 ALDDIIDNMAKAGLFD  220 (409)
T ss_pred             HHHHHHHHHHHcCCCC
Confidence            8888888887776543

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.

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.41  E-value=0.0068  Score=34.39  Aligned_cols=86  Identities=19%  Similarity=0.121  Sum_probs=64.1

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCC--CccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCC--ccHHHHHHHH
Q 046694           32 SWITLILGYGMLGELDVAINLFEAMREDGV--EYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVK--PTETHYACMV  107 (118)
Q Consensus        32 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~--~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~--~~~~t~~~li  107 (118)
                      ++-.....+.+.|++++|.+.|+++.+..-  +.....+..+...+.+.|+++.|.+.|+.+....-.  .....+..+.
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~   83 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLG   83 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHH
Confidence            456677788889999999999999976521  112456777899999999999999999999764322  2245677777


Q ss_pred             HHHHHccccc
Q 046694          108 YLLIKYNQKA  117 (118)
Q Consensus       108 ~~~~~~g~~~  117 (118)
                      .++.+.|+.+
T Consensus        84 ~~~~~~~~~~   93 (119)
T TIGR02795        84 MSLQELGDKE   93 (119)
T ss_pred             HHHHHhCChH
Confidence            7777777654

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.

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

Probab=97.38  E-value=0.00092  Score=34.34  Aligned_cols=55  Identities=20%  Similarity=0.163  Sum_probs=46.3

Q ss_pred             HHHHHHhcCCHHHHHHHhhhCCC--C-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 046694            5 RLDFYTRTGRIDLANKIFDRLPV--K-DSASWITLILGYGMLGELDVAINLFEAMRED   59 (118)
Q Consensus         5 ll~~~~~~~~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~   59 (118)
                      +-..+.+.|++++|...|++...  | +...+..+-..+...|++++|...|++..+.
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~   60 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERALEL   60 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            34678899999999999998862  3 7778888889999999999999999999754

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

Probab=97.35  E-value=0.0078  Score=42.81  Aligned_cols=114  Identities=13%  Similarity=0.059  Sum_probs=84.6

Q ss_pred             hHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCC
Q 046694            3 EPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGG   79 (118)
Q Consensus         3 ~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~   79 (118)
                      =.|-++|.-.+...=|.-.|++-.   +.|...|.+|-..|.+.++.++|.+.|++...-|- .+...+..+-+.+-+.+
T Consensus       402 YGLGQaYeim~Mh~YaLyYfqkA~~~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~d-te~~~l~~LakLye~l~  480 (559)
T KOG1155|consen  402 YGLGQAYEIMKMHFYALYYFQKALELKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGD-TEGSALVRLAKLYEELK  480 (559)
T ss_pred             hhhhHHHHHhcchHHHHHHHHHHHhcCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccc-cchHHHHHHHHHHHHHH
Confidence            344555555566666666666443   45999999999999999999999999999987652 36688999999999999


Q ss_pred             ChhhHHHHHHHHhhc----C-CCc-cHHHHHHHHHHHHHccccc
Q 046694           80 LVEKGKKFFDEMQAR----N-VKP-TETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        80 ~~~~a~~~~~~m~~~----g-~~~-~~~t~~~li~~~~~~g~~~  117 (118)
                      +.++|...|++-.+.    | +.| .....-.|-..+.+.++++
T Consensus       481 d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~  524 (559)
T KOG1155|consen  481 DLNEAAQYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFD  524 (559)
T ss_pred             hHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchH
Confidence            999999999887442    3 334 2344445666677776655

>PRK11189 lipoprotein NlpI; Provisional

Probab=97.32  E-value=0.0064  Score=40.88  Aligned_cols=89  Identities=13%  Similarity=0.029  Sum_probs=66.6

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC--CC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcC
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP--VK-DSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLG   78 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~--~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~   78 (118)
                      |+.+-..|...|++++|...|++..  .| +..+|..+-..+...|++++|.+.|++..+.  .|+..............
T Consensus       101 ~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~--~P~~~~~~~~~~l~~~~  178 (296)
T PRK11189        101 YNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQD--DPNDPYRALWLYLAESK  178 (296)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHcc
Confidence            5677788899999999999998774  33 6778888888889999999999999998765  34332222333334456


Q ss_pred             CChhhHHHHHHHHh
Q 046694           79 GLVEKGKKFFDEMQ   92 (118)
Q Consensus        79 ~~~~~a~~~~~~m~   92 (118)
                      ++.++|...+++..
T Consensus       179 ~~~~~A~~~l~~~~  192 (296)
T PRK11189        179 LDPKQAKENLKQRY  192 (296)
T ss_pred             CCHHHHHHHHHHHH
Confidence            78899988886653

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

Probab=97.31  E-value=0.011  Score=41.06  Aligned_cols=50  Identities=12%  Similarity=0.113  Sum_probs=37.1

Q ss_pred             HHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           66 VSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        66 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      ..+..+-.-|.+.+.+.+|...|+.-.+  ..|+.++|+-+-+++-+.|+.+
T Consensus       329 ~L~~tLG~L~~k~~~w~kA~~~leaAl~--~~~s~~~~~~la~~~~~~g~~~  378 (400)
T COG3071         329 LLLSTLGRLALKNKLWGKASEALEAALK--LRPSASDYAELADALDQLGEPE  378 (400)
T ss_pred             hHHHHHHHHHHHhhHHHHHHHHHHHHHh--cCCChhhHHHHHHHHHHcCChH
Confidence            5566677777788888888888885444  5778888888888888777653

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

Probab=97.26  E-value=0.018  Score=37.43  Aligned_cols=114  Identities=12%  Similarity=0.084  Sum_probs=77.2

Q ss_pred             CchHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-ccHHHHHHHHHHHh
Q 046694            1 MIEPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVE-YYPVSHIGVLTACS   76 (118)
Q Consensus         1 t~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-p~~~~~~~ll~~~~   76 (118)
                      +|.++-..|.+.|..+.|.+-|++-.   ..+..+-|..-.-+|..|.+++|...|++-...-.- -...+|..+.-+..
T Consensus        71 a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~~GdVLNNYG~FLC~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal  150 (250)
T COG3063          71 AHLVRAHYYQKLGENDLADESYRKALSLAPNNGDVLNNYGAFLCAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCAL  150 (250)
T ss_pred             HHHHHHHHHHHcCChhhHHHHHHHHHhcCCCccchhhhhhHHHHhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHh
Confidence            35667778888899999988888543   345556666666677888999999999888766322 24567777777778


Q ss_pred             cCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccc
Q 046694           77 LGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQ  115 (118)
Q Consensus        77 ~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~  115 (118)
                      +.|+.+.|...|++-.+..-. ...+.-.+-+...+.|+
T Consensus       151 ~~gq~~~A~~~l~raL~~dp~-~~~~~l~~a~~~~~~~~  188 (250)
T COG3063         151 KAGQFDQAEEYLKRALELDPQ-FPPALLELARLHYKAGD  188 (250)
T ss_pred             hcCCchhHHHHHHHHHHhCcC-CChHHHHHHHHHHhccc
Confidence            888888888888887654321 23333344444444443

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=97.24  E-value=0.0048  Score=31.91  Aligned_cols=64  Identities=20%  Similarity=0.155  Sum_probs=49.0

Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCC-ChhhHHHHHHHHhh
Q 046694           29 DSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGG-LVEKGKKFFDEMQA   93 (118)
Q Consensus        29 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~-~~~~a~~~~~~m~~   93 (118)
                      +..+|..+-..+...|++++|+..|++..+.. +-+...|..+-.++.+.| ++++|.+.+++..+
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            35567777788888888888888888887653 236777888888888888 68888888887654

...

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

Probab=97.23  E-value=0.00056  Score=51.81  Aligned_cols=103  Identities=9%  Similarity=0.075  Sum_probs=65.2

Q ss_pred             CCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHH
Q 046694           13 GRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFD   89 (118)
Q Consensus        13 ~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~   89 (118)
                      +..++|+++|.+..   ..|...=|-+--.++..|++.+|..+|.+.++... -...+|..+-++|...|++..|+++|+
T Consensus       626 k~~~KAlq~y~kvL~~dpkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~-~~~dv~lNlah~~~e~~qy~~AIqmYe  704 (1018)
T KOG2002|consen  626 KHQEKALQLYGKVLRNDPKNMYAANGIGIVLAEKGRFSEARDIFSQVREATS-DFEDVWLNLAHCYVEQGQYRLAIQMYE  704 (1018)
T ss_pred             HHHHHHHHHHHHHHhcCcchhhhccchhhhhhhccCchHHHHHHHHHHHHHh-hCCceeeeHHHHHHHHHHHHHHHHHHH
Confidence            34566667766554   23555555566666677777777777777776543 244566677777777777777777777


Q ss_pred             HH-hhcCCCccHHHHHHHHHHHHHcccc
Q 046694           90 EM-QARNVKPTETHYACMVYLLIKYNQK  116 (118)
Q Consensus        90 ~m-~~~g~~~~~~t~~~li~~~~~~g~~  116 (118)
                      .- .+..-..+....+.|-+++.+.|++
T Consensus       705 ~~lkkf~~~~~~~vl~~Lara~y~~~~~  732 (1018)
T KOG2002|consen  705 NCLKKFYKKNRSEVLHYLARAWYEAGKL  732 (1018)
T ss_pred             HHHHHhcccCCHHHHHHHHHHHHHhhhH
Confidence            75 3334444566666666766666654

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=97.21  E-value=0.0076  Score=43.54  Aligned_cols=116  Identities=13%  Similarity=0.103  Sum_probs=89.1

Q ss_pred             hHHHHHHHhcCCHHHHHHHhhhCC--------CC---CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc------CCCc-c
Q 046694            3 EPRLDFYTRTGRIDLANKIFDRLP--------VK---DSASWITLILGYGMLGELDVAINLFEAMRED------GVEY-Y   64 (118)
Q Consensus         3 ~~ll~~~~~~~~~~~a~~~~~~m~--------~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------~~~p-~   64 (118)
                      +.+...|+..+++++|..++++..        ..   -..+|+.+-..|.+.|++++|.++|++....      +..+ .
T Consensus       329 ~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~  408 (508)
T KOG1840|consen  329 SELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGV  408 (508)
T ss_pred             HHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhh
Confidence            456677888899999998887542        11   3468999999999999999999999998532      1223 3


Q ss_pred             HHHHHHHHHHHhcCCChhhHHHHHHHH----hhcCC-Cc-cHHHHHHHHHHHHHcccccC
Q 046694           65 PVSHIGVLTACSLGGLVEKGKKFFDEM----QARNV-KP-TETHYACMVYLLIKYNQKAR  118 (118)
Q Consensus        65 ~~~~~~ll~~~~~~~~~~~a~~~~~~m----~~~g~-~~-~~~t~~~li~~~~~~g~~~~  118 (118)
                      ...++-+-..|.+.+..+.|.++|.+-    ...|. .| ...+|..|...|.+-|++++
T Consensus       409 ~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~  468 (508)
T KOG1840|consen  409 GKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEA  468 (508)
T ss_pred             hHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHH
Confidence            567788888889999999999999885    33443 23 37889999999999998763

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.19  E-value=0.016  Score=35.48  Aligned_cols=82  Identities=10%  Similarity=0.013  Sum_probs=63.6

Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc--cHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHH
Q 046694           29 DSASWITLILGYGMLGELDVAINLFEAMREDGVEY--YPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACM  106 (118)
Q Consensus        29 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p--~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~l  106 (118)
                      ....|..+...+...|++++|+..|++.....-.|  ...++..+-..+.+.|+.++|.+.++...+.. +....++..+
T Consensus        34 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~-~~~~~~~~~l  112 (168)
T CHL00033         34 EAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERN-PFLPQALNNM  112 (168)
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHH
Confidence            35567788888888999999999999997653232  23578888899999999999999999987642 2335667777


Q ss_pred             HHHHH
Q 046694          107 VYLLI  111 (118)
Q Consensus       107 i~~~~  111 (118)
                      ...+.
T Consensus       113 a~i~~  117 (168)
T CHL00033        113 AVICH  117 (168)
T ss_pred             HHHHH
Confidence            77777

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

Probab=97.18  E-value=0.00057  Score=37.11  Aligned_cols=73  Identities=12%  Similarity=0.093  Sum_probs=51.7

Q ss_pred             cCCHHHHHHHHHHHHHcCC-CccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           43 LGELDVAINLFEAMREDGV-EYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        43 ~~~~~~a~~~~~~m~~~~~-~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      .|+++.|+.+|+++.+..- .|+...+-.+-.++.+.|++++|..+++. .+.+.. +....-.+-++|.+.|+.+
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~~-~~~~~~l~a~~~~~l~~y~   75 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDPS-NPDIHYLLARCLLKLGKYE   75 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHHC-HHHHHHHHHHHHHHTT-HH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCCC-CHHHHHHHHHHHHHhCCHH
Confidence            5889999999999987633 23455566689999999999999999998 332222 2233335578888888765

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=97.18  E-value=0.0024  Score=33.99  Aligned_cols=62  Identities=16%  Similarity=0.157  Sum_probs=48.1

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHc----CC-Ccc-HHHHHHHHHHHhcCCChhhHHHHHHHHh
Q 046694           31 ASWITLILGYGMLGELDVAINLFEAMRED----GV-EYY-PVSHIGVLTACSLGGLVEKGKKFFDEMQ   92 (118)
Q Consensus        31 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~-~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~   92 (118)
                      .+|+.+-..|...|++++|++.|++..+.    |- .|+ ..+++.+-.++...|++++|.+++++-.
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            46788888888999999999999988542    21 233 6778888889999999999999988764

...

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=97.17  E-value=0.00075  Score=35.98  Aligned_cols=56  Identities=18%  Similarity=0.230  Sum_probs=46.1

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC---------CC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP---------VK-DSASWITLILGYGMLGELDVAINLFEAMR   57 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~---------~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~   57 (118)
                      |+.+-..|...|++++|+..|++..         .+ -..+++.+-..|...|++++|++.+++..
T Consensus         8 ~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al   73 (78)
T PF13424_consen    8 YNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKAL   73 (78)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            5677888999999999999998654         12 26688899999999999999999999865

...

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

Probab=97.15  E-value=0.0074  Score=40.46  Aligned_cols=96  Identities=14%  Similarity=0.145  Sum_probs=78.7

Q ss_pred             HHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc-cHHHHHHHHHHHhcCCChhhH
Q 046694            9 YTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEY-YPVSHIGVLTACSLGGLVEKG   84 (118)
Q Consensus         9 ~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~~a   84 (118)
                      ..+.+++.+|+..|.+-.   ..|.+-|..--.+|.+.|..+.|++-.+.-..  +.| -...|..|=.+|...|++++|
T Consensus        91 ~m~~~~Y~eAv~kY~~AI~l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~--iDp~yskay~RLG~A~~~~gk~~~A  168 (304)
T KOG0553|consen   91 LMKNKDYQEAVDKYTEAIELDPTNAVYYCNRAAAYSKLGEYEDAVKDCESALS--IDPHYSKAYGRLGLAYLALGKYEEA  168 (304)
T ss_pred             HHHhhhHHHHHHHHHHHHhcCCCcchHHHHHHHHHHHhcchHHHHHHHHHHHh--cChHHHHHHHHHHHHHHccCcHHHH
Confidence            567899999999998664   45899999999999999999999887777654  344 468899999999999999999


Q ss_pred             HHHHHHHhhcCCCccHHHHHHHHH
Q 046694           85 KKFFDEMQARNVKPTETHYACMVY  108 (118)
Q Consensus        85 ~~~~~~m~~~g~~~~~~t~~~li~  108 (118)
                      .+.|++-++  +.|+..+|=.=++
T Consensus       169 ~~aykKaLe--ldP~Ne~~K~nL~  190 (304)
T KOG0553|consen  169 IEAYKKALE--LDPDNESYKSNLK  190 (304)
T ss_pred             HHHHHhhhc--cCCCcHHHHHHHH
Confidence            999998766  7788777654443

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

Probab=97.11  E-value=0.012  Score=43.20  Aligned_cols=111  Identities=13%  Similarity=0.092  Sum_probs=75.2

Q ss_pred             HHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCC
Q 046694            4 PRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGL   80 (118)
Q Consensus         4 ~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~   80 (118)
                      -|...|.|.++++.|+-.|++-.   ..+.+.-..+...+-+.|+.++|++++++.....-+ |+-.---....+-..++
T Consensus       494 GlG~vy~Kqek~e~Ae~~fqkA~~INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~k-n~l~~~~~~~il~~~~~  572 (638)
T KOG1126|consen  494 GLGTVYLKQEKLEFAEFHFQKAVEINPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPK-NPLCKYHRASILFSLGR  572 (638)
T ss_pred             hhhhheeccchhhHHHHHHHhhhcCCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCC-CchhHHHHHHHHHhhcc
Confidence            34567788888888888888665   336666666777777888888888888887654322 33333334455556788


Q ss_pred             hhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHcccc
Q 046694           81 VEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQK  116 (118)
Q Consensus        81 ~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~  116 (118)
                      .++|...++++++. ++-+...+-.+-+.|.+-|+.
T Consensus       573 ~~eal~~LEeLk~~-vP~es~v~~llgki~k~~~~~  607 (638)
T KOG1126|consen  573 YVEALQELEELKEL-VPQESSVFALLGKIYKRLGNT  607 (638)
T ss_pred             hHHHHHHHHHHHHh-CcchHHHHHHHHHHHHHHccc
Confidence            88888888888773 233466666777777776654

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.11  E-value=0.019  Score=38.18  Aligned_cols=91  Identities=15%  Similarity=0.039  Sum_probs=66.9

Q ss_pred             HHHHHHHhcCCHHHHHHHhhhCC--CCC----HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCccHHHHHHHHHHH
Q 046694            4 PRLDFYTRTGRIDLANKIFDRLP--VKD----SASWITLILGYGMLGELDVAINLFEAMREDG--VEYYPVSHIGVLTAC   75 (118)
Q Consensus         4 ~ll~~~~~~~~~~~a~~~~~~m~--~~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~--~~p~~~~~~~ll~~~   75 (118)
                      .-+..+.+.|++++|+..|+.+.  -|+    ...+--+-..|...|++++|...|+.+.+.-  -+.....+-.+...+
T Consensus       148 ~A~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~~~  227 (263)
T PRK10803        148 AAIALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGVIM  227 (263)
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHHHH
Confidence            34444566799999999998876  232    2356667788889999999999999997541  111234444456667


Q ss_pred             hcCCChhhHHHHHHHHhhc
Q 046694           76 SLGGLVEKGKKFFDEMQAR   94 (118)
Q Consensus        76 ~~~~~~~~a~~~~~~m~~~   94 (118)
                      .+.|+.+.|.++|+.+.+.
T Consensus       228 ~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        228 QDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             HHcCCHHHHHHHHHHHHHH
Confidence            7899999999999999764

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=97.06  E-value=0.021  Score=36.75  Aligned_cols=92  Identities=14%  Similarity=0.014  Sum_probs=64.8

Q ss_pred             HHHHHHHhcCCHHHHHHHhhhCC--CC-CH---hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-ccH-HHHHHHHHHH
Q 046694            4 PRLDFYTRTGRIDLANKIFDRLP--VK-DS---ASWITLILGYGMLGELDVAINLFEAMREDGVE-YYP-VSHIGVLTAC   75 (118)
Q Consensus         4 ~ll~~~~~~~~~~~a~~~~~~m~--~~-~~---~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-p~~-~~~~~ll~~~   75 (118)
                      .+...+.+.|++++|...|++..  .| +.   ..+..+-..+.+.|++++|...++++.+..-. |.. ..+..+-.++
T Consensus        38 ~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~~g~~~  117 (235)
T TIGR03302        38 EEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAYYLRGLSN  117 (235)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHHHHHHHHH
Confidence            34567788999999999998775  23 22   46677788999999999999999999765221 111 1333333344


Q ss_pred             hcC--------CChhhHHHHHHHHhhcC
Q 046694           76 SLG--------GLVEKGKKFFDEMQARN   95 (118)
Q Consensus        76 ~~~--------~~~~~a~~~~~~m~~~g   95 (118)
                      .+.        |+.+.|.+.++++.+..
T Consensus       118 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~  145 (235)
T TIGR03302       118 YNQIDRVDRDQTAAREAFEAFQELIRRY  145 (235)
T ss_pred             HHhcccccCCHHHHHHHHHHHHHHHHHC
Confidence            433        78899999999997653

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).

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

Probab=97.05  E-value=0.028  Score=36.99  Aligned_cols=87  Identities=7%  Similarity=-0.088  Sum_probs=69.6

Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHH
Q 046694           29 DSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVY  108 (118)
Q Consensus        29 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~  108 (118)
                      |...-+..++...+.|++..|...|.+...- -++|...|+.+--+|.+.|++++|..-|.+..+.- .-++...|+|--
T Consensus        99 d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l-~p~d~~~~~~lgaaldq~Gr~~~Ar~ay~qAl~L~-~~~p~~~nNlgm  176 (257)
T COG5010          99 DRELLAAQGKNQIRNGNFGEAVSVLRKAARL-APTDWEAWNLLGAALDQLGRFDEARRAYRQALELA-PNEPSIANNLGM  176 (257)
T ss_pred             cHHHHHHHHHHHHHhcchHHHHHHHHHHhcc-CCCChhhhhHHHHHHHHccChhHHHHHHHHHHHhc-cCCchhhhhHHH
Confidence            5455566888889999999999999998654 36799999999999999999999999999987743 235666677776


Q ss_pred             HHHHccccc
Q 046694          109 LLIKYNQKA  117 (118)
Q Consensus       109 ~~~~~g~~~  117 (118)
                      .|.=.|+++
T Consensus       177 s~~L~gd~~  185 (257)
T COG5010         177 SLLLRGDLE  185 (257)
T ss_pred             HHHHcCCHH
Confidence            666666653

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=97.05  E-value=0.047  Score=41.10  Aligned_cols=89  Identities=10%  Similarity=0.075  Sum_probs=74.9

Q ss_pred             HHHHHHHhcCCHHHHHHHhhhCC--CC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCC
Q 046694            4 PRLDFYTRTGRIDLANKIFDRLP--VK-DSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGL   80 (118)
Q Consensus         4 ~ll~~~~~~~~~~~a~~~~~~m~--~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~   80 (118)
                      .+...+.+.+++++|...+++..  .| +......+-.++.+.|++++|..+|++....+ +-+...+...-..+-+.|+
T Consensus       125 ~~a~~L~~~~~~eeA~~~~~~~l~~~p~~~~~~~~~a~~l~~~g~~~~A~~~y~~~~~~~-p~~~~~~~~~a~~l~~~G~  203 (694)
T PRK15179        125 LMLRGVKRQQGIEAGRAEIELYFSGGSSSAREILLEAKSWDEIGQSEQADACFERLSRQH-PEFENGYVGWAQSLTRRGA  203 (694)
T ss_pred             HHHHHHHHhccHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCC
Confidence            35678889999999999999886  33 66677777788999999999999999998732 2347888888999999999


Q ss_pred             hhhHHHHHHHHhh
Q 046694           81 VEKGKKFFDEMQA   93 (118)
Q Consensus        81 ~~~a~~~~~~m~~   93 (118)
                      .+.|...|+...+
T Consensus       204 ~~~A~~~~~~a~~  216 (694)
T PRK15179        204 LWRARDVLQAGLD  216 (694)
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999999855

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=96.99  E-value=0.0076  Score=43.52  Aligned_cols=91  Identities=14%  Similarity=0.209  Sum_probs=73.1

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCCCC-----------CHhhHHHHHHHHHhcCCHHHHHHHHHHHHH----cCCC-c-c
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLPVK-----------DSASWITLILGYGMLGELDVAINLFEAMRE----DGVE-Y-Y   64 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~~~-----------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~----~~~~-p-~   64 (118)
                      ++.|-..|-+.|++++|+.+|++..+.           .....+.+-..|.+.+..++|.++|.+-..    -|.. | .
T Consensus       370 ~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~  449 (508)
T KOG1840|consen  370 YANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDV  449 (508)
T ss_pred             HHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCch
Confidence            567888999999999999999876411           234677788888999999999999888643    3332 3 3


Q ss_pred             HHHHHHHHHHHhcCCChhhHHHHHHHHh
Q 046694           65 PVSHIGVLTACSLGGLVEKGKKFFDEMQ   92 (118)
Q Consensus        65 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~   92 (118)
                      ..+|..|...|...|+++.|.++.+...
T Consensus       450 ~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  450 TYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            5889999999999999999999998873

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=96.98  E-value=0.034  Score=34.26  Aligned_cols=86  Identities=9%  Similarity=0.047  Sum_probs=66.0

Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcc--HHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHH
Q 046694           29 DSASWITLILGYGMLGELDVAINLFEAMREDGVEYY--PVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACM  106 (118)
Q Consensus        29 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~--~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~l  106 (118)
                      ....|..+-..+...|++++|...|++..+..-.++  ...+..+-..+.+.|+++.|...+++..+.. +-+...+..+
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            556778888889999999999999999976543332  4678888899999999999999999987743 2245556666


Q ss_pred             HHHHHHccc
Q 046694          107 VYLLIKYNQ  115 (118)
Q Consensus       107 i~~~~~~g~  115 (118)
                      -.++...|+
T Consensus       113 g~~~~~~g~  121 (172)
T PRK02603        113 AVIYHKRGE  121 (172)
T ss_pred             HHHHHHcCC
Confidence            667766654

>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=96.97  E-value=0.002  Score=33.39  Aligned_cols=57  Identities=23%  Similarity=0.301  Sum_probs=49.2

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcC-CHHHHHHHHHHHHH
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLG-ELDVAINLFEAMRE   58 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~-~~~~a~~~~~~m~~   58 (118)
                      |..+-..+.+.|++++|+..|++..   ..+...|..+-.++...| ++++|++.|++..+
T Consensus         6 ~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~   66 (69)
T PF13414_consen    6 WYNLGQIYFQQGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALK   66 (69)
T ss_dssp             HHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            5667788899999999999999765   447788999999999999 79999999998765

...

>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=96.96  E-value=0.039  Score=40.15  Aligned_cols=94  Identities=16%  Similarity=0.097  Sum_probs=76.0

Q ss_pred             HHHHHHHhcCCHHHHHHHhhhCC--CC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCC
Q 046694            4 PRLDFYTRTGRIDLANKIFDRLP--VK-DSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGL   80 (118)
Q Consensus         4 ~ll~~~~~~~~~~~a~~~~~~m~--~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~   80 (118)
                      -+-+.|.+.|++++|..+.++-.  +| .+-.|..--+.+-+.|++.+|.+.+++.+.... -|...=+-....+.++|+
T Consensus       199 ~lAqhyd~~g~~~~Al~~Id~aI~htPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~-~DRyiNsK~aKy~LRa~~  277 (517)
T PF12569_consen  199 FLAQHYDYLGDYEKALEYIDKAIEHTPTLVELYMTKARILKHAGDLKEAAEAMDEARELDL-ADRYINSKCAKYLLRAGR  277 (517)
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCCh-hhHHHHHHHHHHHHHCCC
Confidence            34567778999999999999664  45 456788888999999999999999999887542 366666777888889999


Q ss_pred             hhhHHHHHHHHhhcCCCc
Q 046694           81 VEKGKKFFDEMQARNVKP   98 (118)
Q Consensus        81 ~~~a~~~~~~m~~~g~~~   98 (118)
                      +++|.+++..+.+.+..|
T Consensus       278 ~e~A~~~~~~Ftr~~~~~  295 (517)
T PF12569_consen  278 IEEAEKTASLFTREDVDP  295 (517)
T ss_pred             HHHHHHHHHhhcCCCCCc
Confidence            999999999997777544

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 [], [].

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=96.93  E-value=0.03  Score=37.51  Aligned_cols=80  Identities=15%  Similarity=0.174  Sum_probs=66.5

Q ss_pred             HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHH-----hhcCCCccHHHHH
Q 046694           30 SASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEM-----QARNVKPTETHYA  104 (118)
Q Consensus        30 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m-----~~~g~~~~~~t~~  104 (118)
                      ..++..++..+...|+.+.+...++++.... +.+...|..++.+|.+.|+...|+..|+.+     .+.|+.|...+..
T Consensus       153 ~~~l~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~  231 (280)
T COG3629         153 IKALTKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRA  231 (280)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHH
Confidence            3467778888888899999999999987652 458899999999999999999999999887     4588999988888


Q ss_pred             HHHHHH
Q 046694          105 CMVYLL  110 (118)
Q Consensus       105 ~li~~~  110 (118)
                      ...+..
T Consensus       232 ~y~~~~  237 (280)
T COG3629         232 LYEEIL  237 (280)
T ss_pred             HHHHHh
Confidence            777764

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=96.90  E-value=0.012  Score=40.14  Aligned_cols=77  Identities=8%  Similarity=-0.036  Sum_probs=61.9

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCCh
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLV   81 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~   81 (118)
                      |-..|.++++.++|++..++...  ...+.-|-.++..|.+.|...+|.....++          ++..-+..|.+.|++
T Consensus       211 w~lki~aLa~~~~w~eL~~fa~s--kKsPIGyepFv~~~~~~~~~~eA~~yI~k~----------~~~~rv~~y~~~~~~  278 (319)
T PF04840_consen  211 WWLKIKALAENKDWDELEKFAKS--KKSPIGYEPFVEACLKYGNKKEASKYIPKI----------PDEERVEMYLKCGDY  278 (319)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHhC--CCCCCChHHHHHHHHHCCCHHHHHHHHHhC----------ChHHHHHHHHHCCCH
Confidence            45678999999999999998765  345688999999999999999999998882          235567778888888


Q ss_pred             hhHHHHHHH
Q 046694           82 EKGKKFFDE   90 (118)
Q Consensus        82 ~~a~~~~~~   90 (118)
                      .+|.+.-.+
T Consensus       279 ~~A~~~A~~  287 (319)
T PF04840_consen  279 KEAAQEAFK  287 (319)
T ss_pred             HHHHHHHHH
Confidence            888765433

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

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

Probab=96.85  E-value=0.007  Score=46.23  Aligned_cols=103  Identities=16%  Similarity=0.157  Sum_probs=83.3

Q ss_pred             HHHHHHhcCCHHHHHHHhhhCCC---CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc-CCCccHHHHHHHHHHHhcCCC
Q 046694            5 RLDFYTRTGRIDLANKIFDRLPV---KDSASWITLILGYGMLGELDVAINLFEAMRED-GVEYYPVSHIGVLTACSLGGL   80 (118)
Q Consensus         5 ll~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~p~~~~~~~ll~~~~~~~~   80 (118)
                      +-.+++..|++++|..+|.+..+   .+..+|-.+-+.|...|++..|+++|+...+. .-+-+..+...|-+++-++|.
T Consensus       652 IgiVLA~kg~~~~A~dIFsqVrEa~~~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~  731 (1018)
T KOG2002|consen  652 IGIVLAEKGRFSEARDIFSQVREATSDFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGK  731 (1018)
T ss_pred             hhhhhhhccCchHHHHHHHHHHHHHhhCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhh
Confidence            34567889999999999998873   35678999999999999999999999998654 434578888999999999999


Q ss_pred             hhhHHHHHHHHhhcCCCccHHHHHHHH
Q 046694           81 VEKGKKFFDEMQARNVKPTETHYACMV  107 (118)
Q Consensus        81 ~~~a~~~~~~m~~~g~~~~~~t~~~li  107 (118)
                      +.+|.+..-........-...-+|..+
T Consensus       732 ~~eak~~ll~a~~~~p~~~~v~FN~a~  758 (1018)
T KOG2002|consen  732 LQEAKEALLKARHLAPSNTSVKFNLAL  758 (1018)
T ss_pred             HHHHHHHHHHHHHhCCccchHHhHHHH
Confidence            999999888876655554555566443

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

Probab=96.84  E-value=0.023  Score=38.80  Aligned_cols=85  Identities=18%  Similarity=0.139  Sum_probs=61.7

Q ss_pred             hcCCHHHHHHHhhhCC--CC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHH
Q 046694           11 RTGRIDLANKIFDRLP--VK-DSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKF   87 (118)
Q Consensus        11 ~~~~~~~a~~~~~~m~--~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~   87 (118)
                      ...++++|..++.+-.  .| .+..-..+-+.....|+++.|.+.++...+.+...-..+-..+..+|.+.|+.++....
T Consensus       192 ~~~~~d~A~~~l~kAlqa~~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~f  271 (389)
T COG2956         192 ASSDVDRARELLKKALQADKKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNF  271 (389)
T ss_pred             hhhhHHHHHHHHHHHHhhCccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHH
Confidence            3455666666665443  12 22233334467777899999999999999887777778888999999999999999988


Q ss_pred             HHHHhhcC
Q 046694           88 FDEMQARN   95 (118)
Q Consensus        88 ~~~m~~~g   95 (118)
                      +..+.+..
T Consensus       272 L~~~~~~~  279 (389)
T COG2956         272 LRRAMETN  279 (389)
T ss_pred             HHHHHHcc
Confidence            88875533

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.82  E-value=0.012  Score=30.74  Aligned_cols=54  Identities=13%  Similarity=0.003  Sum_probs=29.6

Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhh
Q 046694           39 GYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQA   93 (118)
Q Consensus        39 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~   93 (118)
                      .|.+.+++++|.++++++...+ +.+...+...-..+.+.|++++|.+.++...+
T Consensus         4 ~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~   57 (73)
T PF13371_consen    4 IYLQQEDYEEALEVLERALELD-PDDPELWLQRARCLFQLGRYEEALEDLERALE   57 (73)
T ss_pred             HHHhCCCHHHHHHHHHHHHHhC-cccchhhHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            3455556666666666655442 12444455555555566666666666666554

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

Probab=96.82  E-value=0.054  Score=38.89  Aligned_cols=106  Identities=14%  Similarity=0.079  Sum_probs=63.9

Q ss_pred             HHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHh-cCCChh
Q 046694            7 DFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACS-LGGLVE   82 (118)
Q Consensus         7 ~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~-~~~~~~   82 (118)
                      ..|-+.|+-.+|.+.+-+.-   ..|+.+..=+-.-|....-+++++..|++.  .-+.|+.+-|-.|+..|. +.|+++
T Consensus       600 dlydqegdksqafq~~ydsyryfp~nie~iewl~ayyidtqf~ekai~y~eka--aliqp~~~kwqlmiasc~rrsgnyq  677 (840)
T KOG2003|consen  600 DLYDQEGDKSQAFQCHYDSYRYFPCNIETIEWLAAYYIDTQFSEKAINYFEKA--ALIQPNQSKWQLMIASCFRRSGNYQ  677 (840)
T ss_pred             HHhhcccchhhhhhhhhhcccccCcchHHHHHHHHHHHhhHHHHHHHHHHHHH--HhcCccHHHHHHHHHHHHHhcccHH
Confidence            34445555555544432221   224444444444455555566777777653  336788888887766554 567888


Q ss_pred             hHHHHHHHHhhcCCCccHHHHHHHHHHHHHccc
Q 046694           83 KGKKFFDEMQARNVKPTETHYACMVYLLIKYNQ  115 (118)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~  115 (118)
                      +|.++|+...+ .++-|......|++.+...|-
T Consensus       678 ka~d~yk~~hr-kfpedldclkflvri~~dlgl  709 (840)
T KOG2003|consen  678 KAFDLYKDIHR-KFPEDLDCLKFLVRIAGDLGL  709 (840)
T ss_pred             HHHHHHHHHHH-hCccchHHHHHHHHHhccccc
Confidence            88888887744 366677777777777776653

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

Probab=96.79  E-value=0.069  Score=36.37  Aligned_cols=105  Identities=11%  Similarity=0.054  Sum_probs=70.0

Q ss_pred             cCCHHHHHHHhhhCCC--C-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHH
Q 046694           12 TGRIDLANKIFDRLPV--K-DSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFF   88 (118)
Q Consensus        12 ~~~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~   88 (118)
                      .+..+.+.+.++....  | .......+-..+...|++++|.+.+++..+.. +.+...+..+-..+...|++++|..++
T Consensus        93 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~g~~~eA~~~l  171 (355)
T cd05804          93 SGMRDHVARVLPLWAPENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQGRFKEGIAFM  171 (355)
T ss_pred             ccCchhHHHHHhccCcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHH
Confidence            3445555555543221  1 22333344467778899999999999998763 335667778888899999999999999


Q ss_pred             HHHhhcCC-CccH--HHHHHHHHHHHHccccc
Q 046694           89 DEMQARNV-KPTE--THYACMVYLLIKYNQKA  117 (118)
Q Consensus        89 ~~m~~~g~-~~~~--~t~~~li~~~~~~g~~~  117 (118)
                      ++..+..- .|+.  ..|..+...+...|+.+
T Consensus       172 ~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~  203 (355)
T cd05804         172 ESWRDTWDCSSMLRGHNWWHLALFYLERGDYE  203 (355)
T ss_pred             HhhhhccCCCcchhHHHHHHHHHHHHHCCCHH
Confidence            98865432 2332  34556777888888765

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.

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

Probab=96.78  E-value=0.024  Score=39.45  Aligned_cols=69  Identities=16%  Similarity=-0.076  Sum_probs=59.6

Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCcc
Q 046694           29 DSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPT   99 (118)
Q Consensus        29 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~   99 (118)
                      +...+.++-..|.+.+.|.+|...|+.-.  ...|+..+|+-+-+++.+.|+.+.|.+++++-...-.+|+
T Consensus       327 ~p~L~~tLG~L~~k~~~w~kA~~~leaAl--~~~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~~~~~~~  395 (400)
T COG3071         327 DPLLLSTLGRLALKNKLWGKASEALEAAL--KLRPSASDYAELADALDQLGEPEEAEQVRREALLLTRQPN  395 (400)
T ss_pred             ChhHHHHHHHHHHHhhHHHHHHHHHHHHH--hcCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHHhcCCC
Confidence            66788999999999999999999999544  4589999999999999999999999999998765444444

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.76  E-value=0.02  Score=29.83  Aligned_cols=55  Identities=18%  Similarity=0.225  Sum_probs=47.6

Q ss_pred             HHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 046694            6 LDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDG   60 (118)
Q Consensus         6 l~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~   60 (118)
                      -..|.+.+++++|.++++.+.   ..+...|...-..+.+.|++++|.+.|++..+.+
T Consensus         2 ~~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~   59 (73)
T PF13371_consen    2 KQIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALELS   59 (73)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHC
Confidence            357889999999999999886   3477788888899999999999999999998653

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

Probab=96.72  E-value=0.044  Score=41.75  Aligned_cols=112  Identities=19%  Similarity=0.214  Sum_probs=77.7

Q ss_pred             HHHHHHHhcCCHHHHHHHhhhCCC----CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc-cHHHHHHHHHHHhcC
Q 046694            4 PRLDFYTRTGRIDLANKIFDRLPV----KDSASWITLILGYGMLGELDVAINLFEAMREDGVEY-YPVSHIGVLTACSLG   78 (118)
Q Consensus         4 ~ll~~~~~~~~~~~a~~~~~~m~~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~   78 (118)
                      -+..+|...|++.+|..+|..+..    .+...|-.+-..|-..|..++|...|......  .| +...=..+-..+-+.
T Consensus       419 d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~--~p~~~D~Ri~Lasl~~~~  496 (895)
T KOG2076|consen  419 DLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEYEEAIEFYEKVLIL--APDNLDARITLASLYQQL  496 (895)
T ss_pred             HHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhHHHHHHHHHHHHhc--CCCchhhhhhHHHHHHhc
Confidence            355677888888888888887752    26677888888888888888888888887754  34 334444555666778


Q ss_pred             CChhhHHHHHHHHh--------hcCCCccHHHHHHHHHHHHHccccc
Q 046694           79 GLVEKGKKFFDEMQ--------ARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        79 ~~~~~a~~~~~~m~--------~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      |+.|+|.+.++.|.        ..++.|+....-...+.+.+.|+.+
T Consensus       497 g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l~~~gk~E  543 (895)
T KOG2076|consen  497 GNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDILFQVGKRE  543 (895)
T ss_pred             CCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHHHHhhhHH
Confidence            88888888888852        2345666666666666666666554

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=96.70  E-value=0.019  Score=38.38  Aligned_cols=75  Identities=17%  Similarity=0.239  Sum_probs=64.2

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC--CC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHH-----cCCCccHHHHHHHHH
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP--VK-DSASWITLILGYGMLGELDVAINLFEAMRE-----DGVEYYPVSHIGVLT   73 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~--~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-----~~~~p~~~~~~~ll~   73 (118)
                      +..++..+...|+++.+...++++.  .| +-..|-.+|.+|.+.|+...|++.|+++.+     .|+.|...+......
T Consensus       156 l~~lae~~~~~~~~~~~~~~l~~Li~~dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~y~~  235 (280)
T COG3629         156 LTKLAEALIACGRADAVIEHLERLIELDPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRALYEE  235 (280)
T ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHHHHH
Confidence            4567888889999999999998876  23 888999999999999999999999999965     589999988887777


Q ss_pred             HHh
Q 046694           74 ACS   76 (118)
Q Consensus        74 ~~~   76 (118)
                      ...
T Consensus       236 ~~~  238 (280)
T COG3629         236 ILR  238 (280)
T ss_pred             Hhc
Confidence            744

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.69  E-value=0.057  Score=38.46  Aligned_cols=64  Identities=14%  Similarity=0.048  Sum_probs=42.2

Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccH----HHHHHHHHHHhcCCChhhHHHHHHHHhhc
Q 046694           29 DSASWITLILGYGMLGELDVAINLFEAMREDGVEYYP----VSHIGVLTACSLGGLVEKGKKFFDEMQAR   94 (118)
Q Consensus        29 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~----~~~~~ll~~~~~~~~~~~a~~~~~~m~~~   94 (118)
                      +...|+.+-.+|.+.|++++|+..|++-.+.  .|+.    ..|..+-.+|.+.|+.++|...+++..+.
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            5556677777777777777777777775543  3442    34677777777777777777777776553

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

Probab=96.66  E-value=0.05  Score=38.84  Aligned_cols=87  Identities=11%  Similarity=-0.076  Sum_probs=71.5

Q ss_pred             HHHHHHHhcCCHHHHHHHhhhCC--CCC-HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCC
Q 046694            4 PRLDFYTRTGRIDLANKIFDRLP--VKD-SASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGL   80 (118)
Q Consensus         4 ~ll~~~~~~~~~~~a~~~~~~m~--~~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~   80 (118)
                      .....+.+.++.++|.+-++++.  .|+ ...+-.+-.++.+.|++.+|.+++++..... +-|...|..+-.+|...|+
T Consensus       345 ~~~~i~~~~nk~~~A~e~~~kal~l~P~~~~l~~~~a~all~~g~~~eai~~L~~~~~~~-p~dp~~w~~LAqay~~~g~  423 (484)
T COG4783         345 LAGDILLEANKAKEAIERLKKALALDPNSPLLQLNLAQALLKGGKPQEAIRILNRYLFND-PEDPNGWDLLAQAYAELGN  423 (484)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHhcCChHHHHHHHHHHhhcC-CCCchHHHHHHHHHHHhCc
Confidence            45677889999999999999886  454 5566777889999999999999999987663 4589999999999999888


Q ss_pred             hhhHHHHHHHH
Q 046694           81 VEKGKKFFDEM   91 (118)
Q Consensus        81 ~~~a~~~~~~m   91 (118)
                      ..++.....+.
T Consensus       424 ~~~a~~A~AE~  434 (484)
T COG4783         424 RAEALLARAEG  434 (484)
T ss_pred             hHHHHHHHHHH
Confidence            87777665554

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=96.63  E-value=0.039  Score=31.37  Aligned_cols=65  Identities=9%  Similarity=0.021  Sum_probs=47.5

Q ss_pred             CHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHH
Q 046694           45 ELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLL  110 (118)
Q Consensus        45 ~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~  110 (118)
                      +.-+..+-++.+-...+.|++.+..+.|++|-+.+++..|.++++-.+.+ +.+....|..+++-+
T Consensus        25 D~we~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K-~~~~~~~Y~~~lqEl   89 (108)
T PF02284_consen   25 DGWELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDK-CGNKKEIYPYILQEL   89 (108)
T ss_dssp             -HHHHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TTT-TTHHHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-ccChHHHHHHHHHHH
Confidence            45677888888888889999999999999999999999999999999443 233333788777654

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 ....

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

Probab=96.59  E-value=0.083  Score=35.31  Aligned_cols=111  Identities=11%  Similarity=0.172  Sum_probs=67.7

Q ss_pred             HHHHHHhc-CCHHHHHHHhhhCC-------CC--CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-----CccHH-HH
Q 046694            5 RLDFYTRT-GRIDLANKIFDRLP-------VK--DSASWITLILGYGMLGELDVAINLFEAMREDGV-----EYYPV-SH   68 (118)
Q Consensus         5 ll~~~~~~-~~~~~a~~~~~~m~-------~~--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-----~p~~~-~~   68 (118)
                      +-..|-+. |++++|++.|++-.       .+  -...+..+...+.+.|++++|.++|++....-.     +++.. .|
T Consensus       120 lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~  199 (282)
T PF14938_consen  120 LAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYF  199 (282)
T ss_dssp             HHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHH
Confidence            33445555 67777777776443       11  234566777889999999999999999865432     23332 23


Q ss_pred             HHHHHHHhcCCChhhHHHHHHHHhhc--CCCcc--HHHHHHHHHHHHHcccc
Q 046694           69 IGVLTACSLGGLVEKGKKFFDEMQAR--NVKPT--ETHYACMVYLLIKYNQK  116 (118)
Q Consensus        69 ~~ll~~~~~~~~~~~a~~~~~~m~~~--g~~~~--~~t~~~li~~~~~~g~~  116 (118)
                      ...+=++...|++-.|.+.+++....  ++..+  -.....||.+| +.|+.
T Consensus       200 l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~-~~~D~  250 (282)
T PF14938_consen  200 LKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAY-EEGDV  250 (282)
T ss_dssp             HHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHH-HTT-C
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHH-HhCCH
Confidence            33344666779999999999998543  44433  55666777777 44443

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.58  E-value=0.047  Score=38.84  Aligned_cols=58  Identities=14%  Similarity=-0.019  Sum_probs=50.0

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC--CCC-H---hhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP--VKD-S---ASWITLILGYGMLGELDVAINLFEAMRED   59 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~--~~~-~---~~~~~li~~~~~~~~~~~a~~~~~~m~~~   59 (118)
                      |+.+-.+|.+.|++++|+..|++-.  .|+ .   .+|..+-.+|.+.|+.++|+..+++..+.
T Consensus        78 ~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         78 AVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            5677889999999999999998753  454 3   46999999999999999999999999875

>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=96.51  E-value=0.06  Score=37.88  Aligned_cols=86  Identities=9%  Similarity=-0.106  Sum_probs=69.2

Q ss_pred             HHHHHHHhcCCHHHHHHHhhhCCC---CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc-cHHHHHHHHHHHhcCC
Q 046694            4 PRLDFYTRTGRIDLANKIFDRLPV---KDSASWITLILGYGMLGELDVAINLFEAMREDGVEY-YPVSHIGVLTACSLGG   79 (118)
Q Consensus         4 ~ll~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~   79 (118)
                      .|...+...++-.+|.++.++...   .+......-...+.+.++.+.|+++.++..+.  .| +..+|..+..+|.+.|
T Consensus       205 ~LA~v~l~~~~E~~AI~ll~~aL~~~p~d~~LL~~Qa~fLl~k~~~~lAL~iAk~av~l--sP~~f~~W~~La~~Yi~~~  282 (395)
T PF09295_consen  205 LLARVYLLMNEEVEAIRLLNEALKENPQDSELLNLQAEFLLSKKKYELALEIAKKAVEL--SPSEFETWYQLAECYIQLG  282 (395)
T ss_pred             HHHHHHHhcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CchhHHHHHHHHHHHHhcC
Confidence            356667677888899888887653   25555555567788999999999999999875  56 5679999999999999


Q ss_pred             ChhhHHHHHHHH
Q 046694           80 LVEKGKKFFDEM   91 (118)
Q Consensus        80 ~~~~a~~~~~~m   91 (118)
                      +++.|...+..+
T Consensus       283 d~e~ALlaLNs~  294 (395)
T PF09295_consen  283 DFENALLALNSC  294 (395)
T ss_pred             CHHHHHHHHhcC
Confidence            999999888876

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

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

Probab=96.49  E-value=0.053  Score=39.50  Aligned_cols=99  Identities=18%  Similarity=0.140  Sum_probs=75.4

Q ss_pred             cCCHHHHHHHhhhCCCC----------CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCCh
Q 046694           12 TGRIDLANKIFDRLPVK----------DSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLV   81 (118)
Q Consensus        12 ~~~~~~a~~~~~~m~~~----------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~   81 (118)
                      .+.+.+|...|+.-..+          =..+++.+-.+|.+.+..++|+..|++-.... +-+..++.++--.|...|++
T Consensus       427 ~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l~-~k~~~~~asig~iy~llgnl  505 (611)
T KOG1173|consen  427 YEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLLS-PKDASTHASIGYIYHLLGNL  505 (611)
T ss_pred             HhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHcC-CCchhHHHHHHHHHHHhcCh
Confidence            35566666666543310          22457888899999999999999999987652 34889999999999999999


Q ss_pred             hhHHHHHHHHhhcCCCccHHHHHHHHHHHHHc
Q 046694           82 EKGKKFFDEMQARNVKPTETHYACMVYLLIKY  113 (118)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~  113 (118)
                      +.|...|.+-..  +.|+..+...++..+...
T Consensus       506 d~Aid~fhKaL~--l~p~n~~~~~lL~~aie~  535 (611)
T KOG1173|consen  506 DKAIDHFHKALA--LKPDNIFISELLKLAIED  535 (611)
T ss_pred             HHHHHHHHHHHh--cCCccHHHHHHHHHHHHh
Confidence            999999997654  788888888887766543

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

Probab=96.45  E-value=0.17  Score=37.02  Aligned_cols=112  Identities=14%  Similarity=0.115  Sum_probs=83.2

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC----CC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcc-HHHHHHHHHHH
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP----VK-DSASWITLILGYGMLGELDVAINLFEAMREDGVEYY-PVSHIGVLTAC   75 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~----~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~   75 (118)
                      |..+|..--|..-+..|+.+|.+..    .+ ++..++++|.-|| .++.+-|.++|+-=...  -+| +.-....++-+
T Consensus       369 ~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~c-skD~~~AfrIFeLGLkk--f~d~p~yv~~YldfL  445 (656)
T KOG1914|consen  369 YCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYC-SKDKETAFRIFELGLKK--FGDSPEYVLKYLDFL  445 (656)
T ss_pred             hhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHh-cCChhHHHHHHHHHHHh--cCCChHHHHHHHHHH
Confidence            5566777777788889999998776    22 7778888888765 57788899998764332  233 33445567777


Q ss_pred             hcCCChhhHHHHHHHHhhcCCCcc--HHHHHHHHHHHHHcccc
Q 046694           76 SLGGLVEKGKKFFDEMQARNVKPT--ETHYACMVYLLIKYNQK  116 (118)
Q Consensus        76 ~~~~~~~~a~~~~~~m~~~g~~~~--~~t~~~li~~~~~~g~~  116 (118)
                      .+.++=..+..+|++....++.||  ...|..+|+.=+.-|++
T Consensus       446 ~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL  488 (656)
T KOG1914|consen  446 SHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDL  488 (656)
T ss_pred             HHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccH
Confidence            888888899999999988777665  57899988887777765

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

Probab=96.44  E-value=0.018  Score=41.82  Aligned_cols=75  Identities=17%  Similarity=0.199  Sum_probs=64.1

Q ss_pred             CchHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhc
Q 046694            1 MIEPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSL   77 (118)
Q Consensus         1 t~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~   77 (118)
                      +++.|-++|-+.+++++|+..|++-.   ..|+.+|.++--.|...|.++.|.+.|.+-.  .+.|+-.+-..+|+.+..
T Consensus       457 ~~~NLGH~~Rkl~~~~eAI~~~q~aL~l~~k~~~~~asig~iy~llgnld~Aid~fhKaL--~l~p~n~~~~~lL~~aie  534 (611)
T KOG1173|consen  457 TLNNLGHAYRKLNKYEEAIDYYQKALLLSPKDASTHASIGYIYHLLGNLDKAIDHFHKAL--ALKPDNIFISELLKLAIE  534 (611)
T ss_pred             HHHhHHHHHHHHhhHHHHHHHHHHHHHcCCCchhHHHHHHHHHHHhcChHHHHHHHHHHH--hcCCccHHHHHHHHHHHH
Confidence            46778899999999999999999654   5699999999999999999999999999855  468888888888876554

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

Probab=96.39  E-value=0.066  Score=37.09  Aligned_cols=78  Identities=8%  Similarity=-0.078  Sum_probs=63.0

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           38 LGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        38 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      ..+...|++++|++.|++..+.. +-+...|..+-.++.+.|++++|...+++..+.. +.+...|..+-.+|...|+++
T Consensus        10 ~~a~~~~~~~~Ai~~~~~Al~~~-P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~~~   87 (356)
T PLN03088         10 KEAFVDDDFALAVDLYTQAIDLD-PNNAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEEYQ   87 (356)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCCHH
Confidence            34556799999999999998753 2367788888899999999999999999997753 235677888888888888765

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

Probab=96.37  E-value=0.082  Score=42.46  Aligned_cols=110  Identities=14%  Similarity=0.095  Sum_probs=67.9

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcc---HHHHHHHHHHH
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYY---PVSHIGVLTAC   75 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~---~~~~~~ll~~~   75 (118)
                      |..|...|.+.+++++|.++++.|.   ......|......+.+.++-+.|..++++..+.  -|.   .....-....-
T Consensus      1533 ~~~L~~iy~k~ek~~~A~ell~~m~KKF~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~--lPk~eHv~~IskfAqLE 1610 (1710)
T KOG1070|consen 1533 HLKLLGIYEKSEKNDEADELLRLMLKKFGQTRKVWIMYADFLLRQNEAEAARELLKRALKS--LPKQEHVEFISKFAQLE 1610 (1710)
T ss_pred             HHHHHHHHHHhhcchhHHHHHHHHHHHhcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhh--cchhhhHHHHHHHHHHH
Confidence            4567888899999999999999886   346678888888888888878887777776543  222   11111122222


Q ss_pred             hcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHcc
Q 046694           76 SLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYN  114 (118)
Q Consensus        76 ~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g  114 (118)
                      -+.|+.+.+..+|+..... .+--...|+..|+.=.+.|
T Consensus      1611 Fk~GDaeRGRtlfEgll~a-yPKRtDlW~VYid~eik~~ 1648 (1710)
T KOG1070|consen 1611 FKYGDAERGRTLFEGLLSA-YPKRTDLWSVYIDMEIKHG 1648 (1710)
T ss_pred             hhcCCchhhHHHHHHHHhh-CccchhHHHHHHHHHHccC
Confidence            3555666666666555432 2223455555555544444

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.22  E-value=0.026  Score=42.25  Aligned_cols=82  Identities=12%  Similarity=0.245  Sum_probs=71.5

Q ss_pred             HHHHHHHhcCCHHHHHHHhhhCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhh
Q 046694            4 PRLDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEK   83 (118)
Q Consensus         4 ~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~   83 (118)
                      --+.-+...|+..+|.++-.+.+-||...|-.-+.+++..++|++.+++-+.++      ++.-|..++.+|.+.|+.++
T Consensus       689 dTv~~li~~g~~k~a~ql~~~FkipdKr~~wLk~~aLa~~~kweeLekfAkskk------sPIGy~PFVe~c~~~~n~~E  762 (829)
T KOG2280|consen  689 DTVTTLILIGQNKRAEQLKSDFKIPDKRLWWLKLTALADIKKWEELEKFAKSKK------SPIGYLPFVEACLKQGNKDE  762 (829)
T ss_pred             HHHHHHHHccchHHHHHHHHhcCCcchhhHHHHHHHHHhhhhHHHHHHHHhccC------CCCCchhHHHHHHhcccHHH
Confidence            345667788999999999999999999999999999999999999888877755      36678889999999999999


Q ss_pred             HHHHHHHH
Q 046694           84 GKKFFDEM   91 (118)
Q Consensus        84 a~~~~~~m   91 (118)
                      |.+++-+.
T Consensus       763 A~KYiprv  770 (829)
T KOG2280|consen  763 AKKYIPRV  770 (829)
T ss_pred             Hhhhhhcc
Confidence            99988766

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

Probab=96.13  E-value=0.1  Score=38.04  Aligned_cols=111  Identities=17%  Similarity=0.111  Sum_probs=82.8

Q ss_pred             hHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcc--HHHHHHHHHHHhc
Q 046694            3 EPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYY--PVSHIGVLTACSL   77 (118)
Q Consensus         3 ~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~--~~~~~~ll~~~~~   77 (118)
                      +.|--.|.-.|.+++|++.|+...   ..|...||-+-..++...+-++|+..|.+..+-  +|+  .+=||.-| +|..
T Consensus       434 ~~LGVLy~ls~efdraiDcf~~AL~v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqL--qP~yVR~RyNlgI-S~mN  510 (579)
T KOG1125|consen  434 SGLGVLYNLSGEFDRAVDCFEAALQVKPNDYLLWNRLGATLANGNRSEEAISAYNRALQL--QPGYVRVRYNLGI-SCMN  510 (579)
T ss_pred             hhhHHHHhcchHHHHHHHHHHHHHhcCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhc--CCCeeeeehhhhh-hhhh
Confidence            445567778899999999998664   348999999999999999999999999998875  565  34455444 5688


Q ss_pred             CCChhhHHHHHHHH---hhc------CCCccHHHHHHHHHHHHHcccc
Q 046694           78 GGLVEKGKKFFDEM---QAR------NVKPTETHYACMVYLLIKYNQK  116 (118)
Q Consensus        78 ~~~~~~a~~~~~~m---~~~------g~~~~~~t~~~li~~~~~~g~~  116 (118)
                      .|.+++|.+.|=..   .+.      +..++...|..|=.+++-.++.
T Consensus       511 lG~ykEA~~hlL~AL~mq~ks~~~~~~~~~se~iw~tLR~als~~~~~  558 (579)
T KOG1125|consen  511 LGAYKEAVKHLLEALSMQRKSRNHNKAPMASENIWQTLRLALSAMNRS  558 (579)
T ss_pred             hhhHHHHHHHHHHHHHhhhcccccccCCcchHHHHHHHHHHHHHcCCc
Confidence            89999998887664   222      1233556888777666655543

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=96.13  E-value=0.069  Score=32.21  Aligned_cols=68  Identities=16%  Similarity=0.142  Sum_probs=47.8

Q ss_pred             HHhcCCHHHHHHHhhhCCCC------CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHh
Q 046694            9 YTRTGRIDLANKIFDRLPVK------DSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACS   76 (118)
Q Consensus         9 ~~~~~~~~~a~~~~~~m~~~------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~   76 (118)
                      -.+.|++++|++.|+.+..+      ....--.++.+|.+.+++++|...+++..+..-.-..+.|...+.+++
T Consensus        20 ~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL~   93 (142)
T PF13512_consen   20 ALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGLS   93 (142)
T ss_pred             HHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHHH
Confidence            34678999999999988632      445566788999999999999999999987532222344444444444

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.12  E-value=0.062  Score=37.47  Aligned_cols=87  Identities=15%  Similarity=0.096  Sum_probs=63.9

Q ss_pred             HHHHHHhcCCHHHHHHHhhhCCCC---CHhhHHHHH-HHHHhcCCHHHHHHHHHHHHHcCCCccHHH-HHHHHHHHhcCC
Q 046694            5 RLDFYTRTGRIDLANKIFDRLPVK---DSASWITLI-LGYGMLGELDVAINLFEAMREDGVEYYPVS-HIGVLTACSLGG   79 (118)
Q Consensus         5 ll~~~~~~~~~~~a~~~~~~m~~~---~~~~~~~li-~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~-~~~ll~~~~~~~   79 (118)
                      +.++++..|++.+|+++|-++..|   |..+|-+++ +.|...+.++.|.+++-.+..   +.+..+ .-.+.+.|-+++
T Consensus       399 ~AQAk~atgny~eaEelf~~is~~~ikn~~~Y~s~LArCyi~nkkP~lAW~~~lk~~t---~~e~fsLLqlIAn~CYk~~  475 (557)
T KOG3785|consen  399 LAQAKLATGNYVEAEELFIRISGPEIKNKILYKSMLARCYIRNKKPQLAWDMMLKTNT---PSERFSLLQLIANDCYKAN  475 (557)
T ss_pred             HHHHHHHhcChHHHHHHHhhhcChhhhhhHHHHHHHHHHHHhcCCchHHHHHHHhcCC---chhHHHHHHHHHHHHHHHH
Confidence            457888889999999999887754   667777666 788888999999888766542   222222 233456788888


Q ss_pred             ChhhHHHHHHHHhhc
Q 046694           80 LVEKGKKFFDEMQAR   94 (118)
Q Consensus        80 ~~~~a~~~~~~m~~~   94 (118)
                      .+=-|-+.|+++...
T Consensus       476 eFyyaaKAFd~lE~l  490 (557)
T KOG3785|consen  476 EFYYAAKAFDELEIL  490 (557)
T ss_pred             HHHHHHHhhhHHHcc
Confidence            888888888888664

>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=96.07  E-value=0.28  Score=35.82  Aligned_cols=113  Identities=10%  Similarity=0.116  Sum_probs=81.1

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC------------------CCCHh--hHHHHHHHHHhcCCHHHHHHHHHHHHHcCC
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP------------------VKDSA--SWITLILGYGMLGELDVAINLFEAMREDGV   61 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~------------------~~~~~--~~~~li~~~~~~~~~~~a~~~~~~m~~~~~   61 (118)
                      |+.|-..|....+.+-...++.+..                  .|...  ++.-+-..|-..|+.++|++.+++..++  
T Consensus       146 F~~lk~Ly~d~~K~~~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~h--  223 (517)
T PF12569_consen  146 FSNLKPLYKDPEKAAIIESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEH--  223 (517)
T ss_pred             HHHHHHHHcChhHHHHHHHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhc--
Confidence            3445555555555555555554431                  12332  3345567788889999999999998887  


Q ss_pred             Ccc-HHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           62 EYY-PVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        62 ~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      .|+ +.-|..--+.+-+.|++++|.+..+........ |...=+.....+.|+|+++
T Consensus       224 tPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~~-DRyiNsK~aKy~LRa~~~e  279 (517)
T PF12569_consen  224 TPTLVELYMTKARILKHAGDLKEAAEAMDEARELDLA-DRYINSKCAKYLLRAGRIE  279 (517)
T ss_pred             CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCChh-hHHHHHHHHHHHHHCCCHH
Confidence            465 678888899999999999999999998765433 6777777778888888765

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=96.03  E-value=0.28  Score=35.47  Aligned_cols=85  Identities=13%  Similarity=0.059  Sum_probs=50.1

Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHH
Q 046694           29 DSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVY  108 (118)
Q Consensus        29 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~  108 (118)
                      |....+-+-..|-+.|+-..|.+++-+--+ -++-+..+.-.+-..|....-+++++.+|++..  -++|+.+-|.-||-
T Consensus       591 dp~ilskl~dlydqegdksqafq~~ydsyr-yfp~nie~iewl~ayyidtqf~ekai~y~ekaa--liqp~~~kwqlmia  667 (840)
T KOG2003|consen  591 DPAILSKLADLYDQEGDKSQAFQCHYDSYR-YFPCNIETIEWLAAYYIDTQFSEKAINYFEKAA--LIQPNQSKWQLMIA  667 (840)
T ss_pred             CHHHHHHHHHHhhcccchhhhhhhhhhccc-ccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHH--hcCccHHHHHHHHH
Confidence            444555555555555555555554443221 133355555556666666666667777776653  37899999998876


Q ss_pred             HH-HHcccc
Q 046694          109 LL-IKYNQK  116 (118)
Q Consensus       109 ~~-~~~g~~  116 (118)
                      .| .++|..
T Consensus       668 sc~rrsgny  676 (840)
T KOG2003|consen  668 SCFRRSGNY  676 (840)
T ss_pred             HHHHhcccH
Confidence            55 455654

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

Probab=96.03  E-value=0.082  Score=35.38  Aligned_cols=82  Identities=20%  Similarity=0.112  Sum_probs=66.1

Q ss_pred             cCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcc---HHHHHHHHHHHhcCCChhhHH
Q 046694           12 TGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYY---PVSHIGVLTACSLGGLVEKGK   85 (118)
Q Consensus        12 ~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~---~~~~~~ll~~~~~~~~~~~a~   85 (118)
                      .++.+.|.++|+...   ..+...|..-++-+.+.|+.+.|-.+|++.... +.++   ...|...++-=.+.|+++.+.
T Consensus        49 ~~d~~~A~~Ife~glk~f~~~~~~~~~Y~~~l~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~  127 (280)
T PF05843_consen   49 NKDPKRARKIFERGLKKFPSDPDFWLEYLDFLIKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVR  127 (280)
T ss_dssp             CS-HHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHH
T ss_pred             CCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHH
Confidence            467777999999775   458888999999999999999999999999765 3332   368999999999999999999


Q ss_pred             HHHHHHhhc
Q 046694           86 KFFDEMQAR   94 (118)
Q Consensus        86 ~~~~~m~~~   94 (118)
                      ++.+++.+.
T Consensus       128 ~v~~R~~~~  136 (280)
T PF05843_consen  128 KVEKRAEEL  136 (280)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999998764

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.

>PRK15331 chaperone protein SicA; Provisional

Probab=96.02  E-value=0.08  Score=32.72  Aligned_cols=85  Identities=15%  Similarity=0.056  Sum_probs=65.2

Q ss_pred             HHhcCCHHHHHHHhhhCC--CC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHH
Q 046694            9 YTRTGRIDLANKIFDRLP--VK-DSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGK   85 (118)
Q Consensus         9 ~~~~~~~~~a~~~~~~m~--~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~   85 (118)
                      +...|++++|+.+|.-+-  .+ |..-|..|-..+-..+.+++|...|...-.... -|+..+--.-.++...|+.+.|.
T Consensus        47 ~y~~Gk~~eA~~~F~~L~~~d~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~-~dp~p~f~agqC~l~l~~~~~A~  125 (165)
T PRK15331         47 FYNQGRLDEAETFFRFLCIYDFYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLK-NDYRPVFFTGQCQLLMRKAAKAR  125 (165)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc-CCCCccchHHHHHHHhCCHHHHH
Confidence            456899999999998654  33 555556666666667999999999998865543 35555666778888999999999


Q ss_pred             HHHHHHhhc
Q 046694           86 KFFDEMQAR   94 (118)
Q Consensus        86 ~~~~~m~~~   94 (118)
                      ..|+...+.
T Consensus       126 ~~f~~a~~~  134 (165)
T PRK15331        126 QCFELVNER  134 (165)
T ss_pred             HHHHHHHhC
Confidence            999998773

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=96.01  E-value=0.0073  Score=27.38  Aligned_cols=24  Identities=25%  Similarity=0.271  Sum_probs=13.2

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHH
Q 046694           33 WITLILGYGMLGELDVAINLFEAM   56 (118)
Q Consensus        33 ~~~li~~~~~~~~~~~a~~~~~~m   56 (118)
                      |+.|-..|.+.|++++|.++|++.
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~a   25 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQA   25 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHH
Confidence            445555566666666666666553

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=96.01  E-value=0.032  Score=42.35  Aligned_cols=79  Identities=20%  Similarity=0.254  Sum_probs=50.6

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCCh
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLV   81 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~   81 (118)
                      |..+.+-|+..|+++.|+++|-+-     ..++..|..|.++|.|+.|.++-.+..  |-+.....|-+-..-+-++|.+
T Consensus       768 y~~iadhyan~~dfe~ae~lf~e~-----~~~~dai~my~k~~kw~da~kla~e~~--~~e~t~~~yiakaedldehgkf  840 (1636)
T KOG3616|consen  768 YGEIADHYANKGDFEIAEELFTEA-----DLFKDAIDMYGKAGKWEDAFKLAEECH--GPEATISLYIAKAEDLDEHGKF  840 (1636)
T ss_pred             chHHHHHhccchhHHHHHHHHHhc-----chhHHHHHHHhccccHHHHHHHHHHhc--CchhHHHHHHHhHHhHHhhcch
Confidence            344556677778888888887543     246667788888888888888776643  3344555666655555555555


Q ss_pred             hhHHHH
Q 046694           82 EKGKKF   87 (118)
Q Consensus        82 ~~a~~~   87 (118)
                      .+|+++
T Consensus       841 ~eaeql  846 (1636)
T KOG3616|consen  841 AEAEQL  846 (1636)
T ss_pred             hhhhhe
Confidence            555544

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=95.99  E-value=0.33  Score=34.02  Aligned_cols=108  Identities=12%  Similarity=0.051  Sum_probs=69.9

Q ss_pred             HHHHHHhcCCHHHHHHHhhhCCCC-------CHhhHHHHHHHHHh---cCCHHHHHHHHHHHHHcCCCccHHHHHHHHHH
Q 046694            5 RLDFYTRTGRIDLANKIFDRLPVK-------DSASWITLILGYGM---LGELDVAINLFEAMREDGVEYYPVSHIGVLTA   74 (118)
Q Consensus         5 ll~~~~~~~~~~~a~~~~~~m~~~-------~~~~~~~li~~~~~---~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~   74 (118)
                      |+-+|-...+++..+++.+.++..       ....--...-++.+   .|+.++|++++..+....-.++..+|..+-+.
T Consensus       147 lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL~GRI  226 (374)
T PF13281_consen  147 LLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGLLGRI  226 (374)
T ss_pred             HHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHHHHHH
Confidence            445688889999999999999743       11111233344555   78999999999997666666788888877666


Q ss_pred             Hhc---------CCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHcc
Q 046694           75 CSL---------GGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYN  114 (118)
Q Consensus        75 ~~~---------~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g  114 (118)
                      |-.         ...+++|...|.+--+  +.||.++--++...+.-.|
T Consensus       227 yKD~~~~s~~~d~~~ldkAi~~Y~kgFe--~~~~~Y~GIN~AtLL~~~g  273 (374)
T PF13281_consen  227 YKDLFLESNFTDRESLDKAIEWYRKGFE--IEPDYYSGINAATLLMLAG  273 (374)
T ss_pred             HHHHHHHcCccchHHHHHHHHHHHHHHc--CCccccchHHHHHHHHHcC
Confidence            542         2346677777776533  2355554444444444444

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=95.92  E-value=0.13  Score=28.96  Aligned_cols=64  Identities=8%  Similarity=0.009  Sum_probs=52.7

Q ss_pred             CHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHh-hcCCCccHHHHHHHHHHH
Q 046694           45 ELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQ-ARNVKPTETHYACMVYLL  110 (118)
Q Consensus        45 ~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~-~~g~~~~~~t~~~li~~~  110 (118)
                      +.-++.+-++.+-...+.|++.+..+.|++|-+.+++..|.++++-.+ +.|-  +...|..+++-.
T Consensus        22 D~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~~~--~~~~y~~~lqei   86 (103)
T cd00923          22 DGWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKCGA--HKEIYPYILQEI   86 (103)
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccC--chhhHHHHHHHH
Confidence            677888888888888899999999999999999999999999999885 4332  455777776643

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.

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=95.83  E-value=0.18  Score=31.55  Aligned_cols=90  Identities=14%  Similarity=0.173  Sum_probs=57.8

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCCCC------CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc---CCCccHHHHHHHH
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLPVK------DSASWITLILGYGMLGELDVAINLFEAMRED---GVEYYPVSHIGVL   72 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~~~------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~---~~~p~~~~~~~ll   72 (118)
                      +..+...|++.|+.+.|.+.|.++...      -+..+-.+|......+++..+.....+....   |-.++...--...
T Consensus        39 ~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk~~  118 (177)
T PF10602_consen   39 LEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLKVY  118 (177)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHHHH
Confidence            345677888899999999999888632      3346667788888888888888888877543   2222222211222


Q ss_pred             HHHh--cCCChhhHHHHHHHH
Q 046694           73 TACS--LGGLVEKGKKFFDEM   91 (118)
Q Consensus        73 ~~~~--~~~~~~~a~~~~~~m   91 (118)
                      .++.  ..+++..|-+.|-+.
T Consensus       119 ~gL~~l~~r~f~~AA~~fl~~  139 (177)
T PF10602_consen  119 EGLANLAQRDFKEAAELFLDS  139 (177)
T ss_pred             HHHHHHHhchHHHHHHHHHcc
Confidence            2222  456777777776665

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.

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=95.82  E-value=0.2  Score=30.31  Aligned_cols=79  Identities=9%  Similarity=0.132  Sum_probs=34.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcC---C--CccHHHHHHHHHHHhcCCC-hhhHHHHHHHHhhcCCCccHHHHHHH
Q 046694           33 WITLILGYGMLGELDVAINLFEAMREDG---V--EYYPVSHIGVLTACSLGGL-VEKGKKFFDEMQARNVKPTETHYACM  106 (118)
Q Consensus        33 ~~~li~~~~~~~~~~~a~~~~~~m~~~~---~--~p~~~~~~~ll~~~~~~~~-~~~a~~~~~~m~~~g~~~~~~t~~~l  106 (118)
                      .|+++.-...-+.+.-.+.+++.+..-.   +  ..+..+|.+++++.++..- --.+..+|..|++.+.+++..-|-.|
T Consensus        42 iN~iL~hl~~~~nf~~~v~~L~~l~~l~~~~~~~~~~~ssf~~if~SlsnSsSaK~~~~~Lf~~Lk~~~~~~t~~dy~~l  121 (145)
T PF13762_consen   42 INCILNHLASYQNFSGVVSILEHLHFLNTDNIIGWLDNSSFHIIFKSLSNSSSAKLTSLTLFNFLKKNDIEFTPSDYSCL  121 (145)
T ss_pred             HHHHHHHHHHccchHHHHHHHHHHHHhhHHHHhhhcccchHHHHHHHHccChHHHHHHHHHHHHHHHcCCCCCHHHHHHH
Confidence            4444444444444444444444442110   0  1233455555555544443 22344445555444455555555555


Q ss_pred             HHHHH
Q 046694          107 VYLLI  111 (118)
Q Consensus       107 i~~~~  111 (118)
                      |.++.
T Consensus       122 i~~~l  126 (145)
T PF13762_consen  122 IKAAL  126 (145)
T ss_pred             HHHHH
Confidence            55443

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

Probab=95.79  E-value=0.11  Score=37.59  Aligned_cols=81  Identities=20%  Similarity=0.218  Sum_probs=70.2

Q ss_pred             hcCCHHHHHHHhhhC-C-CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHH
Q 046694           11 RTGRIDLANKIFDRL-P-VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFF   88 (118)
Q Consensus        11 ~~~~~~~a~~~~~~m-~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~   88 (118)
                      ..|++..|.++|+.= . +|+...|++.|+-=.+.+.++.|-.++++..-  +.|++.+|--..+-=.++|++..+..+|
T Consensus       153 ~LgNi~gaRqiferW~~w~P~eqaW~sfI~fElRykeieraR~IYerfV~--~HP~v~~wikyarFE~k~g~~~~aR~Vy  230 (677)
T KOG1915|consen  153 MLGNIAGARQIFERWMEWEPDEQAWLSFIKFELRYKEIERARSIYERFVL--VHPKVSNWIKYARFEEKHGNVALARSVY  230 (677)
T ss_pred             HhcccHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhe--ecccHHHHHHHHHHHHhcCcHHHHHHHH
Confidence            458889999999753 3 89999999999999999999999999999875  4699999999888888999999999999


Q ss_pred             HHHhh
Q 046694           89 DEMQA   93 (118)
Q Consensus        89 ~~m~~   93 (118)
                      +...+
T Consensus       231 erAie  235 (677)
T KOG1915|consen  231 ERAIE  235 (677)
T ss_pred             HHHHH
Confidence            88744

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.74  E-value=0.23  Score=39.21  Aligned_cols=81  Identities=19%  Similarity=0.187  Sum_probs=62.7

Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHH
Q 046694           29 DSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVY  108 (118)
Q Consensus        29 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~  108 (118)
                      ....|+.+-++=.+.|.+.+|.+-|-+.      -|+..|.-+++...+.|.+++-.+++....+..-+|...  +.||-
T Consensus      1103 ~p~vWsqlakAQL~~~~v~dAieSyika------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id--~eLi~ 1174 (1666)
T KOG0985|consen 1103 EPAVWSQLAKAQLQGGLVKDAIESYIKA------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYID--SELIF 1174 (1666)
T ss_pred             ChHHHHHHHHHHHhcCchHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccch--HHHHH
Confidence            3456888888888888888887766542      278889999999999999999999888887776666655  46888


Q ss_pred             HHHHccccc
Q 046694          109 LLIKYNQKA  117 (118)
Q Consensus       109 ~~~~~g~~~  117 (118)
                      +|++.+++.
T Consensus      1175 AyAkt~rl~ 1183 (1666)
T KOG0985|consen 1175 AYAKTNRLT 1183 (1666)
T ss_pred             HHHHhchHH
Confidence            888888764

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=95.74  E-value=0.22  Score=30.00  Aligned_cols=85  Identities=12%  Similarity=0.117  Sum_probs=58.0

Q ss_pred             hcCCHHHHHHHhhhCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHH
Q 046694           11 RTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDE   90 (118)
Q Consensus        11 ~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~   90 (118)
                      .+|++.+....+-.+.. +..-.+..+....+.|.-+...++.+++... -+|++...-.+-.+|.+.|+..++.+++.+
T Consensus        68 ~C~NlKrVi~C~~~~n~-~se~vD~ALd~lv~~~kkDqLdki~~~l~kn-~~~~p~~L~kia~Ay~klg~~r~~~ell~~  145 (161)
T PF09205_consen   68 KCGNLKRVIECYAKRNK-LSEYVDLALDILVKQGKKDQLDKIYNELKKN-EEINPEFLVKIANAYKKLGNTREANELLKE  145 (161)
T ss_dssp             G-S-THHHHHHHHHTT----HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred             hhcchHHHHHHHHHhcc-hHHHHHHHHHHHHHhccHHHHHHHHHHHhhc-cCCCHHHHHHHHHHHHHhcchhhHHHHHHH
Confidence            34555555555544432 3344677788889999999999999998753 367888888999999999999999999999


Q ss_pred             HhhcCCC
Q 046694           91 MQARNVK   97 (118)
Q Consensus        91 m~~~g~~   97 (118)
                      .-+.|++
T Consensus       146 ACekG~k  152 (161)
T PF09205_consen  146 ACEKGLK  152 (161)
T ss_dssp             HHHTT-H
T ss_pred             HHHhchH
Confidence            9888864

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=95.71  E-value=0.31  Score=34.21  Aligned_cols=99  Identities=17%  Similarity=0.133  Sum_probs=74.4

Q ss_pred             HHHHhcCCHHHHHHHhhhCC------------------CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHH
Q 046694            7 DFYTRTGRIDLANKIFDRLP------------------VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSH   68 (118)
Q Consensus         7 ~~~~~~~~~~~a~~~~~~m~------------------~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~   68 (118)
                      +.|.+.|++..|..-|++..                  ..-...+..+.-.+.+.+++.+|+..-++....+ ++|.-..
T Consensus       216 n~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~-~~N~KAL  294 (397)
T KOG0543|consen  216 NVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELD-PNNVKAL  294 (397)
T ss_pred             hHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcC-CCchhHH
Confidence            36788899999988877632                  1145678889999999999999999999987653 3455555


Q ss_pred             HHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHH
Q 046694           69 IGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVY  108 (118)
Q Consensus        69 ~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~  108 (118)
                      -.=-.++...|+++.|+..|.++++  +.|+......=|.
T Consensus       295 yRrG~A~l~~~e~~~A~~df~ka~k--~~P~Nka~~~el~  332 (397)
T KOG0543|consen  295 YRRGQALLALGEYDLARDDFQKALK--LEPSNKAARAELI  332 (397)
T ss_pred             HHHHHHHHhhccHHHHHHHHHHHHH--hCCCcHHHHHHHH
Confidence            5556788899999999999999988  5666555544333

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

Probab=95.70  E-value=0.36  Score=32.32  Aligned_cols=89  Identities=16%  Similarity=0.122  Sum_probs=64.3

Q ss_pred             HHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCC-C
Q 046694            5 RLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGG-L   80 (118)
Q Consensus         5 ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~-~   80 (118)
                      .|....-.+++.+|.-+|++|.   .|+..+-|-...++...|++++|..++++.....-+ ++.+...++-.--..| +
T Consensus       179 wv~la~ggek~qdAfyifeE~s~k~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~-dpetL~Nliv~a~~~Gkd  257 (299)
T KOG3081|consen  179 WVKLATGGEKIQDAFYIFEELSEKTPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAK-DPETLANLIVLALHLGKD  257 (299)
T ss_pred             HHHHhccchhhhhHHHHHHHHhcccCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCC-CHHHHHHHHHHHHHhCCC
Confidence            3444444567999999999997   467777788888888999999999999999876433 4555555554444555 5


Q ss_pred             hhhHHHHHHHHhhc
Q 046694           81 VEKGKKFFDEMQAR   94 (118)
Q Consensus        81 ~~~a~~~~~~m~~~   94 (118)
                      .+...+...++...
T Consensus       258 ~~~~~r~l~QLk~~  271 (299)
T KOG3081|consen  258 AEVTERNLSQLKLS  271 (299)
T ss_pred             hHHHHHHHHHHHhc
Confidence            56667777777553

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

Probab=95.69  E-value=0.31  Score=39.45  Aligned_cols=108  Identities=16%  Similarity=0.169  Sum_probs=64.6

Q ss_pred             HHHHHHHhcCCHHHHHHHhhhCC--------CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHH
Q 046694            4 PRLDFYTRTGRIDLANKIFDRLP--------VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTAC   75 (118)
Q Consensus         4 ~ll~~~~~~~~~~~a~~~~~~m~--------~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~   75 (118)
                      ..|......+++++|++++++..        .--...|.++++.-...|.-+...++|++..+.  --...+|..|...|
T Consensus      1463 ~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqy--cd~~~V~~~L~~iy 1540 (1710)
T KOG1070|consen 1463 RYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQY--CDAYTVHLKLLGIY 1540 (1710)
T ss_pred             HHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHh--cchHHHHHHHHHHH
Confidence            44556666777777777776542        113345666666666666666666777666543  11345666677777


Q ss_pred             hcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHcc
Q 046694           76 SLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYN  114 (118)
Q Consensus        76 ~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g  114 (118)
                      .+.+..++|.++++.|.+. +.-....|.-..+.+.+..
T Consensus      1541 ~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~n 1578 (1710)
T KOG1070|consen 1541 EKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQN 1578 (1710)
T ss_pred             HHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhccc
Confidence            7777777777777777332 2245556666666555543

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=95.59  E-value=0.22  Score=29.13  Aligned_cols=100  Identities=19%  Similarity=0.099  Sum_probs=69.0

Q ss_pred             HHHHhcCCHHHHHHHhhhCCCC------CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcc---H-HHHHHHHHHHh
Q 046694            7 DFYTRTGRIDLANKIFDRLPVK------DSASWITLILGYGMLGELDVAINLFEAMREDGVEYY---P-VSHIGVLTACS   76 (118)
Q Consensus         7 ~~~~~~~~~~~a~~~~~~m~~~------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~---~-~~~~~ll~~~~   76 (118)
                      .++-..|+.++|+.+|++-...      -...+-.+-..+...|++++|+.+|++.....  |+   . .....+--++.
T Consensus         9 ~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~--p~~~~~~~l~~f~Al~L~   86 (120)
T PF12688_consen    9 WAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEF--PDDELNAALRVFLALALY   86 (120)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCccccHHHHHHHHHHHH
Confidence            3556789999999999866421      23356667788889999999999999987652  33   1 11111223667


Q ss_pred             cCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHH
Q 046694           77 LGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIK  112 (118)
Q Consensus        77 ~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~  112 (118)
                      ..|+.++|...+-....    ++..-|.-=|..|.+
T Consensus        87 ~~gr~~eAl~~~l~~la----~~~~~y~ra~~~ya~  118 (120)
T PF12688_consen   87 NLGRPKEALEWLLEALA----ETLPRYRRAIRFYAD  118 (120)
T ss_pred             HCCCHHHHHHHHHHHHH----HHHHHHHHHHHHHHh
Confidence            88999999988876544    344577766666653

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=95.51  E-value=0.49  Score=34.63  Aligned_cols=65  Identities=9%  Similarity=-0.060  Sum_probs=55.0

Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcC
Q 046694           29 DSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARN   95 (118)
Q Consensus        29 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g   95 (118)
                      +...|.++--.....|++++|...+++..+.+  |+...|..+-..+...|+.++|...+++.....
T Consensus       419 ~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~  483 (517)
T PRK10153        419 LPRIYEILAVQALVKGKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTAFNLR  483 (517)
T ss_pred             ChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            44667777555666799999999999998865  788999999999999999999999999986543

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=95.51  E-value=0.24  Score=28.99  Aligned_cols=57  Identities=16%  Similarity=0.151  Sum_probs=47.0

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCcc--HHHHHHHHHHHhcCCChhhHHHHHHHHhhc
Q 046694           38 LGYGMLGELDVAINLFEAMREDGVEYY--PVSHIGVLTACSLGGLVEKGKKFFDEMQAR   94 (118)
Q Consensus        38 ~~~~~~~~~~~a~~~~~~m~~~~~~p~--~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~   94 (118)
                      .++-..|+.++|+.+|++-...|....  ...+-.+-+.+...|++++|..++++....
T Consensus         9 ~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~   67 (120)
T PF12688_consen    9 WAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEE   67 (120)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            345567999999999999999887654  456667788888999999999999998654

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.45  E-value=0.06  Score=36.72  Aligned_cols=84  Identities=18%  Similarity=0.199  Sum_probs=60.4

Q ss_pred             cCCHHHHHHHhhhCC-CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc-CCCccHHHHHHHHHHHhcCCChhhHHHHHH
Q 046694           12 TGRIDLANKIFDRLP-VKDSASWITLILGYGMLGELDVAINLFEAMRED-GVEYYPVSHIGVLTACSLGGLVEKGKKFFD   89 (118)
Q Consensus        12 ~~~~~~a~~~~~~m~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~   89 (118)
                      .+++..+..+.++.+ +.+..+-+..-...-+.|+.+.|++-|+...+- |.. +...||..+-.|.+ |+.+.|.++..
T Consensus       125 e~Dl~g~rsLveQlp~en~Ad~~in~gCllykegqyEaAvqkFqaAlqvsGyq-pllAYniALaHy~~-~qyasALk~iS  202 (459)
T KOG4340|consen  125 EGDLPGSRSLVEQLPSENEADGQINLGCLLYKEGQYEAAVQKFQAALQVSGYQ-PLLAYNLALAHYSS-RQYASALKHIS  202 (459)
T ss_pred             cccCcchHHHHHhccCCCccchhccchheeeccccHHHHHHHHHHHHhhcCCC-chhHHHHHHHHHhh-hhHHHHHHHHH
Confidence            344555555555555 234444444555556789999999999998765 554 56789988877655 89999999999


Q ss_pred             HHhhcCCC
Q 046694           90 EMQARNVK   97 (118)
Q Consensus        90 ~m~~~g~~   97 (118)
                      ++.++|++
T Consensus       203 EIieRG~r  210 (459)
T KOG4340|consen  203 EIIERGIR  210 (459)
T ss_pred             HHHHhhhh
Confidence            99998874

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

Probab=95.29  E-value=0.41  Score=37.27  Aligned_cols=109  Identities=11%  Similarity=-0.028  Sum_probs=61.7

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC--CCCH-hhHHHHHHHHHhcCCHHHHHHH------------------HHHHHHcC
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP--VKDS-ASWITLILGYGMLGELDVAINL------------------FEAMREDG   60 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~--~~~~-~~~~~li~~~~~~~~~~~a~~~------------------~~~m~~~~   60 (118)
                      |-.|+..|...+++++|.++.+.-.  .|+. ..|-.+-..+.+.++.+++..+                  .+.|... 
T Consensus        34 ~~~Li~~~~~~~~~deai~i~~~~l~~~P~~i~~yy~~G~l~~q~~~~~~~~lv~~l~~~~~~~~~~~ve~~~~~i~~~-  112 (906)
T PRK14720         34 LDDLIDAYKSENLTDEAKDICEEHLKEHKKSISALYISGILSLSRRPLNDSNLLNLIDSFSQNLKWAIVEHICDKILLY-  112 (906)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHhCCcceehHHHHHHHHHhhcchhhhhhhhhhhhcccccchhHHHHHHHHHHhh-
Confidence            4568888889999999998877443  2211 1111111133334433333333                  2222221 


Q ss_pred             CCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHc
Q 046694           61 VEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKY  113 (118)
Q Consensus        61 ~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~  113 (118)
                       .-+...+..+-.+|-+.|+.+++..++++..+.. +-|+...|.+-..|+..
T Consensus       113 -~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~  163 (906)
T PRK14720        113 -GENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE  163 (906)
T ss_pred             -hhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh
Confidence             1122455556666667788888888888877765 44677777777666655

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=95.07  E-value=0.64  Score=31.42  Aligned_cols=87  Identities=14%  Similarity=0.093  Sum_probs=66.7

Q ss_pred             CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc-CCCccHHHHHHHHHHHhcCCChhhHHHHHHH-----HhhcCCCccH
Q 046694           27 VKDSASWITLILGYGMLGELDVAINLFEAMRED-GVEYYPVSHIGVLTACSLGGLVEKGKKFFDE-----MQARNVKPTE  100 (118)
Q Consensus        27 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~-----m~~~g~~~~~  100 (118)
                      .++..+-..+|..+++.++|.+..++++..... +..-|...|..+|+...+.|+.....++.++     +.+.|+..+.
T Consensus       199 ~l~~~vi~~Il~~L~~~~dW~kl~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~GhLLwikR~~V~v~~  278 (292)
T PF13929_consen  199 SLTRNVIISILEILAESRDWNKLFQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDDGHLLWIKRNNVDVTD  278 (292)
T ss_pred             CCChhHHHHHHHHHHhcccHHHHHHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhCCCeEEeeecCCcCCH
Confidence            446667778888888888888888888887655 5556888888888888888888888887776     3666777777


Q ss_pred             HHHHHHHHHHHHc
Q 046694          101 THYACMVYLLIKY  113 (118)
Q Consensus       101 ~t~~~li~~~~~~  113 (118)
                      ..-..|-+.+.+.
T Consensus       279 ~L~~~L~~LF~~v  291 (292)
T PF13929_consen  279 ELRSQLSELFKKV  291 (292)
T ss_pred             HHHHHHHHHHHhc
Confidence            7777776666543

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=95.06  E-value=0.096  Score=23.56  Aligned_cols=24  Identities=13%  Similarity=0.149  Sum_probs=13.5

Q ss_pred             HHHHHHHHhcCCChhhHHHHHHHH
Q 046694           68 HIGVLTACSLGGLVEKGKKFFDEM   91 (118)
Q Consensus        68 ~~~ll~~~~~~~~~~~a~~~~~~m   91 (118)
                      ++.+-+.|.+.|++++|..+|++.
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~a   25 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQA   25 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHH
Confidence            445555666666666666666653

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

Probab=94.90  E-value=0.2  Score=36.31  Aligned_cols=82  Identities=12%  Similarity=0.074  Sum_probs=63.8

Q ss_pred             hcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHH
Q 046694           11 RTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKF   87 (118)
Q Consensus        11 ~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~   87 (118)
                      -.+++++|..=|++-.   ..++..|-.+-.+.-+.+.+++++..|++.+.. ++-.+..|+-.-..+...++++.|.+.
T Consensus       406 lL~q~e~A~aDF~Kai~L~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~  484 (606)
T KOG0547|consen  406 LLQQYEEAIADFQKAISLDPENAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQ  484 (606)
T ss_pred             HHHHHHHHHHHHHHHhhcChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHH
Confidence            3456677777777655   236677777777777888999999999998765 555678899999999999999999999


Q ss_pred             HHHHhh
Q 046694           88 FDEMQA   93 (118)
Q Consensus        88 ~~~m~~   93 (118)
                      |+...+
T Consensus       485 YD~ai~  490 (606)
T KOG0547|consen  485 YDKAIE  490 (606)
T ss_pred             HHHHHh
Confidence            988755

>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=94.88  E-value=0.53  Score=29.43  Aligned_cols=65  Identities=14%  Similarity=0.151  Sum_probs=54.9

Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc--cHHHHHHHHHHHhcCCChhhHHHHHHHHhh
Q 046694           29 DSASWITLILGYGMLGELDVAINLFEAMREDGVEY--YPVSHIGVLTACSLGGLVEKGKKFFDEMQA   93 (118)
Q Consensus        29 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p--~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~   93 (118)
                      -...+..+..-|++.|+.++|++.|.++++....|  -...+..+|+...-.+++..+.....+...
T Consensus        35 ir~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~  101 (177)
T PF10602_consen   35 IRMALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAES  101 (177)
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            34578899999999999999999999999876555  356788899999999999999988887733

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.

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=94.84  E-value=1.1  Score=32.89  Aligned_cols=102  Identities=6%  Similarity=-0.016  Sum_probs=66.5

Q ss_pred             CHHHHHHHhhhCC--CC-CHhhHHHHHHHHHhc--------CCHHHHHHHHHHHHHc-CCCccHHHHHHHHHHHhcCCCh
Q 046694           14 RIDLANKIFDRLP--VK-DSASWITLILGYGML--------GELDVAINLFEAMRED-GVEYYPVSHIGVLTACSLGGLV   81 (118)
Q Consensus        14 ~~~~a~~~~~~m~--~~-~~~~~~~li~~~~~~--------~~~~~a~~~~~~m~~~-~~~p~~~~~~~ll~~~~~~~~~   81 (118)
                      ..++|..+|++..  .| ....|..+..++...        .++..+.+...+.... ....+...|.++--.....|++
T Consensus       357 ~~~~A~~lle~Ai~ldP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a~al~~~~~~~~~~~ala~~~~~~g~~  436 (517)
T PRK10153        357 SLNKASDLLEEILKSEPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNIVALPELNVLPRIYEILAVQALVKGKT  436 (517)
T ss_pred             HHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhhhcccCcCChHHHHHHHHHHHhcCCH
Confidence            3779999999876  44 333444433333222        1233444444443332 2334557777775555667999


Q ss_pred             hhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           82 EKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      ++|...+++..+.+  |+...|..+-.++...|+.+
T Consensus       437 ~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~  470 (517)
T PRK10153        437 DEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNR  470 (517)
T ss_pred             HHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHH
Confidence            99999999998866  68889999999999888865

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=94.82  E-value=0.21  Score=33.92  Aligned_cols=92  Identities=14%  Similarity=0.215  Sum_probs=62.3

Q ss_pred             CHHHHHHHhhhCC-------CCCHhhHHHHHHHHHhcC--CHHHHHHHHHHHHHcCCCc-cHHHHHHHHHHHhcCC-C--
Q 046694           14 RIDLANKIFDRLP-------VKDSASWITLILGYGMLG--ELDVAINLFEAMREDGVEY-YPVSHIGVLTACSLGG-L--   80 (118)
Q Consensus        14 ~~~~a~~~~~~m~-------~~~~~~~~~li~~~~~~~--~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~-~--   80 (118)
                      ...+|..+|+.|+       .++-.++..++..-...-  ..+.+..+|+.+.+.|+.. |..-+.+-+-++.... .  
T Consensus       118 ~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~~~~~~e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~  197 (297)
T PF13170_consen  118 IIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAMTSEDVEELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEK  197 (297)
T ss_pred             HHHHHHHHHHHHHHhCccccCccchhHHHHHhcccccHHHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHH
Confidence            4568899999997       346667777776522211  2678889999999988876 3434444444444322 2  


Q ss_pred             hhhHHHHHHHHhhcCCCccHHHHHH
Q 046694           81 VEKGKKFFDEMQARNVKPTETHYAC  105 (118)
Q Consensus        81 ~~~a~~~~~~m~~~g~~~~~~t~~~  105 (118)
                      +.++..+++.+.+.|+++....|..
T Consensus       198 v~r~~~l~~~l~~~~~kik~~~yp~  222 (297)
T PF13170_consen  198 VARVIELYNALKKNGVKIKYMHYPT  222 (297)
T ss_pred             HHHHHHHHHHHHHcCCccccccccH
Confidence            4578899999999999877766653

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=94.73  E-value=0.77  Score=30.61  Aligned_cols=86  Identities=10%  Similarity=-0.001  Sum_probs=60.7

Q ss_pred             HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcc----HHHHHHHHHHHhcCCChhhHHHHHHHHhhcCC-C-ccHHHH
Q 046694           30 SASWITLILGYGMLGELDVAINLFEAMREDGVEYY----PVSHIGVLTACSLGGLVEKGKKFFDEMQARNV-K-PTETHY  103 (118)
Q Consensus        30 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~-~-~~~~t~  103 (118)
                      ...|...+....+.|++++|...|+.+.+.-  |+    ...+-.+-..|...|+++.|...|+.+.+.-- . .....+
T Consensus       143 ~~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~y--P~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl  220 (263)
T PRK10803        143 NTDYNAAIALVQDKSRQDDAIVAFQNFVKKY--PDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAM  220 (263)
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC--cCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHH
Confidence            3456676766677899999999999998752  33    34667788888999999999999999965321 1 123444


Q ss_pred             HHHHHHHHHccccc
Q 046694          104 ACMVYLLIKYNQKA  117 (118)
Q Consensus       104 ~~li~~~~~~g~~~  117 (118)
                      -.+..++.+.|+.+
T Consensus       221 ~klg~~~~~~g~~~  234 (263)
T PRK10803        221 FKVGVIMQDKGDTA  234 (263)
T ss_pred             HHHHHHHHHcCCHH
Confidence            44555666666543

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

Probab=94.73  E-value=0.71  Score=30.87  Aligned_cols=83  Identities=16%  Similarity=0.184  Sum_probs=54.8

Q ss_pred             CCHHHHHHHhhhCC-------CC--CHhhHHHHHHHHHhc-CCHHHHHHHHHHHHH----cCCCc-cHHHHHHHHHHHhc
Q 046694           13 GRIDLANKIFDRLP-------VK--DSASWITLILGYGML-GELDVAINLFEAMRE----DGVEY-YPVSHIGVLTACSL   77 (118)
Q Consensus        13 ~~~~~a~~~~~~m~-------~~--~~~~~~~li~~~~~~-~~~~~a~~~~~~m~~----~~~~p-~~~~~~~ll~~~~~   77 (118)
                      .++++|+..+++..       .+  -...+..+-..|-.. |++++|++.|++-.+    .|-+- -...+..+...+.+
T Consensus        88 ~~~~~Ai~~~~~A~~~y~~~G~~~~aA~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~  167 (282)
T PF14938_consen   88 GDPDEAIECYEKAIEIYREAGRFSQAAKCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYAR  167 (282)
T ss_dssp             TTHHHHHHHHHHHHHHHHHCT-HHHHHHHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHH
T ss_pred             hCHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHH
Confidence            36666655554332       23  233666777778887 899999999998843    34211 24566778888999


Q ss_pred             CCChhhHHHHHHHHhhcC
Q 046694           78 GGLVEKGKKFFDEMQARN   95 (118)
Q Consensus        78 ~~~~~~a~~~~~~m~~~g   95 (118)
                      .|++++|.++|++....-
T Consensus       168 l~~y~~A~~~~e~~~~~~  185 (282)
T PF14938_consen  168 LGRYEEAIEIYEEVAKKC  185 (282)
T ss_dssp             TT-HHHHHHHHHHHHHTC
T ss_pred             hCCHHHHHHHHHHHHHHh
Confidence            999999999999986543

>PLN02789 farnesyltranstransferase

Probab=94.70  E-value=0.9  Score=31.20  Aligned_cols=98  Identities=7%  Similarity=0.047  Sum_probs=53.9

Q ss_pred             CHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCC--HHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHH
Q 046694           14 RIDLANKIFDRLP---VKDSASWITLILGYGMLGE--LDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFF   88 (118)
Q Consensus        14 ~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~--~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~   88 (118)
                      ++++++.+++++.   ..+..+|+..--.+.+.|.  .++++.+++++.+..- -|...|+-.--.+.+.|+++++.+.+
T Consensus        87 ~l~eeL~~~~~~i~~npknyqaW~~R~~~l~~l~~~~~~~el~~~~kal~~dp-kNy~AW~~R~w~l~~l~~~~eeL~~~  165 (320)
T PLN02789         87 DLEEELDFAEDVAEDNPKNYQIWHHRRWLAEKLGPDAANKELEFTRKILSLDA-KNYHAWSHRQWVLRTLGGWEDELEYC  165 (320)
T ss_pred             hHHHHHHHHHHHHHHCCcchHHhHHHHHHHHHcCchhhHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHhhhHHHHHHHH
Confidence            3556666665543   2244445543333334443  2455666666654321 15555665556666677788888888


Q ss_pred             HHHhhcCCCccHHHHHHHHHHHHHc
Q 046694           89 DEMQARNVKPTETHYACMVYLLIKY  113 (118)
Q Consensus        89 ~~m~~~g~~~~~~t~~~li~~~~~~  113 (118)
                      +++.+.+.. |...|+..--++.+.
T Consensus       166 ~~~I~~d~~-N~sAW~~R~~vl~~~  189 (320)
T PLN02789        166 HQLLEEDVR-NNSAWNQRYFVITRS  189 (320)
T ss_pred             HHHHHHCCC-chhHHHHHHHHHHhc
Confidence            888776544 455666554444443

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=94.67  E-value=0.48  Score=27.99  Aligned_cols=82  Identities=11%  Similarity=0.124  Sum_probs=50.3

Q ss_pred             hHHHHHHHhcCCHHHHHHHhhhCCC---CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCC
Q 046694            3 EPRLDFYTRTGRIDLANKIFDRLPV---KDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGG   79 (118)
Q Consensus         3 ~~ll~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~   79 (118)
                      ..++..+.+.+....+..+++.+..   .+...+|.+|..|++.+ .++.++.++.      .++......+++.|.+.+
T Consensus        11 ~~vv~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~li~ly~~~~-~~~ll~~l~~------~~~~yd~~~~~~~c~~~~   83 (140)
T smart00299       11 SEVVELFEKRNLLEELIPYLESALKLNSENPALQTKLIELYAKYD-PQKEIERLDN------KSNHYDIEKVGKLCEKAK   83 (140)
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHccCccchhHHHHHHHHHHHHC-HHHHHHHHHh------ccccCCHHHHHHHHHHcC
Confidence            3577888888888888888887642   36668888999888764 4455555552      122233333555555555


Q ss_pred             ChhhHHHHHHHH
Q 046694           80 LVEKGKKFFDEM   91 (118)
Q Consensus        80 ~~~~a~~~~~~m   91 (118)
                      .++++..++.++
T Consensus        84 l~~~~~~l~~k~   95 (140)
T smart00299       84 LYEEAVELYKKD   95 (140)
T ss_pred             cHHHHHHHHHhh
Confidence            555555444443

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=94.66  E-value=0.15  Score=34.53  Aligned_cols=65  Identities=18%  Similarity=0.083  Sum_probs=50.1

Q ss_pred             CCCHhhHHHHHHHHHhcC----------------CHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCCh-hhHHHHHH
Q 046694           27 VKDSASWITLILGYGMLG----------------ELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLV-EKGKKFFD   89 (118)
Q Consensus        27 ~~~~~~~~~li~~~~~~~----------------~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~-~~a~~~~~   89 (118)
                      .+|..+|+.|++.+=+-.                .-+-+++++++|...|+.||..+-..+++++++-+-. .+..++.-
T Consensus       104 erDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p~~K~~Rm~y  183 (406)
T KOG3941|consen  104 ERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNFPTKKVKRMLY  183 (406)
T ss_pred             hhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHHHHHHHHHHcCCCCchHHHHHHHHHhccccccHHHHHHHHH
Confidence            568889998888775543                2366889999999999999999999999999988764 23334333


Q ss_pred             HH
Q 046694           90 EM   91 (118)
Q Consensus        90 ~m   91 (118)
                      -|
T Consensus       184 Wm  185 (406)
T KOG3941|consen  184 WM  185 (406)
T ss_pred             hh
Confidence            33

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.63  E-value=0.76  Score=31.02  Aligned_cols=106  Identities=10%  Similarity=0.008  Sum_probs=71.3

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCCCC----------CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHH
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLPVK----------DSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGV   71 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~~~----------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l   71 (118)
                      |++|+..+.-..-+++-+..|+.=..|          -...-+.++....-.+.+.-.+.++.+.++..-+.++.--+.+
T Consensus       139 qesLdRl~~L~~~V~~ii~~~e~~~~~ESsv~lW~KRl~~Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~L  218 (366)
T KOG2796|consen  139 QESLDRLHKLKTVVSKILANLEQGLAEESSIRLWRKRLGRVMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGL  218 (366)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhccchhhHHHHHHHHHHHHHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHH
Confidence            455555555444455555555433221          2234556677777778899999999999887656688888889


Q ss_pred             HHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHH
Q 046694           72 LTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMV  107 (118)
Q Consensus        72 l~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li  107 (118)
                      .+.-.+.|+.+.|...|++..+..-..|..+.+.++
T Consensus       219 gr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V  254 (366)
T KOG2796|consen  219 GRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMV  254 (366)
T ss_pred             HHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHH
Confidence            999999999999999999875544444444444443

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

Probab=94.40  E-value=0.3  Score=36.81  Aligned_cols=83  Identities=14%  Similarity=0.063  Sum_probs=60.2

Q ss_pred             HhcCCHHHHHHHhhhCC--CC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHH
Q 046694           10 TRTGRIDLANKIFDRLP--VK-DSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKK   86 (118)
Q Consensus        10 ~~~~~~~~a~~~~~~m~--~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~   86 (118)
                      -+.+++..|.+-|..-.  .| +...||.+-.+|.+.++-.+|...+++-.+-+ .-+...|-.-+-...+.|.++.|.+
T Consensus       530 Lqlek~q~av~aF~rcvtL~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn-~~~w~iWENymlvsvdvge~eda~~  608 (777)
T KOG1128|consen  530 LQLEKEQAAVKAFHRCVTLEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN-YQHWQIWENYMLVSVDVGEFEDAIK  608 (777)
T ss_pred             HHHhhhHHHHHHHHHHhhcCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC-CCCCeeeechhhhhhhcccHHHHHH
Confidence            45566666666665433  33 66788888888888888888888888887766 3456666666677778888888888


Q ss_pred             HHHHHhh
Q 046694           87 FFDEMQA   93 (118)
Q Consensus        87 ~~~~m~~   93 (118)
                      .+.++.+
T Consensus       609 A~~rll~  615 (777)
T KOG1128|consen  609 AYHRLLD  615 (777)
T ss_pred             HHHHHHH
Confidence            8888733

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

Probab=94.36  E-value=0.079  Score=36.58  Aligned_cols=80  Identities=10%  Similarity=0.158  Sum_probs=53.8

Q ss_pred             CCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHH
Q 046694           13 GRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFD   89 (118)
Q Consensus        13 ~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~   89 (118)
                      ++.++|.++|....   ..++..-.++-.+|.-.++++.|++.++++.+.|+. +...|+.+--+|.-.+++|.+.--|.
T Consensus       304 ~~~~~a~~lYk~vlk~~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L~sf~  382 (478)
T KOG1129|consen  304 EQQEDALQLYKLVLKLHPINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVLPSFQ  382 (478)
T ss_pred             HhHHHHHHHHHHHHhcCCccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhHHHHH
Confidence            44455555554332   124444455556666778899999999999988876 66677777777777788887777777


Q ss_pred             HHhh
Q 046694           90 EMQA   93 (118)
Q Consensus        90 ~m~~   93 (118)
                      +...
T Consensus       383 RAls  386 (478)
T KOG1129|consen  383 RALS  386 (478)
T ss_pred             HHHh
Confidence            6543

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

Probab=94.28  E-value=0.3  Score=35.76  Aligned_cols=78  Identities=17%  Similarity=0.120  Sum_probs=64.1

Q ss_pred             HHHHHHHhhhCC-----CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc-cHHHHHHHHHHHhcCCChhhHHHHH
Q 046694           15 IDLANKIFDRLP-----VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEY-YPVSHIGVLTACSLGGLVEKGKKFF   88 (118)
Q Consensus        15 ~~~a~~~~~~m~-----~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~   88 (118)
                      +....++|-++.     .+|...+..|--.|--.|++++|.++|+.....  +| |...||.+--.++...+-++|+..|
T Consensus       410 l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiDcf~~AL~v--~Pnd~~lWNRLGAtLAN~~~s~EAIsAY  487 (579)
T KOG1125|consen  410 LAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVDCFEAALQV--KPNDYLLWNRLGATLANGNRSEEAISAY  487 (579)
T ss_pred             HHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHHHHHHHHhc--CCchHHHHHHhhHHhcCCcccHHHHHHH
Confidence            445556665543     357788888888899999999999999998875  56 7889999999999999999999999


Q ss_pred             HHHhhc
Q 046694           89 DEMQAR   94 (118)
Q Consensus        89 ~~m~~~   94 (118)
                      .+..+.
T Consensus       488 ~rALqL  493 (579)
T KOG1125|consen  488 NRALQL  493 (579)
T ss_pred             HHHHhc
Confidence            998763

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.21  E-value=0.35  Score=33.29  Aligned_cols=81  Identities=12%  Similarity=-0.022  Sum_probs=61.6

Q ss_pred             cCCHHHHHHHhhhCC-CC------CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhH
Q 046694           12 TGRIDLANKIFDRLP-VK------DSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKG   84 (118)
Q Consensus        12 ~~~~~~a~~~~~~m~-~~------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a   84 (118)
                      ...+++++..+-+++ +|      +... .++++.+ -.-++++++.++..-.+.|+-||..+++.+++.+.+.++...|
T Consensus        77 ~~~idd~~~~LyKlRhs~~a~~~~~~~~-~~~irll-lky~pq~~i~~l~npIqYGiF~dqf~~c~l~D~flk~~n~~~a  154 (418)
T KOG4570|consen   77 REEIDDAEYYLYKLRHSPNAWYLRNWTI-HTWIRLL-LKYDPQKAIYTLVNPIQYGIFPDQFTFCLLMDSFLKKENYKDA  154 (418)
T ss_pred             ccchhHHHHHHHHHhcCcchhhhccccH-HHHHHHH-HccChHHHHHHHhCcchhccccchhhHHHHHHHHHhcccHHHH
Confidence            456778877777665 22      2222 2333333 3457889999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhc
Q 046694           85 KKFFDEMQAR   94 (118)
Q Consensus        85 ~~~~~~m~~~   94 (118)
                      ..+.-.|...
T Consensus       155 a~vvt~~~~q  164 (418)
T KOG4570|consen  155 ASVVTEVMMQ  164 (418)
T ss_pred             HHHHHHHHHH
Confidence            9888877443

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=94.13  E-value=0.58  Score=26.71  Aligned_cols=49  Identities=16%  Similarity=0.174  Sum_probs=21.4

Q ss_pred             HHhcCCHHHHHHHhhhCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 046694            9 YTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMRED   59 (118)
Q Consensus         9 ~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~   59 (118)
                      +...|++++|..+.+.+..||+..|-++-.  .+.|..+++..-+.+|..+
T Consensus        49 LmNrG~Yq~Al~l~~~~~~pdlepw~ALce--~rlGl~s~l~~rl~rla~s   97 (115)
T TIGR02508        49 LMNRGDYQSALQLGNKLCYPDLEPWLALCE--WRLGLGSALESRLNRLAAS   97 (115)
T ss_pred             HHccchHHHHHHhcCCCCCchHHHHHHHHH--HhhccHHHHHHHHHHHHhC
Confidence            334444444444444444444444443322  2334444444444444443

YscG is a molecular chaperone for YscE, where both are part of the type III secretion system that in Yersinia is designated Ysc (Yersinia secretion). The secretion system delivers effector proteins, designate Yops (Yersinia outer proteins) in Yersinia. This family consists of YscG of Yersinia, and functionally equivalent type III secretion machinery protein in other species: AscG in Aeromonas, LscG in Photorhabdus luminescens, etc.

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=94.07  E-value=0.81  Score=28.14  Aligned_cols=84  Identities=6%  Similarity=-0.034  Sum_probs=62.8

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc-cHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHH
Q 046694           31 ASWITLILGYGMLGELDVAINLFEAMREDGVEY-YPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYL  109 (118)
Q Consensus        31 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~  109 (118)
                      ...-.+-..+...|++++|.++|+-+-.-  .| +..-|-.+--++-..|++++|+..|........ -|+..+-.+-.+
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 NTLYRYAMQLMEVKEFAGAARLFQLLTIY--DAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKI-DAPQAPWAAAEC  112 (157)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCchHHHHHHHH
Confidence            33444555667889999999999999764  45 444555555566677999999999999977663 567788888888


Q ss_pred             HHHccccc
Q 046694          110 LIKYNQKA  117 (118)
Q Consensus       110 ~~~~g~~~  117 (118)
                      +.+.|+.+
T Consensus       113 ~L~lG~~~  120 (157)
T PRK15363        113 YLACDNVC  120 (157)
T ss_pred             HHHcCCHH
Confidence            88888764

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.05  E-value=0.89  Score=36.17  Aligned_cols=82  Identities=12%  Similarity=0.084  Sum_probs=62.2

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCCh
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLV   81 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~   81 (118)
                      |+.+-.+=.+.|.+.+|++-|-  +..|+..|..+|....+.|.|++..+.+...++..-+|...  +.+|-+|++.+++
T Consensus      1107 WsqlakAQL~~~~v~dAieSyi--kadDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id--~eLi~AyAkt~rl 1182 (1666)
T KOG0985|consen 1107 WSQLAKAQLQGGLVKDAIESYI--KADDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYID--SELIFAYAKTNRL 1182 (1666)
T ss_pred             HHHHHHHHHhcCchHHHHHHHH--hcCCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccch--HHHHHHHHHhchH
Confidence            6666666667777777777664  34577889999999999999999999998877776666655  4677788888777


Q ss_pred             hhHHHH
Q 046694           82 EKGKKF   87 (118)
Q Consensus        82 ~~a~~~   87 (118)
                      .+.+++
T Consensus      1183 ~elE~f 1188 (1666)
T KOG0985|consen 1183 TELEEF 1188 (1666)
T ss_pred             HHHHHH
Confidence            665543

>PLN02789 farnesyltranstransferase

Probab=94.04  E-value=1.3  Score=30.42  Aligned_cols=112  Identities=13%  Similarity=0.061  Sum_probs=73.9

Q ss_pred             hHHHHHHHhcCCHHHHHHHhhhCCC---CCHhhHHHHHHHHHhcC-CHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcC
Q 046694            3 EPRLDFYTRTGRIDLANKIFDRLPV---KDSASWITLILGYGMLG-ELDVAINLFEAMREDGVEYYPVSHIGVLTACSLG   78 (118)
Q Consensus         3 ~~ll~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~-~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~   78 (118)
                      +.+-..+...++.++|..++++...   .+..+|+..-..+...| .+++++..++++.+..-+ +..+|+----.+.+.
T Consensus        41 ~~~ra~l~~~e~serAL~lt~~aI~lnP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npk-nyqaW~~R~~~l~~l  119 (320)
T PLN02789         41 DYFRAVYASDERSPRALDLTADVIRLNPGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPK-NYQIWHHRRWLAEKL  119 (320)
T ss_pred             HHHHHHHHcCCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCc-chHHhHHHHHHHHHc
Confidence            3445566677889999999987763   35556665555666667 689999999999876433 444565443344455


Q ss_pred             CC--hhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHcccc
Q 046694           79 GL--VEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQK  116 (118)
Q Consensus        79 ~~--~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~  116 (118)
                      |.  .+.+..+++++.+..- -|...|+..--++.+.|++
T Consensus       120 ~~~~~~~el~~~~kal~~dp-kNy~AW~~R~w~l~~l~~~  158 (320)
T PLN02789        120 GPDAANKELEFTRKILSLDA-KNYHAWSHRQWVLRTLGGW  158 (320)
T ss_pred             CchhhHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHhhhH
Confidence            54  3677888888876542 3677777666655555543

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

Probab=93.99  E-value=1.9  Score=32.11  Aligned_cols=108  Identities=11%  Similarity=0.083  Sum_probs=72.1

Q ss_pred             HHHHHHhcCCHHHHHHHhh--------hCC--CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc--CCCccHHHHHHH-
Q 046694            5 RLDFYTRTGRIDLANKIFD--------RLP--VKDSASWITLILGYGMLGELDVAINLFEAMRED--GVEYYPVSHIGV-   71 (118)
Q Consensus         5 ll~~~~~~~~~~~a~~~~~--------~m~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~--~~~p~~~~~~~l-   71 (118)
                      +++.....|+++.|.+++.        .+.  .....+...+...+.+.++-+.|-.++++-...  .-.+.....+++ 
T Consensus       382 ~aQl~is~gn~~~A~~il~~~~~~~~ss~~~~~~~P~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~  461 (652)
T KOG2376|consen  382 RAQLKISQGNPEVALEILSLFLESWKSSILEAKHLPGTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLM  461 (652)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHhhhhhhhhhhhccChhHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHH
Confidence            4667788899999999888        333  124445566777777777666666666655321  111222333333 


Q ss_pred             ---HHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHc
Q 046694           72 ---LTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKY  113 (118)
Q Consensus        72 ---l~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~  113 (118)
                         ..-=.++|+.++|..+++++.+.. ++|..+...++.+|++.
T Consensus       462 ~~aa~f~lr~G~~~ea~s~leel~k~n-~~d~~~l~~lV~a~~~~  505 (652)
T KOG2376|consen  462 REAAEFKLRHGNEEEASSLLEELVKFN-PNDTDLLVQLVTAYARL  505 (652)
T ss_pred             HHHhHHHHhcCchHHHHHHHHHHHHhC-CchHHHHHHHHHHHHhc
Confidence               333347799999999999997753 67899999999999864

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

Probab=93.98  E-value=2.2  Score=33.23  Aligned_cols=72  Identities=25%  Similarity=0.191  Sum_probs=41.3

Q ss_pred             hcCCHHHHHHHhhhCCC---CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhH
Q 046694           11 RTGRIDLANKIFDRLPV---KDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKG   84 (118)
Q Consensus        11 ~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a   84 (118)
                      |.|+.++|..+++....   .|..|-..+-..|...+..++|..+|++....  -|+......+..+|.+.+++..-
T Consensus        55 r~gk~~ea~~~Le~~~~~~~~D~~tLq~l~~~y~d~~~~d~~~~~Ye~~~~~--~P~eell~~lFmayvR~~~yk~q  129 (932)
T KOG2053|consen   55 RLGKGDEALKLLEALYGLKGTDDLTLQFLQNVYRDLGKLDEAVHLYERANQK--YPSEELLYHLFMAYVREKSYKKQ  129 (932)
T ss_pred             HhcCchhHHHHHhhhccCCCCchHHHHHHHHHHHHHhhhhHHHHHHHHHHhh--CCcHHHHHHHHHHHHHHHHHHHH
Confidence            55666666666655441   25556666666666666666666666665432  35555555555666665555443

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=93.95  E-value=0.29  Score=22.92  Aligned_cols=26  Identities=31%  Similarity=0.512  Sum_probs=13.3

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHH
Q 046694           33 WITLILGYGMLGELDVAINLFEAMRE   58 (118)
Q Consensus        33 ~~~li~~~~~~~~~~~a~~~~~~m~~   58 (118)
                      |..+-..|...|++++|.++|++..+
T Consensus         4 ~~~la~~~~~~G~~~~A~~~~~~~l~   29 (44)
T PF13428_consen    4 WLALARAYRRLGQPDEAERLLRRALA   29 (44)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            34444555555555555555555544

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=93.91  E-value=0.69  Score=35.61  Aligned_cols=95  Identities=17%  Similarity=0.148  Sum_probs=61.4

Q ss_pred             HhcCCHHHHHHHhhhCCCC--CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHH
Q 046694           10 TRTGRIDLANKIFDRLPVK--DSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKF   87 (118)
Q Consensus        10 ~~~~~~~~a~~~~~~m~~~--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~   87 (118)
                      .....|.+|+.+.+.+..+  ...-|..+-..|+..|+++.|.++|-+-         .-|+-.|..|.+.|.++.|.++
T Consensus       743 i~akew~kai~ildniqdqk~~s~yy~~iadhyan~~dfe~ae~lf~e~---------~~~~dai~my~k~~kw~da~kl  813 (1636)
T KOG3616|consen  743 IGAKEWKKAISILDNIQDQKTASGYYGEIADHYANKGDFEIAEELFTEA---------DLFKDAIDMYGKAGKWEDAFKL  813 (1636)
T ss_pred             hhhhhhhhhHhHHHHhhhhccccccchHHHHHhccchhHHHHHHHHHhc---------chhHHHHHHHhccccHHHHHHH
Confidence            3445666777777766533  2334667778888889999998888653         2366778889999999999888


Q ss_pred             HHHHhhcCCCccHHHHHHHHHHHHHccc
Q 046694           88 FDEMQARNVKPTETHYACMVYLLIKYNQ  115 (118)
Q Consensus        88 ~~~m~~~g~~~~~~t~~~li~~~~~~g~  115 (118)
                      -++..  |-+...+.|-+-..-+-+.|+
T Consensus       814 a~e~~--~~e~t~~~yiakaedldehgk  839 (1636)
T KOG3616|consen  814 AEECH--GPEATISLYIAKAEDLDEHGK  839 (1636)
T ss_pred             HHHhc--CchhHHHHHHHhHHhHHhhcc
Confidence            76652  333344444443333333333

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.90  E-value=1.2  Score=29.70  Aligned_cols=28  Identities=14%  Similarity=0.041  Sum_probs=12.6

Q ss_pred             cHHHHHHHHHHHhcCCChhhHHHHHHHH
Q 046694           64 YPVSHIGVLTACSLGGLVEKGKKFFDEM   91 (118)
Q Consensus        64 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m   91 (118)
                      |...|--+-+.|...|++++|...++++
T Consensus       153 D~EAW~eLaeiY~~~~~f~kA~fClEE~  180 (289)
T KOG3060|consen  153 DQEAWHELAEIYLSEGDFEKAAFCLEEL  180 (289)
T ss_pred             cHHHHHHHHHHHHhHhHHHHHHHHHHHH
Confidence            4444444444444444444444444444

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=93.70  E-value=0.0076  Score=35.91  Aligned_cols=105  Identities=8%  Similarity=0.114  Sum_probs=64.9

Q ss_pred             HHHHHHhcCCHHHHHHHhhhCC----CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCC
Q 046694            5 RLDFYTRTGRIDLANKIFDRLP----VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGL   80 (118)
Q Consensus         5 ll~~~~~~~~~~~a~~~~~~m~----~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~   80 (118)
                      +++.|.+.+....+..+++...    ..+....+.++..|++.+..++..++++..       +......+++.|-+.|.
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~-------~~yd~~~~~~~c~~~~l   85 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTS-------NNYDLDKALRLCEKHGL   85 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSS-------SSS-CTHHHHHHHTTTS
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccc-------cccCHHHHHHHHHhcch
Confidence            4555556666666655555443    236777888888888888778888777721       11333455666666666


Q ss_pred             hhhHHHHHHHHhhcC--C------------------CccHHHHHHHHHHHHHcccc
Q 046694           81 VEKGKKFFDEMQARN--V------------------KPTETHYACMVYLLIKYNQK  116 (118)
Q Consensus        81 ~~~a~~~~~~m~~~g--~------------------~~~~~t~~~li~~~~~~g~~  116 (118)
                      ++.+.-++.++....  +                  .++...|..+++.|...+..
T Consensus        86 ~~~a~~Ly~~~~~~~~al~i~~~~~~~~~a~e~~~~~~~~~l~~~l~~~~l~~~~~  141 (143)
T PF00637_consen   86 YEEAVYLYSKLGNHDEALEILHKLKDYEEAIEYAKKVDDPELWEQLLKYCLDSKPF  141 (143)
T ss_dssp             HHHHHHHHHCCTTHTTCSSTSSSTHCSCCCTTTGGGCSSSHHHHHHHHHHCTSTCT
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHccHHHHHHHHHhcCcHHHHHHHHHHHHhcCcc
Confidence            666666666652211  0                  35678888888888766543

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.

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=93.66  E-value=0.28  Score=23.00  Aligned_cols=37  Identities=8%  Similarity=0.137  Sum_probs=25.3

Q ss_pred             HHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHH
Q 046694           68 HIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYAC  105 (118)
Q Consensus        68 ~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~  105 (118)
                      +..+-..|.+.|++++|.++|++..+.. +-|...+..
T Consensus         4 ~~~la~~~~~~G~~~~A~~~~~~~l~~~-P~~~~a~~~   40 (44)
T PF13428_consen    4 WLALARAYRRLGQPDEAERLLRRALALD-PDDPEAWRA   40 (44)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCCHHHHHH
Confidence            4556778888899999999998887752 223444443

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=93.66  E-value=0.3  Score=22.05  Aligned_cols=27  Identities=22%  Similarity=0.310  Sum_probs=16.5

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 046694           31 ASWITLILGYGMLGELDVAINLFEAMR   57 (118)
Q Consensus        31 ~~~~~li~~~~~~~~~~~a~~~~~~m~   57 (118)
                      .+++.+-..|...|++++|..++++..
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            355666666666666666666666654

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

Probab=93.66  E-value=1.1  Score=32.72  Aligned_cols=108  Identities=14%  Similarity=0.081  Sum_probs=79.8

Q ss_pred             HHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc-cHHHHHHHHHHHhcCCChh
Q 046694            7 DFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEY-YPVSHIGVLTACSLGGLVE   82 (118)
Q Consensus         7 ~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~   82 (118)
                      ..|....+-++.++.|++-.   ..|..+|..--..+.-.+++++|..=|++..+-  .| +...|--+--+.-+.+.++
T Consensus       368 ~~y~d~~~~~~~~~~F~~A~~ldp~n~dvYyHRgQm~flL~q~e~A~aDF~Kai~L--~pe~~~~~iQl~~a~Yr~~k~~  445 (606)
T KOG0547|consen  368 AAYADENQSEKMWKDFNKAEDLDPENPDVYYHRGQMRFLLQQYEEAIADFQKAISL--DPENAYAYIQLCCALYRQHKIA  445 (606)
T ss_pred             HHHhhhhccHHHHHHHHHHHhcCCCCCchhHhHHHHHHHHHHHHHHHHHHHHHhhc--ChhhhHHHHHHHHHHHHHHHHH
Confidence            45666777777788887554   347778888777778888899999999887764  33 4445544444455888999


Q ss_pred             hHHHHHHHHhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           83 KGKKFFDEMQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      .+.+.|++.+++ ++-.+..|+-.-.++...++++
T Consensus       446 ~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd  479 (606)
T KOG0547|consen  446 ESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFD  479 (606)
T ss_pred             HHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHH
Confidence            999999999664 6667888888888887777665

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

Probab=93.63  E-value=0.82  Score=35.39  Aligned_cols=103  Identities=13%  Similarity=0.127  Sum_probs=78.6

Q ss_pred             HhcCCHHHHHHHhhhCC--CCCHhhHHHHHHHHH--hcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHH
Q 046694           10 TRTGRIDLANKIFDRLP--VKDSASWITLILGYG--MLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGK   85 (118)
Q Consensus        10 ~~~~~~~~a~~~~~~m~--~~~~~~~~~li~~~~--~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~   85 (118)
                      ..++++.+|....+++.  -|| ..|..++.++.  +.|..++|..+++.....+.. |..|...+-.+|-+.+..++|.
T Consensus        20 ld~~qfkkal~~~~kllkk~Pn-~~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~~~   97 (932)
T KOG2053|consen   20 LDSSQFKKALAKLGKLLKKHPN-ALYAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDEAV   97 (932)
T ss_pred             hhhHHHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhHHH
Confidence            34677788877777664  233 34666666654  569999999999998766544 8999999999999999999999


Q ss_pred             HHHHHHhhcCCCccHHHHHHHHHHHHHcccc
Q 046694           86 KFFDEMQARNVKPTETHYACMVYLLIKYNQK  116 (118)
Q Consensus        86 ~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~  116 (118)
                      .+|+....  .-|+......+..+|.|-+++
T Consensus        98 ~~Ye~~~~--~~P~eell~~lFmayvR~~~y  126 (932)
T KOG2053|consen   98 HLYERANQ--KYPSEELLYHLFMAYVREKSY  126 (932)
T ss_pred             HHHHHHHh--hCCcHHHHHHHHHHHHHHHHH
Confidence            99999854  345677777778888776553

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

Probab=93.63  E-value=2.3  Score=31.96  Aligned_cols=92  Identities=11%  Similarity=0.073  Sum_probs=67.7

Q ss_pred             HHHHHHHhcCCHHHHHHHhhhCC--CCCH-hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCC
Q 046694            4 PRLDFYTRTGRIDLANKIFDRLP--VKDS-ASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGL   80 (118)
Q Consensus         4 ~ll~~~~~~~~~~~a~~~~~~m~--~~~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~   80 (118)
                      -+.+.|-+.|+++.|....+.-.  .|.. .-|.+--+.+..+|++++|..++++.++-. .||...=+--.+-..++.+
T Consensus       376 ~laqh~D~~g~~~~A~~yId~AIdHTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD-~aDR~INsKcAKYmLrAn~  454 (700)
T KOG1156|consen  376 FLAQHYDKLGDYEVALEYIDLAIDHTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELD-TADRAINSKCAKYMLRANE  454 (700)
T ss_pred             HHHHHHHHcccHHHHHHHHHHHhccCchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhcc-chhHHHHHHHHHHHHHccc
Confidence            35677888999999999988665  3332 244444578888999999999999987653 2454444455666678899


Q ss_pred             hhhHHHHHHHHhhcCC
Q 046694           81 VEKGKKFFDEMQARNV   96 (118)
Q Consensus        81 ~~~a~~~~~~m~~~g~   96 (118)
                      .++|.++...+.+.|.
T Consensus       455 i~eA~~~~skFTr~~~  470 (700)
T KOG1156|consen  455 IEEAEEVLSKFTREGF  470 (700)
T ss_pred             cHHHHHHHHHhhhccc
Confidence            9999999999977775

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

Probab=93.54  E-value=0.41  Score=36.16  Aligned_cols=80  Identities=23%  Similarity=0.179  Sum_probs=57.8

Q ss_pred             HHHHHHhcCCHHHHHHHhhhCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhH
Q 046694            5 RLDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKG   84 (118)
Q Consensus         5 ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a   84 (118)
                      +...+.+.|-+..|..+|++..     .|..+|..|+..|+..+|..+..+..+  -+||..-|..+.+..-...-+++|
T Consensus       404 laell~slGitksAl~I~Erle-----mw~~vi~CY~~lg~~~kaeei~~q~le--k~~d~~lyc~LGDv~~d~s~yEka  476 (777)
T KOG1128|consen  404 LAELLLSLGITKSALVIFERLE-----MWDPVILCYLLLGQHGKAEEINRQELE--KDPDPRLYCLLGDVLHDPSLYEKA  476 (777)
T ss_pred             HHHHHHHcchHHHHHHHHHhHH-----HHHHHHHHHHHhcccchHHHHHHHHhc--CCCcchhHHHhhhhccChHHHHHH
Confidence            3456667777888888887543     577777888888888888888777665  367777787777777766667777


Q ss_pred             HHHHHHH
Q 046694           85 KKFFDEM   91 (118)
Q Consensus        85 ~~~~~~m   91 (118)
                      .++++..
T Consensus       477 wElsn~~  483 (777)
T KOG1128|consen  477 WELSNYI  483 (777)
T ss_pred             HHHhhhh
Confidence            7766664

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=93.47  E-value=1.5  Score=29.31  Aligned_cols=84  Identities=14%  Similarity=0.170  Sum_probs=63.5

Q ss_pred             HHhcCCHHHHHHHhhhCC--------CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc-CCCcc-HHHHHHHHHHHhcC
Q 046694            9 YTRTGRIDLANKIFDRLP--------VKDSASWITLILGYGMLGELDVAINLFEAMRED-GVEYY-PVSHIGVLTACSLG   78 (118)
Q Consensus         9 ~~~~~~~~~a~~~~~~m~--------~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~p~-~~~~~~ll~~~~~~   78 (118)
                      +.+.|++..|..-|....        .||..-|  |-..+...|+.+.|-.+|-.+.+. +-.|. .....-+-.+..+.
T Consensus       151 ~~ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yW--LGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l  228 (262)
T COG1729         151 LYKSGDYAEAEQAFQAFIKKYPNSTYTPNAYYW--LGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRL  228 (262)
T ss_pred             HHHcCCHHHHHHHHHHHHHcCCCCcccchhHHH--HHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHh
Confidence            567888999999988664        2243333  678888899999999999999765 22232 36667777778899


Q ss_pred             CChhhHHHHHHHHhhc
Q 046694           79 GLVEKGKKFFDEMQAR   94 (118)
Q Consensus        79 ~~~~~a~~~~~~m~~~   94 (118)
                      |+-++|...|+++.+.
T Consensus       229 ~~~d~A~atl~qv~k~  244 (262)
T COG1729         229 GNTDEACATLQQVIKR  244 (262)
T ss_pred             cCHHHHHHHHHHHHHH
Confidence            9999999999998664

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=93.35  E-value=1.9  Score=31.57  Aligned_cols=100  Identities=12%  Similarity=0.021  Sum_probs=78.3

Q ss_pred             HHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccH-HHHHHHHHHHhcCCChhh
Q 046694            8 FYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYP-VSHIGVLTACSLGGLVEK   83 (118)
Q Consensus         8 ~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~-~~~~~ll~~~~~~~~~~~   83 (118)
                      +-...|+++.|+.+|-+-.   .+|.+.|+.-..+|+..|++++|++=-.+-++  +.|+. --|+-.-.+..-.|++++
T Consensus        11 aa~s~~d~~~ai~~~t~ai~l~p~nhvlySnrsaa~a~~~~~~~al~da~k~~~--l~p~w~kgy~r~Gaa~~~lg~~~e   88 (539)
T KOG0548|consen   11 AAFSSGDFETAIRLFTEAIMLSPTNHVLYSNRSAAYASLGSYEKALKDATKTRR--LNPDWAKGYSRKGAALFGLGDYEE   88 (539)
T ss_pred             hhcccccHHHHHHHHHHHHccCCCccchhcchHHHHHHHhhHHHHHHHHHHHHh--cCCchhhHHHHhHHHHHhcccHHH
Confidence            4467899999999996543   55999999999999999999999887666555  46774 568888888888999999


Q ss_pred             HHHHHHHHhhcCCCccHHHHHHHHHHH
Q 046694           84 GKKFFDEMQARNVKPTETHYACMVYLL  110 (118)
Q Consensus        84 a~~~~~~m~~~g~~~~~~t~~~li~~~  110 (118)
                      |..-|.+=.+.. +.+...++.+.+++
T Consensus        89 A~~ay~~GL~~d-~~n~~L~~gl~~a~  114 (539)
T KOG0548|consen   89 AILAYSEGLEKD-PSNKQLKTGLAQAY  114 (539)
T ss_pred             HHHHHHHHhhcC-CchHHHHHhHHHhh
Confidence            999998865532 33466666666665

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=93.23  E-value=1.1  Score=27.07  Aligned_cols=81  Identities=17%  Similarity=0.122  Sum_probs=59.2

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHcC-C-CccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHH
Q 046694           31 ASWITLILGYGMLGELDVAINLFEAMREDG-V-EYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVY  108 (118)
Q Consensus        31 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~-~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~  108 (118)
                      ..|+.-..+ .+.|++++|.+.|+.+...- . +-....--.++.++-+.++++.|...++++.+..-.-...-|.-.+.
T Consensus        12 ~ly~~a~~~-l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~   90 (142)
T PF13512_consen   12 ELYQEAQEA-LQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMR   90 (142)
T ss_pred             HHHHHHHHH-HHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHH
Confidence            344444443 46899999999999998651 1 22456677789999999999999999999988776544556666666


Q ss_pred             HHHH
Q 046694          109 LLIK  112 (118)
Q Consensus       109 ~~~~  112 (118)
                      +++.
T Consensus        91 gL~~   94 (142)
T PF13512_consen   91 GLSY   94 (142)
T ss_pred             HHHH
Confidence            5543

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=93.13  E-value=1  Score=28.62  Aligned_cols=53  Identities=21%  Similarity=0.228  Sum_probs=39.5

Q ss_pred             HHHHhcCCHHHHHHHhhhCCC--C----CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 046694            7 DFYTRTGRIDLANKIFDRLPV--K----DSASWITLILGYGMLGELDVAINLFEAMRED   59 (118)
Q Consensus         7 ~~~~~~~~~~~a~~~~~~m~~--~----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~   59 (118)
                      ..+...|++++|...|+++..  |    -....-.+..++-+.|++++|...|++..+.
T Consensus        13 ~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~   71 (203)
T PF13525_consen   13 LEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKL   71 (203)
T ss_dssp             HHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            456678999999999998862  1    2234456778889999999999999998764

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=93.13  E-value=1.3  Score=35.06  Aligned_cols=112  Identities=10%  Similarity=0.023  Sum_probs=66.0

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc-CCCccHHHHHHHHHH--H
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMRED-GVEYYPVSHIGVLTA--C   75 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~p~~~~~~~ll~~--~   75 (118)
                      |+.|-..|...-+..+|.+.|++-.   ..+...+-.....|+...++++|..+  .+... +-+.-...+|..-++  |
T Consensus       495 f~~LG~iYrd~~Dm~RA~kCf~KAFeLDatdaeaaaa~adtyae~~~we~a~~I--~l~~~qka~a~~~k~nW~~rG~yy  572 (1238)
T KOG1127|consen  495 FAFLGQIYRDSDDMKRAKKCFDKAFELDATDAEAAAASADTYAEESTWEEAFEI--CLRAAQKAPAFACKENWVQRGPYY  572 (1238)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhcCCchhhhhHHHHHHHhhccccHHHHHHH--HHHHhhhchHHHHHhhhhhccccc
Confidence            5566666776667888888888665   34677788888889999999988888  22211 111122233333222  2


Q ss_pred             hcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHcccc
Q 046694           76 SLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQK  116 (118)
Q Consensus        76 ~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~  116 (118)
                      .+.++...+..-|+...+.. +.|...|..+.++|.++|+.
T Consensus       573 Lea~n~h~aV~~fQsALR~d-PkD~n~W~gLGeAY~~sGry  612 (1238)
T KOG1127|consen  573 LEAHNLHGAVCEFQSALRTD-PKDYNLWLGLGEAYPESGRY  612 (1238)
T ss_pred             cCccchhhHHHHHHHHhcCC-chhHHHHHHHHHHHHhcCce
Confidence            34455555555555543321 22556666666666666654

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

Probab=93.13  E-value=1.1  Score=35.10  Aligned_cols=61  Identities=16%  Similarity=0.095  Sum_probs=41.2

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhh
Q 046694           31 ASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQA   93 (118)
Q Consensus        31 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~   93 (118)
                      ...-.+..+|-+.|+.+++..+++++.+.. +-|+...|.+-..|+.. ++++|.+++.+...
T Consensus       117 ~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~  177 (906)
T PRK14720        117 LALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAITYLKKAIY  177 (906)
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHHHHHHHHH
Confidence            355556666667777777777777777655 33667777777777777 77777776666533

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=93.08  E-value=2.1  Score=31.17  Aligned_cols=111  Identities=18%  Similarity=0.125  Sum_probs=73.1

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC-----CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHH-HHHHHHH
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP-----VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSH-IGVLTAC   75 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~-----~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~-~~ll~~~   75 (118)
                      |+..|+.--+..-++.|+.+|-+..     .+++..++++|.-++ .|+..-|.++|+-=...  -||...| +-.+.-+
T Consensus       400 ~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~--f~d~~~y~~kyl~fL  476 (660)
T COG5107         400 FCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLK--FPDSTLYKEKYLLFL  476 (660)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHh--CCCchHHHHHHHHHH
Confidence            6677777778888999999998775     458888899888765 57777888888754322  3444443 3456666


Q ss_pred             hcCCChhhHHHHHHHHhhcCCCcc--HHHHHHHHHHHHHcccc
Q 046694           76 SLGGLVEKGKKFFDEMQARNVKPT--ETHYACMVYLLIKYNQK  116 (118)
Q Consensus        76 ~~~~~~~~a~~~~~~m~~~g~~~~--~~t~~~li~~~~~~g~~  116 (118)
                      ...++-+.|..+|+.-..+ ++.+  ...|..+|+.=+.-|++
T Consensus       477 i~inde~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~l  518 (660)
T COG5107         477 IRINDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSL  518 (660)
T ss_pred             HHhCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcch
Confidence            6777778888888743221 1112  45566666665555543

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=92.97  E-value=1.6  Score=28.68  Aligned_cols=50  Identities=18%  Similarity=0.119  Sum_probs=28.9

Q ss_pred             HhcCCHHHHHHHhhhCC--CCCH-hhH---HHHHHHHHhcCCHHHHHHHHHHHHHc
Q 046694           10 TRTGRIDLANKIFDRLP--VKDS-ASW---ITLILGYGMLGELDVAINLFEAMRED   59 (118)
Q Consensus        10 ~~~~~~~~a~~~~~~m~--~~~~-~~~---~~li~~~~~~~~~~~a~~~~~~m~~~   59 (118)
                      .+.|++++|...|+++.  -|+. ..-   -.+..++.+.+++++|...|++..+.
T Consensus        43 ~~~g~y~~Ai~~f~~l~~~yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~   98 (243)
T PRK10866         43 LQDGNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRL   98 (243)
T ss_pred             HHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh
Confidence            44577777777777664  1211 111   23345556667777777777777554

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

Probab=92.97  E-value=1.3  Score=32.67  Aligned_cols=59  Identities=14%  Similarity=0.063  Sum_probs=33.3

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc-cHHHHHHHHHHHhcCCChhhHHHHHHH
Q 046694           31 ASWITLILGYGMLGELDVAINLFEAMREDGVEY-YPVSHIGVLTACSLGGLVEKGKKFFDE   90 (118)
Q Consensus        31 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~   90 (118)
                      .+|-..|+.--+..-+..|..+|.+.++.+..+ .+.++++++.-+|. ++.+.|.++|+-
T Consensus       367 Lv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~cs-kD~~~AfrIFeL  426 (656)
T KOG1914|consen  367 LVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYCS-KDKETAFRIFEL  426 (656)
T ss_pred             eehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHhc-CChhHHHHHHHH
Confidence            345555555555555666666666666555554 55555555555554 455556665554

>PRK04841 transcriptional regulator MalT; Provisional

Probab=92.92  E-value=2.1  Score=33.15  Aligned_cols=90  Identities=10%  Similarity=-0.139  Sum_probs=57.6

Q ss_pred             HHHHHHHhcCCHHHHHHHhhhCC-------CC--CHhhHHHHHHHHHhcCCHHHHHHHHHHHHH----cCCC--c-cHHH
Q 046694            4 PRLDFYTRTGRIDLANKIFDRLP-------VK--DSASWITLILGYGMLGELDVAINLFEAMRE----DGVE--Y-YPVS   67 (118)
Q Consensus         4 ~ll~~~~~~~~~~~a~~~~~~m~-------~~--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~----~~~~--p-~~~~   67 (118)
                      .+-..+...|++++|...+++..       .+  ...+...+-..+...|+++.|...+++...    .+..  | ....
T Consensus       496 ~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  575 (903)
T PRK04841        496 VLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFL  575 (903)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHH
Confidence            34455667889998888887654       11  122444555667778999999888887643    2221  1 2233


Q ss_pred             HHHHHHHHhcCCChhhHHHHHHHHhh
Q 046694           68 HIGVLTACSLGGLVEKGKKFFDEMQA   93 (118)
Q Consensus        68 ~~~ll~~~~~~~~~~~a~~~~~~m~~   93 (118)
                      +..+-..+...|++++|...+++...
T Consensus       576 ~~~la~~~~~~G~~~~A~~~~~~al~  601 (903)
T PRK04841        576 LRIRAQLLWEWARLDEAEQCARKGLE  601 (903)
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHhHH
Confidence            44455566677999999888887633

>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=92.90  E-value=2.6  Score=30.39  Aligned_cols=75  Identities=24%  Similarity=0.295  Sum_probs=43.8

Q ss_pred             HhcCCHHHHHHHhhhCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHH
Q 046694           10 TRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFD   89 (118)
Q Consensus        10 ~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~   89 (118)
                      .+.|+++.|.++-++..  +...|..|-....+.|+++.|.+.|++..+         |..++=-|.-.|+.+.-.++.+
T Consensus       329 l~lg~L~~A~~~a~~~~--~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~  397 (443)
T PF04053_consen  329 LQLGNLDIALEIAKELD--DPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAK  397 (443)
T ss_dssp             HHCT-HHHHHHHCCCCS--THHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHH
T ss_pred             HhcCCHHHHHHHHHhcC--cHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHH
Confidence            34455555555554443  556888888888888888888888887653         3334444444555555555544


Q ss_pred             HHhhcC
Q 046694           90 EMQARN   95 (118)
Q Consensus        90 ~m~~~g   95 (118)
                      .-...|
T Consensus       398 ~a~~~~  403 (443)
T PF04053_consen  398 IAEERG  403 (443)
T ss_dssp             HHHHTT
T ss_pred             HHHHcc
Confidence            444433

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.

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=92.73  E-value=0.43  Score=21.53  Aligned_cols=29  Identities=14%  Similarity=0.145  Sum_probs=24.4

Q ss_pred             HHHHHHHHHHHhcCCChhhHHHHHHHHhh
Q 046694           65 PVSHIGVLTACSLGGLVEKGKKFFDEMQA   93 (118)
Q Consensus        65 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~   93 (118)
                      ..+++.+-..|...|++++|..++++..+
T Consensus         2 a~~~~~la~~~~~~g~~~~A~~~~~~al~   30 (42)
T PF13374_consen    2 ASALNNLANAYRAQGRYEEALELLEEALE   30 (42)
T ss_dssp             HHHHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhhcchhhHHHHHHHH
Confidence            46788999999999999999999999743

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=92.71  E-value=2.2  Score=28.99  Aligned_cols=104  Identities=13%  Similarity=0.078  Sum_probs=77.5

Q ss_pred             CCHHHHHHHhhhCCC-----CCHhhHHHHHHHHHh-cC-CHHHHHHHHHHHH-HcCCCccHHHHHHHHHHHhcCCChhhH
Q 046694           13 GRIDLANKIFDRLPV-----KDSASWITLILGYGM-LG-ELDVAINLFEAMR-EDGVEYYPVSHIGVLTACSLGGLVEKG   84 (118)
Q Consensus        13 ~~~~~a~~~~~~m~~-----~~~~~~~~li~~~~~-~~-~~~~a~~~~~~m~-~~~~~p~~~~~~~ll~~~~~~~~~~~a   84 (118)
                      ..+.+|.++|+....     .|..+-..+++.... .+ ....-.++.+.+. ..|-.++..+...+|+.+++.+++++-
T Consensus       142 ~~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~kl  221 (292)
T PF13929_consen  142 KIVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNKL  221 (292)
T ss_pred             HHHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHHH
Confidence            346688888884432     366666677766665 22 3444444555554 335678999999999999999999999


Q ss_pred             HHHHHHHhhc-CCCccHHHHHHHHHHHHHcccc
Q 046694           85 KKFFDEMQAR-NVKPTETHYACMVYLLIKYNQK  116 (118)
Q Consensus        85 ~~~~~~m~~~-g~~~~~~t~~~li~~~~~~g~~  116 (118)
                      .++++.-... +..-|...|...|+...++|+.
T Consensus       222 ~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~  254 (292)
T PF13929_consen  222 FQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQ  254 (292)
T ss_pred             HHHHHHhcccCCCCCCCchHHHHHHHHHHcCCH
Confidence            9999988555 6778999999999999999975

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.68  E-value=2.1  Score=28.70  Aligned_cols=107  Identities=19%  Similarity=0.169  Sum_probs=64.7

Q ss_pred             HHHHhcCCHHHHHHHhhhCCC-----CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCCh
Q 046694            7 DFYTRTGRIDLANKIFDRLPV-----KDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLV   81 (118)
Q Consensus         7 ~~~~~~~~~~~a~~~~~~m~~-----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~   81 (118)
                      -+-..+|+.+.|...++++..     +.+.-...+.  +-..|.+++|+++++.+.++. +-|.+++-.=+-..-..|.-
T Consensus        60 IAAld~~~~~lAq~C~~~L~~~fp~S~RV~~lkam~--lEa~~~~~~A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~  136 (289)
T KOG3060|consen   60 IAALDTGRDDLAQKCINQLRDRFPGSKRVGKLKAML--LEATGNYKEAIEYYESLLEDD-PTDTVIRKRKLAILKAQGKN  136 (289)
T ss_pred             HHHHHhcchHHHHHHHHHHHHhCCCChhHHHHHHHH--HHHhhchhhHHHHHHHHhccC-cchhHHHHHHHHHHHHcCCc
Confidence            344456777777777766541     1222222221  223477888888888887765 34666666555555455554


Q ss_pred             hhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           82 EKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      -+|++-+.+..+. +..|...|.-+-+.|..-|+++
T Consensus       137 l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~  171 (289)
T KOG3060|consen  137 LEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFE  171 (289)
T ss_pred             HHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHH
Confidence            4666665555553 5668888888888888777664

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

Probab=92.60  E-value=4  Score=31.82  Aligned_cols=84  Identities=13%  Similarity=0.153  Sum_probs=53.6

Q ss_pred             HHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHH
Q 046694            9 YTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGK   85 (118)
Q Consensus         9 ~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~   85 (118)
                      |++ |++++|..++.+..   ..+...|-+|-..|-+.|+.++++..+=-.-.. -+-|...|..+-+-..+.|+++.|.
T Consensus       150 far-g~~eeA~~i~~EvIkqdp~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL-~p~d~e~W~~ladls~~~~~i~qA~  227 (895)
T KOG2076|consen  150 FAR-GDLEEAEEILMEVIKQDPRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHL-NPKDYELWKRLADLSEQLGNINQAR  227 (895)
T ss_pred             HHh-CCHHHHHHHHHHHHHhCccchhhHHHHHHHHHHcccHHHHHHHHHHHHhc-CCCChHHHHHHHHHHHhcccHHHHH
Confidence            444 78888888887765   236667777777777777777776654332221 2235566666666666777777777


Q ss_pred             HHHHHHhhc
Q 046694           86 KFFDEMQAR   94 (118)
Q Consensus        86 ~~~~~m~~~   94 (118)
                      -+|.+....
T Consensus       228 ~cy~rAI~~  236 (895)
T KOG2076|consen  228 YCYSRAIQA  236 (895)
T ss_pred             HHHHHHHhc
Confidence            766666554

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=92.26  E-value=3.3  Score=30.34  Aligned_cols=70  Identities=11%  Similarity=0.061  Sum_probs=50.2

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcC-CCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCc-cHHHHHHHH
Q 046694           38 LGYGMLGELDVAINLFEAMREDG-VEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKP-TETHYACMV  107 (118)
Q Consensus        38 ~~~~~~~~~~~a~~~~~~m~~~~-~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~-~~~t~~~li  107 (118)
                      ...-+.|+.++|.+.|++|.+.. ..-.....-.+++++...+...++..++.+-.+...+. -...|+..+
T Consensus       267 mCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpkSAti~YTaAL  338 (539)
T PF04184_consen  267 MCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPKSATICYTAAL  338 (539)
T ss_pred             HHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCchHHHHHHHHH
Confidence            33446699999999999997642 22245577789999999999999999999975543322 255566544

The molecular function of this protein is uncertain.

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.04  E-value=1.1  Score=31.66  Aligned_cols=83  Identities=8%  Similarity=0.001  Sum_probs=55.3

Q ss_pred             HHHHhcCCHHHHHHHhhhCC----CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHH-HHHHhcCCCh
Q 046694            7 DFYTRTGRIDLANKIFDRLP----VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGV-LTACSLGGLV   81 (118)
Q Consensus         7 ~~~~~~~~~~~a~~~~~~m~----~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l-l~~~~~~~~~   81 (118)
                      +.+--..+++++...++.++    ..|...|| +-.+++.-|...+|.++|-+.....++ |..+|..+ .++|.+.+.+
T Consensus       367 s~fFL~~qFddVl~YlnSi~sYF~NdD~Fn~N-~AQAk~atgny~eaEelf~~is~~~ik-n~~~Y~s~LArCyi~nkkP  444 (557)
T KOG3785|consen  367 SYFFLSFQFDDVLTYLNSIESYFTNDDDFNLN-LAQAKLATGNYVEAEELFIRISGPEIK-NKILYKSMLARCYIRNKKP  444 (557)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhcCcchhhhH-HHHHHHHhcChHHHHHHHhhhcChhhh-hhHHHHHHHHHHHHhcCCc
Confidence            34444455666655555554    22444443 567777889999999999887665555 56666655 6777889999


Q ss_pred             hhHHHHHHHH
Q 046694           82 EKGKKFFDEM   91 (118)
Q Consensus        82 ~~a~~~~~~m   91 (118)
                      +.|+.++=.+
T Consensus       445 ~lAW~~~lk~  454 (557)
T KOG3785|consen  445 QLAWDMMLKT  454 (557)
T ss_pred             hHHHHHHHhc
Confidence            9988776555

>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]

Probab=92.03  E-value=1.6  Score=26.03  Aligned_cols=63  Identities=10%  Similarity=0.067  Sum_probs=48.5

Q ss_pred             CHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHH
Q 046694           45 ELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVY  108 (118)
Q Consensus        45 ~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~  108 (118)
                      +.-+..+.++.+....+.|+..+.-+.|++|-+.+++..|.++|+-.+.. +.+....|..+++
T Consensus        64 D~wEvrkglN~l~~yDlVP~pkvIEaaLRA~RRvNDfa~aVRilE~iK~K-~g~~k~~Y~y~v~  126 (149)
T KOG4077|consen   64 DGWEVRKGLNNLFDYDLVPSPKVIEAALRACRRVNDFATAVRILEAIKDK-CGAQKQVYPYYVK  126 (149)
T ss_pred             hHHHHHHHHHhhhccccCCChHHHHHHHHHHHHhccHHHHHHHHHHHHHh-cccHHHHHHHHHH
Confidence            45566777777777889999999999999999999999999999998442 3333335555554

>PRK10564 maltose regulon periplasmic protein; Provisional

Probab=92.00  E-value=0.57  Score=31.83  Aligned_cols=38  Identities=18%  Similarity=0.172  Sum_probs=21.1

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHH
Q 046694           32 SWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHI   69 (118)
Q Consensus        32 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~   69 (118)
                      -|+..|....+.||+++|+++++|-++.|+.--..+|-
T Consensus       259 Yy~~aI~~AVk~gDi~KAL~LldEAe~LG~~~Ar~tFi  296 (303)
T PRK10564        259 YFNQAIKQAVKKGDVDKALKLLDEAERLGSTSARSTFI  296 (303)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCchHHHHHH
Confidence            34556666666666666666666666555544344443

>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=91.99  E-value=1.9  Score=26.66  Aligned_cols=86  Identities=19%  Similarity=0.199  Sum_probs=51.8

Q ss_pred             HhcCCHHHHHHHhhhCC--CC---CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhH
Q 046694           10 TRTGRIDLANKIFDRLP--VK---DSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKG   84 (118)
Q Consensus        10 ~~~~~~~~a~~~~~~m~--~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a   84 (118)
                      .+.++.+++..+++-+.  .|   ...++..++.  ...|+|.+|.++|+++.+..  |...--.+|+..|.... -|-.
T Consensus        21 l~~~~~~D~e~lL~ALrvLRP~~~e~~~~~~~l~--i~r~~w~dA~rlLr~l~~~~--~~~p~~kALlA~CL~~~-~D~~   95 (160)
T PF09613_consen   21 LRLGDPDDAEALLDALRVLRPEFPELDLFDGWLH--IVRGDWDDALRLLRELEERA--PGFPYAKALLALCLYAL-GDPS   95 (160)
T ss_pred             HccCChHHHHHHHHHHHHhCCCchHHHHHHHHHH--HHhCCHHHHHHHHHHHhccC--CCChHHHHHHHHHHHHc-CChH
Confidence            46689999999999876  44   4445555554  67899999999999987653  33333344444444322 2223


Q ss_pred             HHHH-HHHhhcCCCccH
Q 046694           85 KKFF-DEMQARNVKPTE  100 (118)
Q Consensus        85 ~~~~-~~m~~~g~~~~~  100 (118)
                      ++.+ +++.+.+-.|+.
T Consensus        96 Wr~~A~evle~~~d~~a  112 (160)
T PF09613_consen   96 WRRYADEVLESGADPDA  112 (160)
T ss_pred             HHHHHHHHHhcCCChHH
Confidence            3333 334555444443

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

Probab=91.99  E-value=1.3  Score=32.87  Aligned_cols=47  Identities=15%  Similarity=0.176  Sum_probs=25.5

Q ss_pred             HHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHH
Q 046694            7 DFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLF   53 (118)
Q Consensus         7 ~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~   53 (118)
                      +-+.+.|++++|.+.-+++.   ..+...+..-+-+.++.+.+++|+++.
T Consensus        20 n~~~~~~e~e~a~k~~~Kil~~~pdd~~a~~cKvValIq~~ky~~ALk~i   69 (652)
T KOG2376|consen   20 NRHGKNGEYEEAVKTANKILSIVPDDEDAIRCKVVALIQLDKYEDALKLI   69 (652)
T ss_pred             HHhccchHHHHHHHHHHHHHhcCCCcHhhHhhhHhhhhhhhHHHHHHHHH
Confidence            34455666777766666554   124444555555555555555555433

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=91.58  E-value=4.2  Score=29.88  Aligned_cols=87  Identities=15%  Similarity=0.034  Sum_probs=61.2

Q ss_pred             HHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc-cHHHHHHHHHHHhcCCChh
Q 046694            7 DFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEY-YPVSHIGVLTACSLGGLVE   82 (118)
Q Consensus         7 ~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~   82 (118)
                      +.+-+.|++..|++.|.++.   ..|...|...--+|.+.|.+..|++--+...+.  .| ...-|.-=..++--..+++
T Consensus       366 ne~Fk~gdy~~Av~~YteAIkr~P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL--~p~~~kgy~RKg~al~~mk~yd  443 (539)
T KOG0548|consen  366 NEAFKKGDYPEAVKHYTEAIKRDPEDARLYSNRAACYLKLGEYPEALKDAKKCIEL--DPNFIKAYLRKGAALRAMKEYD  443 (539)
T ss_pred             HHHHhccCHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhc--CchHHHHHHHHHHHHHHHHHHH
Confidence            35667899999999998875   338889999999999999999998877776654  23 2333333344444455677


Q ss_pred             hHHHHHHHHhhcC
Q 046694           83 KGKKFFDEMQARN   95 (118)
Q Consensus        83 ~a~~~~~~m~~~g   95 (118)
                      .|.+.|.+-.+..
T Consensus       444 kAleay~eale~d  456 (539)
T KOG0548|consen  444 KALEAYQEALELD  456 (539)
T ss_pred             HHHHHHHHHHhcC
Confidence            7777777765543

>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=91.38  E-value=1.7  Score=26.26  Aligned_cols=58  Identities=24%  Similarity=0.409  Sum_probs=44.1

Q ss_pred             HHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC
Q 046694            5 RLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVE   62 (118)
Q Consensus         5 ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~   62 (118)
                      -+....+.|+-|+..+++.++.   .+++...-.+-.+|.+.|+..++.+++.+.=+.|++
T Consensus        92 ALd~lv~~~kkDqLdki~~~l~kn~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~k  152 (161)
T PF09205_consen   92 ALDILVKQGKKDQLDKIYNELKKNEEINPEFLVKIANAYKKLGNTREANELLKEACEKGLK  152 (161)
T ss_dssp             HHHHHHHTT-HHHHHHHHHHH-----S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-H
T ss_pred             HHHHHHHhccHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhchH
Confidence            3667778888888888888865   667777788889999999999999999998887764

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PF11848 DUF3368: Domain of unknown function (DUF3368); InterPro: IPR021799 This domain is functionally uncharacterised

Probab=91.37  E-value=0.93  Score=21.92  Aligned_cols=31  Identities=16%  Similarity=0.237  Sum_probs=14.8

Q ss_pred             hcCCHHHHHHHHHHHHHcCCCccHHHHHHHH
Q 046694           42 MLGELDVAINLFEAMREDGVEYYPVSHIGVL   72 (118)
Q Consensus        42 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll   72 (118)
                      +.|-.+++..++++|++.|+..+...|..++
T Consensus        14 ~~GlI~~~~~~l~~l~~~g~~is~~l~~~~L   44 (48)
T PF11848_consen   14 RRGLISEVKPLLDRLQQAGFRISPKLIEEIL   44 (48)
T ss_pred             HcCChhhHHHHHHHHHHcCcccCHHHHHHHH
Confidence            3344445555555555555544444444443

This domain is found in bacteria and archaea. This presumed domain is about 50 amino acids in length.

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=91.32  E-value=2.1  Score=25.91  Aligned_cols=87  Identities=13%  Similarity=0.117  Sum_probs=66.2

Q ss_pred             HHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc-CCCccHH---HHHHHHHHHhcCCC
Q 046694            8 FYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMRED-GVEYYPV---SHIGVLTACSLGGL   80 (118)
Q Consensus         8 ~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~p~~~---~~~~ll~~~~~~~~   80 (118)
                      +.+..|+.+.|++.|.+-.   ..+...||.--.++--.|+.++|++=+++-.+. |-+ +..   .|.---..|-..|+
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 ALAEAGDLDGALELFGQALCLAPERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQ-TRTACQAFVQRGLLYRLLGN  130 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHhcccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHHHHhCc
Confidence            5678899999999998764   458899999999999999999999999988764 322 222   23333344567788


Q ss_pred             hhhHHHHHHHHhhcC
Q 046694           81 VEKGKKFFDEMQARN   95 (118)
Q Consensus        81 ~~~a~~~~~~m~~~g   95 (118)
                      -+.|..=|+...+.|
T Consensus       131 dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  131 DDAARADFEAAAQLG  145 (175)
T ss_pred             hHHHHHhHHHHHHhC
Confidence            888888888776655

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=91.25  E-value=1.7  Score=28.55  Aligned_cols=73  Identities=7%  Similarity=-0.051  Sum_probs=52.4

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhC-C-CC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc--CCCccHHHHHHHHHH
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRL-P-VK-DSASWITLILGYGMLGELDVAINLFEAMRED--GVEYYPVSHIGVLTA   74 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m-~-~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~--~~~p~~~~~~~ll~~   74 (118)
                      -+..++.+.+.+.+.+|+...++- + +| |...-..+++.+|-.|+|++|+.-++-.-..  ...+-...|..+|++
T Consensus         4 l~~t~seLL~~~sL~dai~~a~~qVkakPtda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir~   81 (273)
T COG4455           4 LRDTISELLDDNSLQDAIGLARDQVKAKPTDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIRC   81 (273)
T ss_pred             hHHHHHHHHHhccHHHHHHHHHHHHhcCCccccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHHH
Confidence            345677888899999998888644 3 33 7777888999999999999998777665432  223445666666665

>PF14669 Asp_Glu_race_2: Putative aspartate racemase

Probab=91.23  E-value=0.47  Score=30.33  Aligned_cols=67  Identities=7%  Similarity=-0.002  Sum_probs=51.2

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCC--------------ccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCcc
Q 046694           34 ITLILGYGMLGELDVAINLFEAMREDGVE--------------YYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPT   99 (118)
Q Consensus        34 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~--------------p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~   99 (118)
                      -++|..|-+.-+|.++.++++.|.+..++              +--...|.....|.+.|.+|.|..+++   +..+..+
T Consensus       136 iS~m~~Yhk~~qW~KGrkvLd~l~el~i~ft~LKGL~g~e~~asrCqivn~AaEiFL~sgsidGA~~vLr---eseWii~  212 (233)
T PF14669_consen  136 ISLMYSYHKTLQWSKGRKVLDKLHELQIHFTSLKGLTGPEKLASRCQIVNIAAEIFLKSGSIDGALWVLR---ESEWIIS  212 (233)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhccCccCccccCchhhhHHHHHHHHHHcCCchHHHHHHh---ccceeec
Confidence            46778888888999999999999764433              334678899999999999999999987   4444444


Q ss_pred             HHHH
Q 046694          100 ETHY  103 (118)
Q Consensus       100 ~~t~  103 (118)
                      ..+|
T Consensus       213 t~lW  216 (233)
T PF14669_consen  213 TPLW  216 (233)
T ss_pred             CCCC
Confidence            4433

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

Probab=91.15  E-value=5.6  Score=30.45  Aligned_cols=70  Identities=10%  Similarity=0.141  Sum_probs=36.7

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHH
Q 046694           32 SWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYA  104 (118)
Q Consensus        32 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~  104 (118)
                      .|-...+.+-.+|+...|..++++.-+.. +-+...|.+.++.-....+++.|..+|.+...  ..|+...|.
T Consensus       586 lwlM~ake~w~agdv~~ar~il~~af~~~-pnseeiwlaavKle~en~e~eraR~llakar~--~sgTeRv~m  655 (913)
T KOG0495|consen  586 LWLMYAKEKWKAGDVPAARVILDQAFEAN-PNSEEIWLAAVKLEFENDELERARDLLAKARS--ISGTERVWM  655 (913)
T ss_pred             HHHHHHHHHHhcCCcHHHHHHHHHHHHhC-CCcHHHHHHHHHHhhccccHHHHHHHHHHHhc--cCCcchhhH
Confidence            34444444455566666666665554432 11555566666666666666666666655433  344444443

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=91.11  E-value=5.8  Score=30.56  Aligned_cols=111  Identities=12%  Similarity=0.040  Sum_probs=75.9

Q ss_pred             HHHHHHHhcCCHHHHHHHhhhCCCC---CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc-cHHHHHHHHHHHhcCC
Q 046694            4 PRLDFYTRTGRIDLANKIFDRLPVK---DSASWITLILGYGMLGELDVAINLFEAMREDGVEY-YPVSHIGVLTACSLGG   79 (118)
Q Consensus         4 ~ll~~~~~~~~~~~a~~~~~~m~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~   79 (118)
                      ..-..+.+.+.-++|.....+...-   ....|...-..+...|.+++|...|..-..  +.| .+....++-..+.+.|
T Consensus       655 laa~~~~~~~~~~~a~~CL~Ea~~~~~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~--ldP~hv~s~~Ala~~lle~G  732 (799)
T KOG4162|consen  655 LAADLFLLSGNDDEARSCLLEASKIDPLSASVYYLRGLLLEVKGQLEEAKEAFLVALA--LDPDHVPSMTALAELLLELG  732 (799)
T ss_pred             HHHHHHHhcCCchHHHHHHHHHHhcchhhHHHHHHhhHHHHHHHhhHHHHHHHHHHHh--cCCCCcHHHHHHHHHHHHhC
Confidence            3445667777777777555554422   444555555566667888888888887654  345 4566777778888888


Q ss_pred             ChhhHHH--HHHHHhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           80 LVEKGKK--FFDEMQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        80 ~~~~a~~--~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      +...|.+  ++.++.+.+ +.+...|-.+=..+-+.|+.+
T Consensus       733 ~~~la~~~~~L~dalr~d-p~n~eaW~~LG~v~k~~Gd~~  771 (799)
T KOG4162|consen  733 SPRLAEKRSLLSDALRLD-PLNHEAWYYLGEVFKKLGDSK  771 (799)
T ss_pred             CcchHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHccchH
Confidence            8777777  888887754 336778888888887777754

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=91.10  E-value=2  Score=25.30  Aligned_cols=58  Identities=10%  Similarity=0.021  Sum_probs=44.7

Q ss_pred             HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHH
Q 046694           30 SASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFD   89 (118)
Q Consensus        30 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~   89 (118)
                      ......+|..+...+.+..+...++.+...+ ..+...++.++..|++... +.....++
T Consensus         7 ~~~~~~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~~~-~~ll~~l~   64 (140)
T smart00299        7 PIDVSEVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKYDP-QKEIERLD   64 (140)
T ss_pred             cCCHHHHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHHCH-HHHHHHHH
Confidence            3445678888888899999999999998877 3688899999999998643 33334444

>PF11848 DUF3368: Domain of unknown function (DUF3368); InterPro: IPR021799 This domain is functionally uncharacterised

Probab=90.82  E-value=1.1  Score=21.69  Aligned_cols=35  Identities=14%  Similarity=0.211  Sum_probs=30.3

Q ss_pred             HhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHH
Q 046694           75 CSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYL  109 (118)
Q Consensus        75 ~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~  109 (118)
                      .-+.|-++++..++++|.+.|+..+...+..+++-
T Consensus        12 Ak~~GlI~~~~~~l~~l~~~g~~is~~l~~~~L~~   46 (48)
T PF11848_consen   12 AKRRGLISEVKPLLDRLQQAGFRISPKLIEEILRR   46 (48)
T ss_pred             HHHcCChhhHHHHHHHHHHcCcccCHHHHHHHHHH
Confidence            35678888999999999999999999999887763

This domain is found in bacteria and archaea. This presumed domain is about 50 amino acids in length.

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=90.76  E-value=2.5  Score=25.71  Aligned_cols=82  Identities=13%  Similarity=0.175  Sum_probs=66.2

Q ss_pred             hHHHHHHHhcCCHHHHHHHhhhCC---------CCCHhhHHHHHHHHHhcCC-HHHHHHHHHHHHHcCCCccHHHHHHHH
Q 046694            3 EPRLDFYTRTGRIDLANKIFDRLP---------VKDSASWITLILGYGMLGE-LDVAINLFEAMREDGVEYYPVSHIGVL   72 (118)
Q Consensus         3 ~~ll~~~~~~~~~~~a~~~~~~m~---------~~~~~~~~~li~~~~~~~~-~~~a~~~~~~m~~~~~~p~~~~~~~ll   72 (118)
                      |++|.-....+++.-...+++.+.         ..+-.+|++++++.++... ---+..+|+-|++.+.+++...|..++
T Consensus        43 N~iL~hl~~~~nf~~~v~~L~~l~~l~~~~~~~~~~~ssf~~if~SlsnSsSaK~~~~~Lf~~Lk~~~~~~t~~dy~~li  122 (145)
T PF13762_consen   43 NCILNHLASYQNFSGVVSILEHLHFLNTDNIIGWLDNSSFHIIFKSLSNSSSAKLTSLTLFNFLKKNDIEFTPSDYSCLI  122 (145)
T ss_pred             HHHHHHHHHccchHHHHHHHHHHHHhhHHHHhhhcccchHHHHHHHHccChHHHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence            566666677778887777777764         2367799999999988877 677899999999988999999999999


Q ss_pred             HHHhcCCChhhH
Q 046694           73 TACSLGGLVEKG   84 (118)
Q Consensus        73 ~~~~~~~~~~~a   84 (118)
                      .++.+....+..
T Consensus       123 ~~~l~g~~~~~~  134 (145)
T PF13762_consen  123 KAALRGYFHDSL  134 (145)
T ss_pred             HHHHcCCCCcch
Confidence            998876554444

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

Probab=90.68  E-value=4.9  Score=29.02  Aligned_cols=112  Identities=11%  Similarity=-0.059  Sum_probs=62.2

Q ss_pred             HHHHHHHhcCCHHHHHHHhhhCCCCCHhhHH---HHHHHHHhcCCHHHHHHHHHHHHHcC--------------------
Q 046694            4 PRLDFYTRTGRIDLANKIFDRLPVKDSASWI---TLILGYGMLGELDVAINLFEAMREDG--------------------   60 (118)
Q Consensus         4 ~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~---~li~~~~~~~~~~~a~~~~~~m~~~~--------------------   60 (118)
                      ++-.++...|+.++|+..|++...-|+.+-.   .---.+.+.|+.+....+...+-...                    
T Consensus       237 ~lak~~~~~Gdn~~a~~~Fe~~~~~dpy~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~~~ta~~wfV~~~~l~~~K~~  316 (564)
T KOG1174|consen  237 ALGKCLYYNGDYFQAEDIFSSTLCANPDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKVKYTASHWFVHAQLLYDEKKF  316 (564)
T ss_pred             HHhhhhhhhcCchHHHHHHHHHhhCChhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhhhcchhhhhhhhhhhhhhhhH
Confidence            4567788899999999999977633222111   11112233444444444443332110                    


Q ss_pred             ----------C--Cc-cHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCC-ccHHHHHHHHHHHHHccccc
Q 046694           61 ----------V--EY-YPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVK-PTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        61 ----------~--~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~-~~~~t~~~li~~~~~~g~~~  117 (118)
                                +  .| +...|-.=-+.+...++++.|.=.|+..+.  +. -+...|.-|+++|...|++.
T Consensus       317 ~rAL~~~eK~I~~~~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~--Lap~rL~~Y~GL~hsYLA~~~~k  385 (564)
T KOG1174|consen  317 ERALNFVEKCIDSEPRNHEALILKGRLLIALERHTQAVIAFRTAQM--LAPYRLEIYRGLFHSYLAQKRFK  385 (564)
T ss_pred             HHHHHHHHHHhccCcccchHHHhccHHHHhccchHHHHHHHHHHHh--cchhhHHHHHHHHHHHHhhchHH
Confidence                      1  11 111111112334455777777777776644  34 46899999999999888764

>PF10366 Vps39_1: Vacuolar sorting protein 39 domain 1; InterPro: IPR019452 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1

Probab=90.63  E-value=2.1  Score=24.58  Aligned_cols=55  Identities=18%  Similarity=0.237  Sum_probs=37.2

Q ss_pred             hHHHHHHHhcCCHHHHHHHhhhCC----------CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 046694            3 EPRLDFYTRTGRIDLANKIFDRLP----------VKDSASWITLILGYGMLGELDVAINLFEAMRE   58 (118)
Q Consensus         3 ~~ll~~~~~~~~~~~a~~~~~~m~----------~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   58 (118)
                      ++|+.+|... +...+..++..=.          -....-|..++.-|...|..++|++++.++..
T Consensus         3 TaLlk~Yl~~-~~~~l~~llr~~N~C~~~~~e~~L~~~~~~~eL~~lY~~kg~h~~AL~ll~~l~~   67 (108)
T PF10366_consen    3 TALLKCYLET-NPSLLGPLLRLPNYCDLEEVEEVLKEHGKYQELVDLYQGKGLHRKALELLKKLAD   67 (108)
T ss_pred             HHHHHHHHHh-CHHHHHHHHccCCcCCHHHHHHHHHHcCCHHHHHHHHHccCccHHHHHHHHHHhc
Confidence            5677788777 6666655554211          01334688888888888888888888888766

Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised.

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=90.29  E-value=4.1  Score=28.90  Aligned_cols=90  Identities=18%  Similarity=0.042  Sum_probs=65.1

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHh-c
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACS-L   77 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~-~   77 (118)
                      ++.|..+|.|.+++..|++.-++..   .+|+..-----.++...|+++.|...|+++.+.  .|+-..-..-|..|. +
T Consensus       260 ~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~--~P~Nka~~~el~~l~~k  337 (397)
T KOG0543|consen  260 HLNLAACYLKLKEYKEAIESCNKVLELDPNNVKALYRRGQALLALGEYDLARDDFQKALKL--EPSNKAARAELIKLKQK  337 (397)
T ss_pred             hhHHHHHHHhhhhHHHHHHHHHHHHhcCCCchhHHHHHHHHHHhhccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHH
Confidence            4567778899999999998887654   556665555567888899999999999999874  665455555444444 4


Q ss_pred             CCCh-hhHHHHHHHHhh
Q 046694           78 GGLV-EKGKKFFDEMQA   93 (118)
Q Consensus        78 ~~~~-~~a~~~~~~m~~   93 (118)
                      .... +...++|..|..
T Consensus       338 ~~~~~~kekk~y~~mF~  354 (397)
T KOG0543|consen  338 IREYEEKEKKMYANMFA  354 (397)
T ss_pred             HHHHHHHHHHHHHHHhh
Confidence            4444 455788888843

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=90.21  E-value=3.3  Score=26.28  Aligned_cols=58  Identities=21%  Similarity=0.218  Sum_probs=42.3

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcC--CCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcC
Q 046694           38 LGYGMLGELDVAINLFEAMREDG--VEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARN   95 (118)
Q Consensus        38 ~~~~~~~~~~~a~~~~~~m~~~~--~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g   95 (118)
                      ..+...|++.+|.+.|+.+...-  -+--....-.+..++-+.|+++.|...++++.+.-
T Consensus        13 ~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~y   72 (203)
T PF13525_consen   13 LEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLY   72 (203)
T ss_dssp             HHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            34557899999999999998652  12234555677888999999999999999986643

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=90.06  E-value=5.8  Score=28.82  Aligned_cols=81  Identities=14%  Similarity=0.199  Sum_probs=38.7

Q ss_pred             HhcCCHHHHHHHhhhCCC-------CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHh-cCCCh
Q 046694           10 TRTGRIDLANKIFDRLPV-------KDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACS-LGGLV   81 (118)
Q Consensus        10 ~~~~~~~~a~~~~~~m~~-------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~-~~~~~   81 (118)
                      ...|++++|++.|++...       -....+--+.-.+.-..+|++|.+.|.++.+.. .-+..+|.=+..+|. ..++.
T Consensus       278 ~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s-~WSka~Y~Y~~a~c~~~l~~~  356 (468)
T PF10300_consen  278 RLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKES-KWSKAFYAYLAAACLLMLGRE  356 (468)
T ss_pred             HHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcc-ccHHHHHHHHHHHHHHhhccc
Confidence            345666666666664321       022223333333455566677777666665532 123333333322222 33444


Q ss_pred             -------hhHHHHHHHH
Q 046694           82 -------EKGKKFFDEM   91 (118)
Q Consensus        82 -------~~a~~~~~~m   91 (118)
                             ++|.++|.+.
T Consensus       357 ~~~~~~~~~a~~l~~~v  373 (468)
T PF10300_consen  357 EEAKEHKKEAEELFRKV  373 (468)
T ss_pred             hhhhhhHHHHHHHHHHH
Confidence                   5566666554

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.

>PF07721 TPR_4: Tetratricopeptide repeat; InterPro: IPR011717 This entry includes tetratricopeptide-like repeats not detected by the IPR001440 from INTERPRO, IPR013105 from INTERPRO and IPR011716 from INTERPRO models

Probab=89.91  E-value=0.67  Score=19.09  Aligned_cols=19  Identities=16%  Similarity=0.146  Sum_probs=12.5

Q ss_pred             HHHHHHhcCCHHHHHHHhh
Q 046694            5 RLDFYTRTGRIDLANKIFD   23 (118)
Q Consensus         5 ll~~~~~~~~~~~a~~~~~   23 (118)
                      +-..+...|++++|..+++
T Consensus         7 la~~~~~~G~~~eA~~~l~   25 (26)
T PF07721_consen    7 LARALLAQGDPDEAERLLR   25 (26)
T ss_pred             HHHHHHHcCCHHHHHHHHh
Confidence            4456666777777776665

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

>PF11846 DUF3366: Domain of unknown function (DUF3366); InterPro: IPR021797 This domain is functionally uncharacterised

Probab=89.87  E-value=3.4  Score=25.94  Aligned_cols=58  Identities=12%  Similarity=-0.006  Sum_probs=43.9

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHH-cCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhc
Q 046694           37 ILGYGMLGELDVAINLFEAMRE-DGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQAR   94 (118)
Q Consensus        37 i~~~~~~~~~~~a~~~~~~m~~-~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~   94 (118)
                      +......++.+......+...+ ....|+..+|..++..+...|+.++|.++..++...
T Consensus       115 l~~~~~~~~~~~l~~~~~~a~~~l~~~P~~~~~~~~a~~l~~~G~~~eA~~~~~~~~~l  173 (193)
T PF11846_consen  115 LLLARLPPDPEMLEAYIEWAERLLRRRPDPNVYQRYALALALLGDPEEARQWLARARRL  173 (193)
T ss_pred             HHhhcCCCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            3333355666666655555543 245899999999999999999999999999998664

This domain is found in bacteria. This presumed domain is about 200 amino acids in length.

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=89.78  E-value=0.97  Score=19.50  Aligned_cols=27  Identities=22%  Similarity=0.380  Sum_probs=16.0

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 046694           32 SWITLILGYGMLGELDVAINLFEAMRE   58 (118)
Q Consensus        32 ~~~~li~~~~~~~~~~~a~~~~~~m~~   58 (118)
                      +|..+-..|...|++++|+..|++..+
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            455555666666666666666666544

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=89.74  E-value=0.054  Score=32.18  Aligned_cols=56  Identities=20%  Similarity=0.169  Sum_probs=46.2

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHH
Q 046694           35 TLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDE   90 (118)
Q Consensus        35 ~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~   90 (118)
                      .+|..+.+.+.+..+.+.++.+...+-..+....+.++..|++.+..+...++++.
T Consensus        12 ~vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~   67 (143)
T PF00637_consen   12 EVISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKT   67 (143)
T ss_dssp             CCHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTS
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHccc
Confidence            46777888899999999999999877667899999999999999888888877773

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.

>COG2178 Predicted RNA-binding protein of the translin family [Translation, ribosomal structure and biogenesis]

Probab=89.70  E-value=3.8  Score=26.24  Aligned_cols=86  Identities=19%  Similarity=0.283  Sum_probs=56.4

Q ss_pred             HHHHhcCCHHHHHHHhhhCC------CCCHhhHHHHHH-HHHhcCC--HHHHHHHHHHHHHcCCCccH----HHHHHHHH
Q 046694            7 DFYTRTGRIDLANKIFDRLP------VKDSASWITLIL-GYGMLGE--LDVAINLFEAMREDGVEYYP----VSHIGVLT   73 (118)
Q Consensus         7 ~~~~~~~~~~~a~~~~~~m~------~~~~~~~~~li~-~~~~~~~--~~~a~~~~~~m~~~~~~p~~----~~~~~ll~   73 (118)
                      ......|++++|.+.++++.      ..-...|..+.. +++..+.  +-+|.-++.-+...+++ +.    +.+-.-|.
T Consensus        37 I~~~H~~~~eeA~~~l~~a~~~v~~Lk~~l~~~pel~~ag~~~~a~QEyvEA~~l~~~l~~~~~p-s~~EL~V~~~~Yil  115 (204)
T COG2178          37 IFLLHRGDFEEAEKKLKKASEAVEKLKRLLAGFPELYFAGFVTTALQEYVEATLLYSILKDGRLP-SPEELGVPPIAYIL  115 (204)
T ss_pred             HHHHHhccHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHhhcchHHHHHHHHHHHHHHhcCCCC-CHHHcCCCHHHHHH
Confidence            34456788999998888775      235567777776 7777764  77787777777655432 21    12222233


Q ss_pred             HHh--------------cCCChhhHHHHHHHHhh
Q 046694           74 ACS--------------LGGLVEKGKKFFDEMQA   93 (118)
Q Consensus        74 ~~~--------------~~~~~~~a~~~~~~m~~   93 (118)
                      +.+              +.|+++.|.+.++-|.+
T Consensus       116 Gl~D~vGELrR~~le~l~~~~~~~Ae~~~~~ME~  149 (204)
T COG2178         116 GLADAVGELRRHVLELLRKGSFEEAERFLKFMEK  149 (204)
T ss_pred             HHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            332              56899999998888854

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=89.59  E-value=4  Score=26.32  Aligned_cols=97  Identities=15%  Similarity=0.123  Sum_probs=70.7

Q ss_pred             HHHHHHhcCCHHHHHHHhhhCC----CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-ccHHHHHHHHHHHhcCC
Q 046694            5 RLDFYTRTGRIDLANKIFDRLP----VKDSASWITLILGYGMLGELDVAINLFEAMREDGVE-YYPVSHIGVLTACSLGG   79 (118)
Q Consensus         5 ll~~~~~~~~~~~a~~~~~~m~----~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-p~~~~~~~ll~~~~~~~   79 (118)
                      |-.+..+.|+..+|...|++-.    ..|....-.+-++-...+++.+|...++.+-+..-. -++.+.-.+-+.+...|
T Consensus        95 La~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~Ll~aR~laa~g  174 (251)
T COG4700          95 LANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGHLLFARTLAAQG  174 (251)
T ss_pred             HHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCchHHHHHHHHhcC
Confidence            4567788899999999998775    346666666667777779999999999998765311 13445566778888888


Q ss_pred             ChhhHHHHHHHHhhcCCCccHH
Q 046694           80 LVEKGKKFFDEMQARNVKPTET  101 (118)
Q Consensus        80 ~~~~a~~~~~~m~~~g~~~~~~  101 (118)
                      ..+.|+.-|+...+.--.|...
T Consensus       175 ~~a~Aesafe~a~~~ypg~~ar  196 (251)
T COG4700         175 KYADAESAFEVAISYYPGPQAR  196 (251)
T ss_pred             CchhHHHHHHHHHHhCCCHHHH
Confidence            8888888888887754444433

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=89.56  E-value=3.3  Score=25.35  Aligned_cols=61  Identities=16%  Similarity=0.088  Sum_probs=43.4

Q ss_pred             hcCCHHHHHHHhhhCC--CC---CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHh
Q 046694           11 RTGRIDLANKIFDRLP--VK---DSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACS   76 (118)
Q Consensus        11 ~~~~~~~a~~~~~~m~--~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~   76 (118)
                      ..++.+++..+++.|.  .|   ...++..++.  ...|+|.+|.++|+++.+.+..   ..|...+-++|
T Consensus        22 ~~~d~~D~e~lLdALrvLrP~~~e~d~~dg~l~--i~rg~w~eA~rvlr~l~~~~~~---~p~~kAL~A~C   87 (153)
T TIGR02561        22 RSADPYDAQAMLDALRVLRPNLKELDMFDGWLL--IARGNYDEAARILRELLSSAGA---PPYGKALLALC   87 (153)
T ss_pred             hcCCHHHHHHHHHHHHHhCCCccccchhHHHHH--HHcCCHHHHHHHHHhhhccCCC---chHHHHHHHHH
Confidence            4788999999999886  34   5556666665  6789999999999999876432   24444444444

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=89.43  E-value=1.4  Score=20.95  Aligned_cols=22  Identities=32%  Similarity=0.419  Sum_probs=11.6

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHH
Q 046694           37 ILGYGMLGELDVAINLFEAMRE   58 (118)
Q Consensus        37 i~~~~~~~~~~~a~~~~~~m~~   58 (118)
                      -.+|...|+.+.|.+++++...
T Consensus         6 A~ayie~Gd~e~Ar~lL~evl~   27 (44)
T TIGR03504         6 ARAYIEMGDLEGARELLEEVIE   27 (44)
T ss_pred             HHHHHHcCChHHHHHHHHHHHH
Confidence            3455555555555555555553

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.

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=89.38  E-value=2  Score=32.81  Aligned_cols=73  Identities=11%  Similarity=0.033  Sum_probs=58.1

Q ss_pred             HHHHHhcCCHHHHHHHhhhCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHH
Q 046694            6 LDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGK   85 (118)
Q Consensus         6 l~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~   85 (118)
                      +.+++..+++++.+++-.++++  +.-|..++.+|.+.|+.++|.+.+.+....      .   -...+|.+.|++.+|.
T Consensus       722 ~~aLa~~~kweeLekfAkskks--PIGy~PFVe~c~~~~n~~EA~KYiprv~~l------~---ekv~ay~~~~~~~eAa  790 (829)
T KOG2280|consen  722 LTALADIKKWEELEKFAKSKKS--PIGYLPFVEACLKQGNKDEAKKYIPRVGGL------Q---EKVKAYLRVGDVKEAA  790 (829)
T ss_pred             HHHHHhhhhHHHHHHHHhccCC--CCCchhHHHHHHhcccHHHHhhhhhccCCh------H---HHHHHHHHhccHHHHH
Confidence            5678899999999999887776  566899999999999999999998875421      1   4567788888888877


Q ss_pred             HHHH
Q 046694           86 KFFD   89 (118)
Q Consensus        86 ~~~~   89 (118)
                      ++--
T Consensus       791 d~A~  794 (829)
T KOG2280|consen  791 DLAA  794 (829)
T ss_pred             HHHH
Confidence            6543

>PRK11639 zinc uptake transcriptional repressor; Provisional

Probab=89.16  E-value=3.8  Score=25.44  Aligned_cols=47  Identities=17%  Similarity=0.129  Sum_probs=22.6

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCCh
Q 046694           35 TLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLV   81 (118)
Q Consensus        35 ~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~   81 (118)
                      .++..+...+.+-.|.++++++++.+..++..|.-.-|+.+.+.|-+
T Consensus        30 ~IL~~l~~~~~hlSa~eI~~~L~~~~~~is~aTVYRtL~~L~e~Glv   76 (169)
T PRK11639         30 EVLRLMSLQPGAISAYDLLDLLREAEPQAKPPTVYRALDFLLEQGFV   76 (169)
T ss_pred             HHHHHHHhcCCCCCHHHHHHHHHhhCCCCCcchHHHHHHHHHHCCCE
Confidence            33333333444445555555555555444544444444555555444

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=89.16  E-value=4.9  Score=26.78  Aligned_cols=81  Identities=16%  Similarity=0.142  Sum_probs=56.3

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHH
Q 046694           31 ASWITLILGYGMLGELDVAINLFEAMREDG--VEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVY  108 (118)
Q Consensus        31 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~--~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~  108 (118)
                      .-|+..+.. .+.|++++|.+.|+.+.+.-  -+-...+--.++-++-+.++.+.|....++..+..-.....-|.--|.
T Consensus        36 ~LY~~g~~~-L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~Ylk  114 (254)
T COG4105          36 ELYNEGLTE-LQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAYYLK  114 (254)
T ss_pred             HHHHHHHHH-HhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHHHHH
Confidence            345555544 47899999999999997542  123566677778888899999999999999866554444445555555


Q ss_pred             HHHH
Q 046694          109 LLIK  112 (118)
Q Consensus       109 ~~~~  112 (118)
                      +++.
T Consensus       115 gLs~  118 (254)
T COG4105         115 GLSY  118 (254)
T ss_pred             HHHH
Confidence            5543

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

Probab=89.12  E-value=8.6  Score=29.52  Aligned_cols=111  Identities=16%  Similarity=0.149  Sum_probs=86.7

Q ss_pred             HHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHH----HHcCCCccHHHHHHHHHHHhc
Q 046694            5 RLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAM----REDGVEYYPVSHIGVLTACSL   77 (118)
Q Consensus         5 ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m----~~~~~~p~~~~~~~ll~~~~~   77 (118)
                      |.-+|++..-++.|.+++++.+   ..+...|.+--..=-..|..+.+.++.++-    ...|++.+...|..=-..|-+
T Consensus       412 LwlAlarLetYenAkkvLNkaRe~iptd~~IWitaa~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe~~e~  491 (913)
T KOG0495|consen  412 LWLALARLETYENAKKVLNKAREIIPTDREIWITAAKLEEANGNVDMVEKIIDRGLSELQANGVEINRDQWLKEAEACED  491 (913)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHHHHhh
Confidence            4567888888889999988765   347778887777777889999999888765    457899999999888888889


Q ss_pred             CCChhhHHHHHHHHhhcCCCc--cHHHHHHHHHHHHHccc
Q 046694           78 GGLVEKGKKFFDEMQARNVKP--TETHYACMVYLLIKYNQ  115 (118)
Q Consensus        78 ~~~~~~a~~~~~~m~~~g~~~--~~~t~~~li~~~~~~g~  115 (118)
                      .|.+-.+..+.......|++-  -..||+.--+.|.+.+.
T Consensus       492 agsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~  531 (913)
T KOG0495|consen  492 AGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPA  531 (913)
T ss_pred             cCChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcch
Confidence            998888888888888877753  35677766666665543

>PF12796 Ank_2: Ankyrin repeats (3 copies); InterPro: IPR020683 This entry represents the ankyrin repeat-containing domain

Probab=88.99  E-value=1.9  Score=23.04  Aligned_cols=82  Identities=10%  Similarity=0.145  Sum_probs=46.2

Q ss_pred             HHHHhcCCHHHHHHHhhhCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHH---HHHHHHHHHhcCCChhh
Q 046694            7 DFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPV---SHIGVLTACSLGGLVEK   83 (118)
Q Consensus         7 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~---~~~~ll~~~~~~~~~~~   83 (118)
                      ...++.|+++-+..+.+.-...+.  -+..+...+..|..    ++++.+.+.|..|+..   -++++.- .+..|+.+ 
T Consensus         2 ~~A~~~~~~~~~~~ll~~~~~~~~--~~~~l~~A~~~~~~----~~~~~Ll~~g~~~~~~~~~g~t~L~~-A~~~~~~~-   73 (89)
T PF12796_consen    2 HIAAQNGNLEILKFLLEKGADINL--GNTALHYAAENGNL----EIVKLLLENGADINSQDKNGNTALHY-AAENGNLE-   73 (89)
T ss_dssp             HHHHHTTTHHHHHHHHHTTSTTTS--SSBHHHHHHHTTTH----HHHHHHHHTTTCTT-BSTTSSBHHHH-HHHTTHHH-
T ss_pred             HHHHHcCCHHHHHHHHHCcCCCCC--CCCHHHHHHHcCCH----HHHHHHHHhcccccccCCCCCCHHHH-HHHcCCHH-
Confidence            456788898888888884433333  22244445566775    4555555677666553   3333333 45556544 


Q ss_pred             HHHHHHHHhhcCCCcc
Q 046694           84 GKKFFDEMQARNVKPT   99 (118)
Q Consensus        84 a~~~~~~m~~~g~~~~   99 (118)
                         +.+.+.+.|..++
T Consensus        74 ---~~~~Ll~~g~~~~   86 (89)
T PF12796_consen   74 ---IVKLLLEHGADVN   86 (89)
T ss_dssp             ---HHHHHHHTTT-TT
T ss_pred             ---HHHHHHHcCCCCC
Confidence               5556666676665

These domains contain multiple repeats of a beta(2)-alpha(2) motif. The ankyrin repeat is one of the most common protein-protein interaction motifs in nature. Ankyrin repeats are tandemly repeated modules of about 33 amino acids. They occur in a large number of functionally diverse proteins mainly from eukaryotes. The few known examples from prokaryotes and viruses may be the result of horizontal gene transfers []. The repeat has been found in proteins of diverse function such as transcriptional initiators, cell-cycle regulators, cytoskeletal, ion transporters and signal transducers. The ankyrin fold appears to be defined by its structure rather than its function since there is no specific sequence or structure which is universally recognised by it. The conserved fold of the ankyrin repeat unit is known from several crystal and solution structures [, , , ]. Each repeat folds into a helix-loop-helix structure with a beta-hairpin/loop region projecting out from the helices at a 90o angle. The repeats stack together to form an L-shaped structure [, ].; PDB: 3AAA_C 3F6Q_A 2KBX_A 3IXE_A 3TWR_D 3TWV_A 3TWT_B 3TWQ_A 3TWS_A 3TWX_B ....

>PF02847 MA3: MA3 domain; InterPro: IPR003891 This entry represents the MI domain (after MA-3 and eIF4G), it is a protein-protein interaction module of ~130 amino acids [, , ]

Probab=88.97  E-value=2.8  Score=23.75  Aligned_cols=62  Identities=11%  Similarity=-0.019  Sum_probs=34.5

Q ss_pred             hHHHHHHHhcCCHHHHHHHhhhCCCCC--HhhHHHHHHHHHhc--CCHHHHHHHHHHHHHcCCCcc
Q 046694            3 EPRLDFYTRTGRIDLANKIFDRLPVKD--SASWITLILGYGML--GELDVAINLFEAMREDGVEYY   64 (118)
Q Consensus         3 ~~ll~~~~~~~~~~~a~~~~~~m~~~~--~~~~~~li~~~~~~--~~~~~a~~~~~~m~~~~~~p~   64 (118)
                      ..+|..|...|+.++|...+.++..|+  ......+|......  ..-+.+..++.++...+..+.
T Consensus         6 ~~~l~ey~~~~d~~ea~~~l~el~~~~~~~~vv~~~l~~~le~~~~~r~~~~~Ll~~L~~~~~~~~   71 (113)
T PF02847_consen    6 FSILMEYFSSGDVDEAVECLKELKLPSQHHEVVKVILECALEEKKSYREYYSKLLSHLCKRKLISK   71 (113)
T ss_dssp             HHHHHHHHHHT-HHHHHHHHHHTT-GGGHHHHHHHHHHHHHTSSHHHHHHHHHHHHHHHHTTSS-H
T ss_pred             HHHHHHHhcCCCHHHHHHHHHHhCCCccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHhcCCCCH
Confidence            356777888889999988888887551  11222233333222  235556666666666655433

It appears in several translation factors and is found in: One copy in plant and animal eIF4G 1 and 2 (DAP-5/NAT1/p97) Two copies in the animal programmed cell death protein 4 (PDCD4) or MA-3 that is induced during programmed cell death and inhibits neoplastic transformation Four tandem-repeated copies in a group of uncharacterised plant proteins The MI domain consists of seven alpha-helices, which pack into a globular form. The packing arrangement consists of repeating pairs of antiparallel helices packed one upon the other such that a superhelical axis is generated perpendicular to the alpha-helical axes []. The MI domain has also been named MA3 domain.; PDB: 2ION_A 2IOL_B 2NSZ_A 3EIQ_C 2HM8_A 2KZT_B 2IOS_A 2RG8_B 2ZU6_E 3EIJ_A ....

>PRK04841 transcriptional regulator MalT; Provisional

Probab=88.87  E-value=9.5  Score=29.68  Aligned_cols=110  Identities=14%  Similarity=0.065  Sum_probs=69.4

Q ss_pred             HHHhcCCHHHHHHHhhhCC----CCC----HhhHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCC-ccHHHHHHHHHH
Q 046694            8 FYTRTGRIDLANKIFDRLP----VKD----SASWITLILGYGMLGELDVAINLFEAMRED----GVE-YYPVSHIGVLTA   74 (118)
Q Consensus         8 ~~~~~~~~~~a~~~~~~m~----~~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~-p~~~~~~~ll~~   74 (118)
                      .+...|++++|...+++..    ..+    ....+.+-..+...|++++|...+.+....    |-. +-......+-..
T Consensus       461 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~  540 (903)
T PRK04841        461 VAINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEI  540 (903)
T ss_pred             HHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHH
Confidence            4457899999998887643    222    134455566677889999999999988642    211 122345556667


Q ss_pred             HhcCCChhhHHHHHHHHhh----cCCC--c-cHHHHHHHHHHHHHccccc
Q 046694           75 CSLGGLVEKGKKFFDEMQA----RNVK--P-TETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        75 ~~~~~~~~~a~~~~~~m~~----~g~~--~-~~~t~~~li~~~~~~g~~~  117 (118)
                      +...|+++.|...+++..+    .|..  + ....+..+-..+...|+++
T Consensus       541 ~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~  590 (903)
T PRK04841        541 LFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLD  590 (903)
T ss_pred             HHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHH
Confidence            7889999999999888633    2321  1 2223334444555556654

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=88.85  E-value=5.9  Score=27.27  Aligned_cols=73  Identities=11%  Similarity=0.053  Sum_probs=56.0

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHH-----hhcCCCccHHHHHH
Q 046694           32 SWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEM-----QARNVKPTETHYAC  105 (118)
Q Consensus        32 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m-----~~~g~~~~~~t~~~  105 (118)
                      +.+..-+.|..+|.+.+|.++-++...-. +.+...+-.++..++..|+-=.+.+-++++     .+.|+..+-..++.
T Consensus       281 llgkva~~yle~g~~neAi~l~qr~ltld-pL~e~~nk~lm~~la~~gD~is~~khyerya~vleaelgi~vddsieew  358 (361)
T COG3947         281 LLGKVARAYLEAGKPNEAIQLHQRALTLD-PLSEQDNKGLMASLATLGDEISAIKHYERYAEVLEAELGIDVDDSIEEW  358 (361)
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHhhcC-hhhhHHHHHHHHHHHHhccchhhhhHHHHHHHHHHHHhCCCcchhHHHH
Confidence            34455578889999999999999987642 447888889999999999977777777776     45677776665553

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=88.83  E-value=5  Score=26.41  Aligned_cols=60  Identities=17%  Similarity=0.036  Sum_probs=44.2

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHH---HHHHHHHhcCCChhhHHHHHHHHhhcCC
Q 046694           36 LILGYGMLGELDVAINLFEAMREDGVEYYPVSH---IGVLTACSLGGLVEKGKKFFDEMQARNV   96 (118)
Q Consensus        36 li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~---~~ll~~~~~~~~~~~a~~~~~~m~~~g~   96 (118)
                      .-..+.+.|++++|.+.|+++...--. +...-   -.+..++-+.++++.|...++++.+...
T Consensus        38 ~A~~~~~~g~y~~Ai~~f~~l~~~yP~-s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P  100 (243)
T PRK10866         38 TAQQKLQDGNWKQAITQLEALDNRYPF-GPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNP  100 (243)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCc
Confidence            344456789999999999999875322 22222   3456778899999999999999976544

>PRK10564 maltose regulon periplasmic protein; Provisional

Probab=88.41  E-value=1.4  Score=29.96  Aligned_cols=49  Identities=16%  Similarity=0.131  Sum_probs=39.4

Q ss_pred             CCCccHHH-HHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHH
Q 046694           60 GVEYYPVS-HIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVY  108 (118)
Q Consensus        60 ~~~p~~~~-~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~  108 (118)
                      .+.|+..+ |+..|+...+.||+++|.+++++..+.|+.--..||-.-++
T Consensus       251 ~v~~dTe~Yy~~aI~~AVk~gDi~KAL~LldEAe~LG~~~Ar~tFik~V~  300 (303)
T PRK10564        251 PMLNDTESYFNQAIKQAVKKGDVDKALKLLDEAERLGSTSARSTFISSVK  300 (303)
T ss_pred             ccCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCchHHHHHHHHhh
Confidence            34565544 66899999999999999999999999999877777665443

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=88.34  E-value=5.5  Score=29.28  Aligned_cols=68  Identities=16%  Similarity=0.067  Sum_probs=51.3

Q ss_pred             HHHHhcCCHHHHHHHhhhCCC--C---CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc-cHHHHHHHHHH
Q 046694            7 DFYTRTGRIDLANKIFDRLPV--K---DSASWITLILGYGMLGELDVAINLFEAMREDGVEY-YPVSHIGVLTA   74 (118)
Q Consensus         7 ~~~~~~~~~~~a~~~~~~m~~--~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~   74 (118)
                      .+.-+.|+.++|++.|.+|.+  |   +......++..+...+...++..++.+-.+...+. -...|+..+--
T Consensus       267 mCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpkSAti~YTaALLk  340 (539)
T PF04184_consen  267 MCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPKSATICYTAALLK  340 (539)
T ss_pred             HHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCchHHHHHHHHHHH
Confidence            344577999999999998852  3   45578899999999999999999999975443332 35677776543

The molecular function of this protein is uncertain.

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=88.33  E-value=4.7  Score=28.04  Aligned_cols=87  Identities=13%  Similarity=-0.032  Sum_probs=63.2

Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc---CCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHH
Q 046694           29 DSASWITLILGYGMLGELDVAINLFEAMRED---GVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYAC  105 (118)
Q Consensus        29 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~---~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~  105 (118)
                      ...+-...+..-....+++.+...+-+++..   -..|+...+. +++- +-.-++++++.+...-..+|+=||..++..
T Consensus        63 s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~~-~irl-llky~pq~~i~~l~npIqYGiF~dqf~~c~  140 (418)
T KOG4570|consen   63 SSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIHT-WIRL-LLKYDPQKAIYTLVNPIQYGIFPDQFTFCL  140 (418)
T ss_pred             ceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHHH-HHHH-HHccChHHHHHHHhCcchhccccchhhHHH
Confidence            4456666666666667899999988888754   2233333332 2222 233578899999999999999999999999


Q ss_pred             HHHHHHHccccc
Q 046694          106 MVYLLIKYNQKA  117 (118)
Q Consensus       106 li~~~~~~g~~~  117 (118)
                      +|+.+.+.++..
T Consensus       141 l~D~flk~~n~~  152 (418)
T KOG4570|consen  141 LMDSFLKKENYK  152 (418)
T ss_pred             HHHHHHhcccHH
Confidence            999999998753

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

Probab=88.32  E-value=6.1  Score=26.85  Aligned_cols=103  Identities=10%  Similarity=-0.072  Sum_probs=72.3

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhc---CCHHHHHHHHHHHHHcCCCc-cHHHHHHHHHH
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGML---GELDVAINLFEAMREDGVEY-YPVSHIGVLTA   74 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~---~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~   74 (118)
                      |--|-..|.+.|+++.|..-|..-.   .+|...+..+-.++...   .+-.++..+|++....  .| |+..-.-+--.
T Consensus       159 W~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~--D~~~iral~lLA~~  236 (287)
T COG4235         159 WDLLGRAYMALGRASDALLAYRNALRLAGDNPEILLGLAEALYYQAGQQMTAKARALLRQALAL--DPANIRALSLLAFA  236 (287)
T ss_pred             HHHHHHHHHHhcchhHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhc--CCccHHHHHHHHHH
Confidence            5567788999999999998887543   44655555555444444   3578899999998764  34 55566666677


Q ss_pred             HhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHH
Q 046694           75 CSLGGLVEKGKKFFDEMQARNVKPTETHYACMVY  108 (118)
Q Consensus        75 ~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~  108 (118)
                      +...|++.+|...|+.|.+..  |....+..+|.
T Consensus       237 afe~g~~~~A~~~Wq~lL~~l--p~~~~rr~~ie  268 (287)
T COG4235         237 AFEQGDYAEAAAAWQMLLDLL--PADDPRRSLIE  268 (287)
T ss_pred             HHHcccHHHHHHHHHHHHhcC--CCCCchHHHHH
Confidence            788899999999999998853  33334444443

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=88.04  E-value=4  Score=27.82  Aligned_cols=79  Identities=13%  Similarity=0.239  Sum_probs=50.1

Q ss_pred             CHhhHHHHHHHHHhc--CCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhc--CC----ChhhHHHHHHHHhhcCC---C
Q 046694           29 DSASWITLILGYGML--GELDVAINLFEAMREDGVEYYPVSHIGVLTACSL--GG----LVEKGKKFFDEMQARNV---K   97 (118)
Q Consensus        29 ~~~~~~~li~~~~~~--~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~--~~----~~~~a~~~~~~m~~~g~---~   97 (118)
                      ...++.+++..-...  ..+++.+.+++.|++.|++-+..+|.+..-....  ..    ...++..+|+.|++...   .
T Consensus        59 ~~~~la~~l~~~~~~p~~~~~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs  138 (297)
T PF13170_consen   59 HRFILAALLDISFEDPEEAFKEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTS  138 (297)
T ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccC
Confidence            444555555544431  1377888999999999999888888774433332  22    35568899999966553   3


Q ss_pred             ccHHHHHHHH
Q 046694           98 PTETHYACMV  107 (118)
Q Consensus        98 ~~~~t~~~li  107 (118)
                      ++..++..|+
T Consensus       139 ~~D~~~a~lL  148 (297)
T PF13170_consen  139 PEDYPFAALL  148 (297)
T ss_pred             ccchhHHHHH
Confidence            4444444443

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=87.91  E-value=4.3  Score=29.45  Aligned_cols=93  Identities=14%  Similarity=0.117  Sum_probs=63.1

Q ss_pred             cCCHHHHHHHhhhCCC--CCHhhHHHHH-HHHHhcCCHHHHHHHHHHHHHc--CCC-ccHHHHHHHHHHHhcCCChhhHH
Q 046694           12 TGRIDLANKIFDRLPV--KDSASWITLI-LGYGMLGELDVAINLFEAMRED--GVE-YYPVSHIGVLTACSLGGLVEKGK   85 (118)
Q Consensus        12 ~~~~~~a~~~~~~m~~--~~~~~~~~li-~~~~~~~~~~~a~~~~~~m~~~--~~~-p~~~~~~~ll~~~~~~~~~~~a~   85 (118)
                      ..+.+.|.++++++..  |+...|.-.- +.+...|++++|++.|++....  ..+ .....+--+.-.+.-.+++++|.
T Consensus       246 ~~~~~~a~~lL~~~~~~yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~  325 (468)
T PF10300_consen  246 DVPLEEAEELLEEMLKRYPNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAA  325 (468)
T ss_pred             CCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHH
Confidence            4578899999998874  7766665444 4455569999999999986532  221 22333444455567789999999


Q ss_pred             HHHHHHhh-cCCCccHHHHH
Q 046694           86 KFFDEMQA-RNVKPTETHYA  104 (118)
Q Consensus        86 ~~~~~m~~-~g~~~~~~t~~  104 (118)
                      +.|..+.+ ..+.+..++|-
T Consensus       326 ~~f~~L~~~s~WSka~Y~Y~  345 (468)
T PF10300_consen  326 EYFLRLLKESKWSKAFYAYL  345 (468)
T ss_pred             HHHHHHHhccccHHHHHHHH
Confidence            99999955 34554455444

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.

>PF02847 MA3: MA3 domain; InterPro: IPR003891 This entry represents the MI domain (after MA-3 and eIF4G), it is a protein-protein interaction module of ~130 amino acids [, , ]

Probab=87.83  E-value=3.4  Score=23.38  Aligned_cols=64  Identities=13%  Similarity=0.153  Sum_probs=36.4

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCC--ChhhHHHHHHHHhhcCCCcc
Q 046694           34 ITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGG--LVEKGKKFFDEMQARNVKPT   99 (118)
Q Consensus        34 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~--~~~~a~~~~~~m~~~g~~~~   99 (118)
                      ..++..|...++.++|...++++....  --......++..+...+  .-+..-.++..+.+.+..+.
T Consensus         6 ~~~l~ey~~~~d~~ea~~~l~el~~~~--~~~~vv~~~l~~~le~~~~~r~~~~~Ll~~L~~~~~~~~   71 (113)
T PF02847_consen    6 FSILMEYFSSGDVDEAVECLKELKLPS--QHHEVVKVILECALEEKKSYREYYSKLLSHLCKRKLISK   71 (113)
T ss_dssp             HHHHHHHHHHT-HHHHHHHHHHTT-GG--GHHHHHHHHHHHHHTSSHHHHHHHHHHHHHHHHTTSS-H
T ss_pred             HHHHHHHhcCCCHHHHHHHHHHhCCCc--cHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHhcCCCCH
Confidence            456778888899999999999974331  12233333444444432  23345566666666665443

It appears in several translation factors and is found in: One copy in plant and animal eIF4G 1 and 2 (DAP-5/NAT1/p97) Two copies in the animal programmed cell death protein 4 (PDCD4) or MA-3 that is induced during programmed cell death and inhibits neoplastic transformation Four tandem-repeated copies in a group of uncharacterised plant proteins The MI domain consists of seven alpha-helices, which pack into a globular form. The packing arrangement consists of repeating pairs of antiparallel helices packed one upon the other such that a superhelical axis is generated perpendicular to the alpha-helical axes []. The MI domain has also been named MA3 domain.; PDB: 2ION_A 2IOL_B 2NSZ_A 3EIQ_C 2HM8_A 2KZT_B 2IOS_A 2RG8_B 2ZU6_E 3EIJ_A ....

>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B

Probab=87.77  E-value=1.1  Score=22.96  Aligned_cols=28  Identities=21%  Similarity=0.301  Sum_probs=13.0

Q ss_pred             cHHHHHHHHHHHhcCCChhhHHHHHHHH
Q 046694           64 YPVSHIGVLTACSLGGLVEKGKKFFDEM   91 (118)
Q Consensus        64 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m   91 (118)
                      |...---+|.++...|++++|.++.+++
T Consensus        22 D~~NhLqvI~gllqlg~~~~a~eYi~~~   49 (62)
T PF14689_consen   22 DFLNHLQVIYGLLQLGKYEEAKEYIKEL   49 (62)
T ss_dssp             HHHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            3334444455555555555555554444

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=87.74  E-value=6.8  Score=26.68  Aligned_cols=100  Identities=13%  Similarity=0.057  Sum_probs=60.9

Q ss_pred             HHHHHHhcCCHHHHHHHhhhCCC----CCHhhHHHH-----HHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHH
Q 046694            5 RLDFYTRTGRIDLANKIFDRLPV----KDSASWITL-----ILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTAC   75 (118)
Q Consensus         5 ll~~~~~~~~~~~a~~~~~~m~~----~~~~~~~~l-----i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~   75 (118)
                      |...-.+.||.+.|...|+...+    -|-.+++.+     -..|.-++++.+|.+.|++..... .-|+...|.=.-+.
T Consensus       218 Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a~i~lg~nn~a~a~r~~~~i~~~D-~~~~~a~NnKALcl  296 (366)
T KOG2796|consen  218 LGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSAFLHLGQNNFAEAHRFFTEILRMD-PRNAVANNNKALCL  296 (366)
T ss_pred             HHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhhhheecccchHHHHHHHhhccccC-CCchhhhchHHHHH
Confidence            33444567899999999985541    232333332     234555678899999998886542 12344444433344


Q ss_pred             hcCCChhhHHHHHHHHhhcCCCccHHHHHHHH
Q 046694           76 SLGGLVEKGKKFFDEMQARNVKPTETHYACMV  107 (118)
Q Consensus        76 ~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li  107 (118)
                      .-.|+...|.+..+.|...  .|...+-++++
T Consensus       297 lYlg~l~DAiK~~e~~~~~--~P~~~l~es~~  326 (366)
T KOG2796|consen  297 LYLGKLKDALKQLEAMVQQ--DPRHYLHESVL  326 (366)
T ss_pred             HHHHHHHHHHHHHHHHhcc--CCccchhhhHH
Confidence            4568889999999998764  45555544433

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=87.69  E-value=6.1  Score=26.09  Aligned_cols=78  Identities=12%  Similarity=-0.050  Sum_probs=57.1

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc-cHHHHHHHHHHHhcCCChhhHHHHHHHHh--hcCCCccHHHHHHHHH
Q 046694           32 SWITLILGYGMLGELDVAINLFEAMREDGVEY-YPVSHIGVLTACSLGGLVEKGKKFFDEMQ--ARNVKPTETHYACMVY  108 (118)
Q Consensus        32 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~--~~g~~~~~~t~~~li~  108 (118)
                      |-+.-++.+.+.+.+.+++....+=.+.  +| |...=-.++.-+|-.|++++|..=++-..  .-...+-..+|..+|+
T Consensus         3 Tl~~t~seLL~~~sL~dai~~a~~qVka--kPtda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir   80 (273)
T COG4455           3 TLRDTISELLDDNSLQDAIGLARDQVKA--KPTDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIR   80 (273)
T ss_pred             chHHHHHHHHHhccHHHHHHHHHHHHhc--CCccccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHH
Confidence            3456678888999999999998887665  45 44555567899999999999986666552  2335566778888877


Q ss_pred             HHH
Q 046694          109 LLI  111 (118)
Q Consensus       109 ~~~  111 (118)
                      +=.
T Consensus        81 ~ea   83 (273)
T COG4455          81 CEA   83 (273)
T ss_pred             HHH
Confidence            643

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

Probab=87.56  E-value=9.5  Score=28.17  Aligned_cols=102  Identities=17%  Similarity=0.237  Sum_probs=58.2

Q ss_pred             HhcCCHHHHHHHhhhCC--CC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHH
Q 046694           10 TRTGRIDLANKIFDRLP--VK-DSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKK   86 (118)
Q Consensus        10 ~~~~~~~~a~~~~~~m~--~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~   86 (118)
                      .++..++.|..+|+.-.  -| --..|---+..=-..|++.-|-++|.+=.+  ..|+...|.+.|+-=.+-..++.|..
T Consensus       118 mknk~vNhARNv~dRAvt~lPRVdqlWyKY~ymEE~LgNi~gaRqiferW~~--w~P~eqaW~sfI~fElRykeieraR~  195 (677)
T KOG1915|consen  118 MKNKQVNHARNVWDRAVTILPRVDQLWYKYIYMEEMLGNIAGARQIFERWME--WEPDEQAWLSFIKFELRYKEIERARS  195 (677)
T ss_pred             HhhhhHhHHHHHHHHHHHhcchHHHHHHHHHHHHHHhcccHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHhhHHHHHHH
Confidence            34445555555555432  11 112233333333445666666666665443  46777777777777777777777777


Q ss_pred             HHHHHhhcCCCccHHHHHHHHHHHHHccc
Q 046694           87 FFDEMQARNVKPTETHYACMVYLLIKYNQ  115 (118)
Q Consensus        87 ~~~~m~~~g~~~~~~t~~~li~~~~~~g~  115 (118)
                      +|+++.-  +.|+..+|--..+.=-++|.
T Consensus       196 IYerfV~--~HP~v~~wikyarFE~k~g~  222 (677)
T KOG1915|consen  196 IYERFVL--VHPKVSNWIKYARFEEKHGN  222 (677)
T ss_pred             HHHHHhe--ecccHHHHHHHHHHHHhcCc
Confidence            7777754  34666666655555555543

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=87.51  E-value=3.7  Score=29.95  Aligned_cols=77  Identities=9%  Similarity=0.089  Sum_probs=55.7

Q ss_pred             CchHHHHHHHhcCCHHHHHHHhhhCCCC---CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhc
Q 046694            1 MIEPRLDFYTRTGRIDLANKIFDRLPVK---DSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSL   77 (118)
Q Consensus         1 t~~~ll~~~~~~~~~~~a~~~~~~m~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~   77 (118)
                      +|=.||+-|...+.+++.++.+++|..|   -...|..-|++=..-+++..+..+|.+......  +..-|..-|+-.-+
T Consensus        44 S~fqLiq~~~tq~s~~~~re~yeq~~~pfp~~~~aw~ly~s~ELA~~df~svE~lf~rCL~k~l--~ldLW~lYl~YIRr  121 (660)
T COG5107          44 SYFQLIQYLETQESMDAEREMYEQLSSPFPIMEHAWRLYMSGELARKDFRSVESLFGRCLKKSL--NLDLWMLYLEYIRR  121 (660)
T ss_pred             HHHHHHHHHhhhhhHHHHHHHHHHhcCCCccccHHHHHHhcchhhhhhHHHHHHHHHHHHhhhc--cHhHHHHHHHHHHh
Confidence            3567888888888888889999988866   445777788877777888888888888876644  35555555554444


Q ss_pred             CC
Q 046694           78 GG   79 (118)
Q Consensus        78 ~~   79 (118)
                      ..
T Consensus       122 ~n  123 (660)
T COG5107         122 VN  123 (660)
T ss_pred             hC
Confidence            33

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=87.43  E-value=3.6  Score=23.54  Aligned_cols=46  Identities=9%  Similarity=0.130  Sum_probs=32.3

Q ss_pred             CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHH
Q 046694           27 VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLT   73 (118)
Q Consensus        27 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~   73 (118)
                      .|.+....+.+++|-+.+++..|.++|+-.+.. +.+....|..+++
T Consensus        42 VP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K-~~~~~~~Y~~~lq   87 (108)
T PF02284_consen   42 VPEPKIIEAALRACRRVNDFALAVRILEGIKDK-CGNKKEIYPYILQ   87 (108)
T ss_dssp             ---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TTT-TTHHHHHHH
T ss_pred             CCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-ccChHHHHHHHHH
Confidence            688899999999999999999999999998754 2222336665554

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 ....

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=86.81  E-value=7.2  Score=26.02  Aligned_cols=82  Identities=16%  Similarity=0.120  Sum_probs=55.2

Q ss_pred             HhcCCHHHHHHHhhhCCCC------CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc-CCCcc--HHHHHHHHHHHhcC--
Q 046694           10 TRTGRIDLANKIFDRLPVK------DSASWITLILGYGMLGELDVAINLFEAMRED-GVEYY--PVSHIGVLTACSLG--   78 (118)
Q Consensus        10 ~~~~~~~~a~~~~~~m~~~------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~p~--~~~~~~ll~~~~~~--   78 (118)
                      .+.|++++|.+.|+.+...      ...+--.++.++-+.++.++|+..+++..+. +-.||  -+.|...+..+...  
T Consensus        45 L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~YlkgLs~~~~i~~  124 (254)
T COG4105          45 LQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAYYLKGLSYFFQIDD  124 (254)
T ss_pred             HhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhccCCc
Confidence            4679999999999988732      3445556778888999999999999999764 33443  45555555544422  


Q ss_pred             --CChhhHHHHHHHH
Q 046694           79 --GLVEKGKKFFDEM   91 (118)
Q Consensus        79 --~~~~~a~~~~~~m   91 (118)
                        ++..-+...+..|
T Consensus       125 ~~rDq~~~~~A~~~f  139 (254)
T COG4105         125 VTRDQSAARAAFAAF  139 (254)
T ss_pred             cccCHHHHHHHHHHH
Confidence              3444444444444

>cd07153 Fur_like Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators

Probab=86.50  E-value=3.1  Score=23.73  Aligned_cols=48  Identities=17%  Similarity=0.122  Sum_probs=32.2

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChh
Q 046694           35 TLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVE   82 (118)
Q Consensus        35 ~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~   82 (118)
                      .++..+...+.+-.|.++++++++.+..++..|.-..|+.+.+.|-+.
T Consensus         5 ~Il~~l~~~~~~~sa~ei~~~l~~~~~~i~~~TVYR~L~~L~~~Gli~   52 (116)
T cd07153           5 AILEVLLESDGHLTAEEIYERLRKKGPSISLATVYRTLELLEEAGLVR   52 (116)
T ss_pred             HHHHHHHhCCCCCCHHHHHHHHHhcCCCCCHHHHHHHHHHHHhCCCEE
Confidence            345555555666677777777777766667777666677777766654

Ferric uptake regulator (Fur) and related metalloregulatory proteins are iron-dependent, DNA-binding repressors and activators mainly involved in iron metabolism. A general model for Fur repression under iron-rich conditions is that activated Fur (a dimer having one Fe2+ coordinated per monomer) binds to specific DNA sequences (Fur boxes) in the promoter region of iron-responsive genes, hindering access of RNA polymerase, and repressing transcription. Positive regulation by Fur can be direct or indirect, as in the Fur repression of an anti-sense regulatory small RNA. Some members sense metal ions other than Fe2+. For example, the zinc uptake regulator (Zur) responds to Zn2+, the manganese uptake regulator (Mur) responds to Mn2+, and the nickel uptake regulator (Nur) responds to Ni2+. Other members sense signals other than metal ions.

>PF09454 Vps23_core: Vps23 core domain; InterPro: IPR017916 The Endosomal Sorting Complex Required for Transport (ESCRT) complexes form the machinery driving protein sorting from endosomes to lysosomes

Probab=86.29  E-value=3  Score=21.66  Aligned_cols=49  Identities=6%  Similarity=-0.065  Sum_probs=29.6

Q ss_pred             CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhc
Q 046694           28 KDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSL   77 (118)
Q Consensus        28 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~   77 (118)
                      |....++.++...++..-.++++..+++..++|. .+..+|.--++.+++
T Consensus         6 ~~~~l~~Ql~el~Aed~AieDtiy~L~~al~~g~-I~~d~~lK~vR~LaR   54 (65)
T PF09454_consen    6 AEDPLSNQLYELVAEDHAIEDTIYYLDRALQRGS-IDLDTFLKQVRSLAR   54 (65)
T ss_dssp             -SSHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTS-S-HHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHH
Confidence            4445566666666666666666666666666654 455666666665555

ESCRT complexes are central to receptor down-regulation, lysosome biogenesis, and budding of HIV. Yeast ESCRT-I consists of three protein subunits, VPS23, VPS28, and VPS37. In humans, ESCRT-I comprises TSG101, VPS28, and one of four potential human VPS37 homologues. The main role of ESCRT-I is to recognise ubiquitinated cargo via the UEV domain of the VPS23/TSG101 subunit. The assembly of the ESCRT-I complex is directed by the C-terminal steadiness box (SB) of VPS23, the N-terminal half of VPS28, and the C-terminal half of VPS37. The structure is primarily composed of three long, parallel helical hairpins, each corresponding to a different subunit. The additional domains and motifs extending beyond the core serve as gripping tools for ESCRT-I critical functions [, ]. This entry represents the Steadiness box domain.; PDB: 2CAZ_A 2F66_D 2F6M_A 2P22_A.

>smart00544 MA3 Domain in DAP-5, eIF4G, MA-3 and other proteins

Probab=86.03  E-value=4.5  Score=22.93  Aligned_cols=59  Identities=14%  Similarity=0.022  Sum_probs=36.9

Q ss_pred             hHHHHHHHhcCCHHHHHHHhhhCCCCC--HhhHHHHHHHHHhcC--CHHHHHHHHHHHHHcCC
Q 046694            3 EPRLDFYTRTGRIDLANKIFDRLPVKD--SASWITLILGYGMLG--ELDVAINLFEAMREDGV   61 (118)
Q Consensus         3 ~~ll~~~~~~~~~~~a~~~~~~m~~~~--~~~~~~li~~~~~~~--~~~~a~~~~~~m~~~~~   61 (118)
                      ..++..|...+++++|..-+.++..|+  ...-..+|..+...+  .-+.+..++..+.+.+.
T Consensus         6 ~~~l~ey~~~~D~~ea~~~l~~L~~~~~~~~vv~~~i~~~le~~~~~~~~~~~Ll~~L~~~~~   68 (113)
T smart00544        6 FLIIEEYLSSGDTDEAVHCLLELKLPEQHHEVVKVLLTCALEEKRTYREMYSVLLSRLCQANV   68 (113)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCccHHHHHHHHHHHHHHcCC
Confidence            356778888899999999999887652  122233333333332  45566666677665554

Highly alpha-helical. May contain repeats and/or regions similar to MIF4G domains Ponting (TIBS) "Novel eIF4G domain homologues" in press

>COG0735 Fur Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]

Probab=85.84  E-value=5.8  Score=23.97  Aligned_cols=65  Identities=14%  Similarity=0.161  Sum_probs=38.2

Q ss_pred             HHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHcccc
Q 046694           51 NLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQK  116 (118)
Q Consensus        51 ~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~  116 (118)
                      ++.+.+++.|++++..= ..+++.+.+.++.-.|.++++++.+.+...+..|.=.-++.+...|-+
T Consensus         7 ~~~~~lk~~glr~T~qR-~~vl~~L~~~~~~~sAeei~~~l~~~~p~islaTVYr~L~~l~e~Glv   71 (145)
T COG0735           7 DAIERLKEAGLRLTPQR-LAVLELLLEADGHLSAEELYEELREEGPGISLATVYRTLKLLEEAGLV   71 (145)
T ss_pred             HHHHHHHHcCCCcCHHH-HHHHHHHHhcCCCCCHHHHHHHHHHhCCCCCHhHHHHHHHHHHHCCCE
Confidence            34445566666654322 234555555566667777777777766666666655566666666543

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=85.77  E-value=1.2  Score=19.74  Aligned_cols=23  Identities=22%  Similarity=0.276  Sum_probs=15.0

Q ss_pred             CCHhhHHHHHHHHHhcCCHHHHH
Q 046694           28 KDSASWITLILGYGMLGELDVAI   50 (118)
Q Consensus        28 ~~~~~~~~li~~~~~~~~~~~a~   50 (118)
                      .|...|+.+-..|...|++++|.
T Consensus        11 ~n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen   11 NNAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             CCHHHHHHHHHHHHHCcCHHhhc
Confidence            36666666666666667666664

>COG0735 Fur Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]

Probab=85.65  E-value=5.4  Score=24.10  Aligned_cols=66  Identities=17%  Similarity=0.097  Sum_probs=46.2

Q ss_pred             HHHHHhhhCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChh
Q 046694           17 LANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVE   82 (118)
Q Consensus        17 ~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~   82 (118)
                      ++...+.+-.-+-...=..++..+...+.+-.|.++++++++.+...+..|.=..|+.+...|-+.
T Consensus         7 ~~~~~lk~~glr~T~qR~~vl~~L~~~~~~~sAeei~~~l~~~~p~islaTVYr~L~~l~e~Glv~   72 (145)
T COG0735           7 DAIERLKEAGLRLTPQRLAVLELLLEADGHLSAEELYEELREEGPGISLATVYRTLKLLEEAGLVH   72 (145)
T ss_pred             HHHHHHHHcCCCcCHHHHHHHHHHHhcCCCCCHHHHHHHHHHhCCCCCHhHHHHHHHHHHHCCCEE
Confidence            344444443323333445677888888888999999999999888887777777777777776553

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=85.63  E-value=8.7  Score=25.80  Aligned_cols=85  Identities=14%  Similarity=0.069  Sum_probs=62.2

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCC--CccHHHHHHHHHHHhcCCChhhHHHHHHHHhh-cCCCcc-HHHHHHHH
Q 046694           32 SWITLILGYGMLGELDVAINLFEAMREDGV--EYYPVSHIGVLTACSLGGLVEKGKKFFDEMQA-RNVKPT-ETHYACMV  107 (118)
Q Consensus        32 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~--~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~-~g~~~~-~~t~~~li  107 (118)
                      .|+.-+..+ +.|++..|...|....+..-  ......+-.|-.++...|+.+.|..+|..+.+ .+-.|- +...--|-
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 LYNAALDLY-KSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLG  222 (262)
T ss_pred             HHHHHHHHH-HcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHH
Confidence            588888766 67889999999999987632  12345666789999999999999999999944 443443 35666666


Q ss_pred             HHHHHccccc
Q 046694          108 YLLIKYNQKA  117 (118)
Q Consensus       108 ~~~~~~g~~~  117 (118)
                      .+..+.|+.+
T Consensus       223 ~~~~~l~~~d  232 (262)
T COG1729         223 VSLGRLGNTD  232 (262)
T ss_pred             HHHHHhcCHH
Confidence            6666666543

>PF09454 Vps23_core: Vps23 core domain; InterPro: IPR017916 The Endosomal Sorting Complex Required for Transport (ESCRT) complexes form the machinery driving protein sorting from endosomes to lysosomes

Probab=85.55  E-value=3.6  Score=21.35  Aligned_cols=52  Identities=12%  Similarity=-0.016  Sum_probs=43.1

Q ss_pred             CCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHc
Q 046694           61 VEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKY  113 (118)
Q Consensus        61 ~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~  113 (118)
                      +.|+...++-+++..++-.-++.+...+++..+.|. .+..+|.--++.++|.
T Consensus         4 v~~~~~l~~Ql~el~Aed~AieDtiy~L~~al~~g~-I~~d~~lK~vR~LaRe   55 (65)
T PF09454_consen    4 VVAEDPLSNQLYELVAEDHAIEDTIYYLDRALQRGS-IDLDTFLKQVRSLARE   55 (65)
T ss_dssp             EE-SSHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTS-S-HHHHHHHHHHHHHH
T ss_pred             cccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHH
Confidence            457788899999999999999999999999999886 4788888888877764

ESCRT complexes are central to receptor down-regulation, lysosome biogenesis, and budding of HIV. Yeast ESCRT-I consists of three protein subunits, VPS23, VPS28, and VPS37. In humans, ESCRT-I comprises TSG101, VPS28, and one of four potential human VPS37 homologues. The main role of ESCRT-I is to recognise ubiquitinated cargo via the UEV domain of the VPS23/TSG101 subunit. The assembly of the ESCRT-I complex is directed by the C-terminal steadiness box (SB) of VPS23, the N-terminal half of VPS28, and the C-terminal half of VPS37. The structure is primarily composed of three long, parallel helical hairpins, each corresponding to a different subunit. The additional domains and motifs extending beyond the core serve as gripping tools for ESCRT-I critical functions [, ]. This entry represents the Steadiness box domain.; PDB: 2CAZ_A 2F66_D 2F6M_A 2P22_A.

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=85.55  E-value=1.4  Score=18.54  Aligned_cols=21  Identities=33%  Similarity=0.498  Sum_probs=12.9

Q ss_pred             HHHHhcCCHHHHHHHHHHHHH
Q 046694           38 LGYGMLGELDVAINLFEAMRE   58 (118)
Q Consensus        38 ~~~~~~~~~~~a~~~~~~m~~   58 (118)
                      ..+.+.|++++|.+.|+++.+
T Consensus         8 ~~~~~~g~~~~A~~~~~~~~~   28 (33)
T PF13174_consen    8 RCYYKLGDYDEAIEYFQRLIK   28 (33)
T ss_dssp             HHHHHHCHHHHHHHHHHHHHH
T ss_pred             HHHHHccCHHHHHHHHHHHHH
Confidence            344556666666666666654

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

Probab=85.46  E-value=7.5  Score=26.59  Aligned_cols=69  Identities=22%  Similarity=0.179  Sum_probs=54.9

Q ss_pred             HHHHHhcCCHHHHHHHhhhCCC---CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHh
Q 046694            6 LDFYTRTGRIDLANKIFDRLPV---KDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACS   76 (118)
Q Consensus         6 l~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~   76 (118)
                      -.+|++.|.++.|++=.+.-..   .-..+|..|=.+|...|++++|.+.|++-.+  +.|+-.+|-.=|+..-
T Consensus       122 AAAy~~Lg~~~~AVkDce~Al~iDp~yskay~RLG~A~~~~gk~~~A~~aykKaLe--ldP~Ne~~K~nL~~Ae  193 (304)
T KOG0553|consen  122 AAAYSKLGEYEDAVKDCESALSIDPHYSKAYGRLGLAYLALGKYEEAIEAYKKALE--LDPDNESYKSNLKIAE  193 (304)
T ss_pred             HHHHHHhcchHHHHHHHHHHHhcChHHHHHHHHHHHHHHccCcHHHHHHHHHhhhc--cCCCcHHHHHHHHHHH
Confidence            4688999999999887775542   3556899999999999999999999998665  5787777777666654

>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=85.35  E-value=12  Score=27.13  Aligned_cols=79  Identities=24%  Similarity=0.230  Sum_probs=60.4

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCCh
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLV   81 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~   81 (118)
                      |..|-....+.|+++-|++.|.+..     -|..++-.|.-.|+.+...++-+.....|-      +|....++.-.|++
T Consensus       350 W~~Lg~~AL~~g~~~lAe~c~~k~~-----d~~~L~lLy~~~g~~~~L~kl~~~a~~~~~------~n~af~~~~~lgd~  418 (443)
T PF04053_consen  350 WKQLGDEALRQGNIELAEECYQKAK-----DFSGLLLLYSSTGDREKLSKLAKIAEERGD------INIAFQAALLLGDV  418 (443)
T ss_dssp             HHHHHHHHHHTTBHHHHHHHHHHCT------HHHHHHHHHHCT-HHHHHHHHHHHHHTT-------HHHHHHHHHHHT-H
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHhhc-----CccccHHHHHHhCCHHHHHHHHHHHHHccC------HHHHHHHHHHcCCH
Confidence            7788889999999999999998776     377788888889999888888877776552      56666667777888


Q ss_pred             hhHHHHHHHH
Q 046694           82 EKGKKFFDEM   91 (118)
Q Consensus        82 ~~a~~~~~~m   91 (118)
                      ++..+++.+-
T Consensus       419 ~~cv~lL~~~  428 (443)
T PF04053_consen  419 EECVDLLIET  428 (443)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHHHc
Confidence            8887776553

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.

>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B

Probab=85.14  E-value=3.6  Score=20.99  Aligned_cols=45  Identities=18%  Similarity=0.338  Sum_probs=33.2

Q ss_pred             CHHHHHHHhhhCC--CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 046694           14 RIDLANKIFDRLP--VKDSASWITLILGYGMLGELDVAINLFEAMRE   58 (118)
Q Consensus        14 ~~~~a~~~~~~m~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   58 (118)
                      .++.+..+.+.++  ..|-.---.+|.|+...|++++|.+..+++.+
T Consensus         5 ~~~~~~~~~~~lR~~RHD~~NhLqvI~gllqlg~~~~a~eYi~~~~~   51 (62)
T PF14689_consen    5 QLEELEELIDSLRAQRHDFLNHLQVIYGLLQLGKYEEAKEYIKELSK   51 (62)
T ss_dssp             -HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            4555666666665  33666666899999999999999999999865

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=85.09  E-value=2.9  Score=19.87  Aligned_cols=25  Identities=16%  Similarity=0.219  Sum_probs=17.3

Q ss_pred             HHHHHhcCCChhhHHHHHHHHhhcC
Q 046694           71 VLTACSLGGLVEKGKKFFDEMQARN   95 (118)
Q Consensus        71 ll~~~~~~~~~~~a~~~~~~m~~~g   95 (118)
                      +-++|.+.|+.+.|.+++++....|
T Consensus         5 LA~ayie~Gd~e~Ar~lL~evl~~~   29 (44)
T TIGR03504         5 LARAYIEMGDLEGARELLEEVIEEG   29 (44)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHHcC
Confidence            4566777777777777777776544

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.

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=84.82  E-value=5.3  Score=22.67  Aligned_cols=46  Identities=11%  Similarity=0.143  Sum_probs=35.7

Q ss_pred             CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHH
Q 046694           27 VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLT   73 (118)
Q Consensus        27 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~   73 (118)
                      .|+...-.+.+++|-+.+++..|.++|+-.+.. +..+...|..++.
T Consensus        39 VP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K-~~~~~~~y~~~lq   84 (103)
T cd00923          39 VPEPKVIEAALRACRRVNDFALAVRILEAIKDK-CGAHKEIYPYILQ   84 (103)
T ss_pred             CCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-ccCchhhHHHHHH
Confidence            678889999999999999999999999988743 2224446665554

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.

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

Probab=84.57  E-value=13  Score=26.98  Aligned_cols=48  Identities=15%  Similarity=-0.011  Sum_probs=31.7

Q ss_pred             HHhcCCHHHHHHHhhhCC--CC-CHhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 046694            9 YTRTGRIDLANKIFDRLP--VK-DSASWITLILGYGMLGELDVAINLFEAM   56 (118)
Q Consensus         9 ~~~~~~~~~a~~~~~~m~--~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m   56 (118)
                      +...++.++|.--|..-.  .| +...|.-++..|...|.+.+|.-+-++.
T Consensus       344 L~~~~R~~~A~IaFR~Aq~Lap~rL~~Y~GL~hsYLA~~~~kEA~~~An~~  394 (564)
T KOG1174|consen  344 LIALERHTQAVIAFRTAQMLAPYRLEIYRGLFHSYLAQKRFKEANALANWT  394 (564)
T ss_pred             HHhccchHHHHHHHHHHHhcchhhHHHHHHHHHHHHhhchHHHHHHHHHHH
Confidence            345567777777776432  43 7777888888888888777766555443

>cd07153 Fur_like Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators

Probab=84.53  E-value=3.3  Score=23.63  Aligned_cols=9  Identities=0%  Similarity=0.608  Sum_probs=3.3

Q ss_pred             HHHHHHHHh
Q 046694           84 GKKFFDEMQ   92 (118)
Q Consensus        84 a~~~~~~m~   92 (118)
                      |.++++.+.
T Consensus        19 a~ei~~~l~   27 (116)
T cd07153          19 AEEIYERLR   27 (116)
T ss_pred             HHHHHHHHH
Confidence            333333333

Ferric uptake regulator (Fur) and related metalloregulatory proteins are iron-dependent, DNA-binding repressors and activators mainly involved in iron metabolism. A general model for Fur repression under iron-rich conditions is that activated Fur (a dimer having one Fe2+ coordinated per monomer) binds to specific DNA sequences (Fur boxes) in the promoter region of iron-responsive genes, hindering access of RNA polymerase, and repressing transcription. Positive regulation by Fur can be direct or indirect, as in the Fur repression of an anti-sense regulatory small RNA. Some members sense metal ions other than Fe2+. For example, the zinc uptake regulator (Zur) responds to Zn2+, the manganese uptake regulator (Mur) responds to Mn2+, and the nickel uptake regulator (Nur) responds to Ni2+. Other members sense signals other than metal ions.

>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=84.52  E-value=2.3  Score=18.17  Aligned_cols=26  Identities=27%  Similarity=0.404  Sum_probs=15.2

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHH
Q 046694           32 SWITLILGYGMLGELDVAINLFEAMR   57 (118)
Q Consensus        32 ~~~~li~~~~~~~~~~~a~~~~~~m~   57 (118)
                      +|..+-..|...|++++|.+.|++..
T Consensus         3 ~~~~lg~~y~~~~~~~~A~~~~~~a~   28 (34)
T PF13181_consen    3 AYYNLGKIYEQLGDYEEALEYFEKAL   28 (34)
T ss_dssp             HHHHHHHHHHHTTSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            34445555666666666666666654

...

>PF11846 DUF3366: Domain of unknown function (DUF3366); InterPro: IPR021797 This domain is functionally uncharacterised

Probab=84.49  E-value=6  Score=24.82  Aligned_cols=33  Identities=18%  Similarity=0.242  Sum_probs=30.5

Q ss_pred             CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 046694           27 VKDSASWITLILGYGMLGELDVAINLFEAMRED   59 (118)
Q Consensus        27 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~   59 (118)
                      .|+..+|..++..+...|+.++|.+..+++..-
T Consensus       141 ~P~~~~~~~~a~~l~~~G~~~eA~~~~~~~~~l  173 (193)
T PF11846_consen  141 RPDPNVYQRYALALALLGDPEEARQWLARARRL  173 (193)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            689999999999999999999999999998764

This domain is found in bacteria. This presumed domain is about 200 amino acids in length.

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

Probab=84.38  E-value=17  Score=27.98  Aligned_cols=45  Identities=13%  Similarity=0.149  Sum_probs=26.6

Q ss_pred             HHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHH
Q 046694           66 VSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIK  112 (118)
Q Consensus        66 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~  112 (118)
                      .-|+.|.+-|.+.|.+|+|..+|++-...  ..+..-|+.+.++|..
T Consensus       249 ~Lw~SLAdYYIr~g~~ekarDvyeeai~~--v~tvrDFt~ifd~Ya~  293 (835)
T KOG2047|consen  249 FLWCSLADYYIRSGLFEKARDVYEEAIQT--VMTVRDFTQIFDAYAQ  293 (835)
T ss_pred             HHHHHHHHHHHHhhhhHHHHHHHHHHHHh--heehhhHHHHHHHHHH
Confidence            44666777777777777777777765442  2234445555555543

>PRK11639 zinc uptake transcriptional repressor; Provisional

Probab=84.26  E-value=6.8  Score=24.30  Aligned_cols=62  Identities=13%  Similarity=0.073  Sum_probs=43.7

Q ss_pred             HHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHcccc
Q 046694           54 EAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQK  116 (118)
Q Consensus        54 ~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~  116 (118)
                      +.+++.|++++..=- .+++.+...+..-.|.++++.+.+.+..++..|.---|+.+.+.|-+
T Consensus        15 ~~L~~~GlR~T~qR~-~IL~~l~~~~~hlSa~eI~~~L~~~~~~is~aTVYRtL~~L~e~Glv   76 (169)
T PRK11639         15 KLCAQRNVRLTPQRL-EVLRLMSLQPGAISAYDLLDLLREAEPQAKPPTVYRALDFLLEQGFV   76 (169)
T ss_pred             HHHHHcCCCCCHHHH-HHHHHHHhcCCCCCHHHHHHHHHhhCCCCCcchHHHHHHHHHHCCCE
Confidence            335677877665443 44555555566678999999998888888877777777777777754

>PF11663 Toxin_YhaV: Toxin with endonuclease activity YhaV; InterPro: IPR021679 YhaV causes reversible bacteriostasis and is part of a toxin-antitoxin system in Escherichia coli along with PrlF

Probab=84.11  E-value=1.6  Score=26.23  Aligned_cols=32  Identities=16%  Similarity=0.208  Sum_probs=23.4

Q ss_pred             cCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHH
Q 046694           77 LGGLVEKGKKFFDEMQARNVKPTETHYACMVYLL  110 (118)
Q Consensus        77 ~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~  110 (118)
                      +-|.-..|.++|++|.+.|-+||  .|+.|+...
T Consensus       107 ~ygsk~DaY~VF~kML~~G~pPd--dW~~Ll~~a  138 (140)
T PF11663_consen  107 AYGSKTDAYAVFRKMLERGNPPD--DWDALLKEA  138 (140)
T ss_pred             hhccCCcHHHHHHHHHhCCCCCc--cHHHHHHHh
Confidence            44566667899999999988876  477776654

The toxicity of YhaV is counteracted by PrlF by the formation of a tight complex which binds to the promoter of the prlF-yhaV operon. In vitro, YhaV also has endonuclease activity [].

>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=83.74  E-value=9.3  Score=24.62  Aligned_cols=70  Identities=9%  Similarity=-0.047  Sum_probs=47.4

Q ss_pred             HHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhh---cCCCccHHHHHHHHHHHHHccccc
Q 046694           47 DVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQA---RNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        47 ~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~---~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      ++|.+.|-.+...+.--++..-..+-.-|. ..+.+++..++-...+   .+-.+|+..+.+|...|.+.|+.+
T Consensus       123 ~~A~~~fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e  195 (203)
T PF11207_consen  123 QEALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYE  195 (203)
T ss_pred             HHHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchh
Confidence            567777777776665444444444444444 6788888888877633   233678888888888888887765

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=83.52  E-value=16  Score=28.34  Aligned_cols=84  Identities=13%  Similarity=-0.005  Sum_probs=67.8

Q ss_pred             HHhcCCHHHHHHHhhhCC--CC-CHhhHHHHHHHHHhcCCHHHHHH--HHHHHHHcCCCccHHHHHHHHHHHhcCCChhh
Q 046694            9 YTRTGRIDLANKIFDRLP--VK-DSASWITLILGYGMLGELDVAIN--LFEAMREDGVEYYPVSHIGVLTACSLGGLVEK   83 (118)
Q Consensus         9 ~~~~~~~~~a~~~~~~m~--~~-~~~~~~~li~~~~~~~~~~~a~~--~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~   83 (118)
                      +-..|..++|...|..-.  .| ++.+-+++-..+.+.|+...|..  ++.++.+.+ +-+...|-.+-..+-+.|+.+.
T Consensus       694 ~~~~~~~~EA~~af~~Al~ldP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~d-p~n~eaW~~LG~v~k~~Gd~~~  772 (799)
T KOG4162|consen  694 LEVKGQLEEAKEAFLVALALDPDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLD-PLNHEAWYYLGEVFKKLGDSKQ  772 (799)
T ss_pred             HHHHHhhHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHccchHH
Confidence            344577788877776443  34 77788899999999999888888  999888754 3378999999999999999999


Q ss_pred             HHHHHHHHhh
Q 046694           84 GKKFFDEMQA   93 (118)
Q Consensus        84 a~~~~~~m~~   93 (118)
                      |.+.|..-..
T Consensus       773 Aaecf~aa~q  782 (799)
T KOG4162|consen  773 AAECFQAALQ  782 (799)
T ss_pred             HHHHHHHHHh
Confidence            9999988744

>PF01475 FUR: Ferric uptake regulator family; InterPro: IPR002481 The Ferric uptake regulator (FUR) family includes metal ion uptake regulator proteins

Probab=83.32  E-value=3.7  Score=23.69  Aligned_cols=44  Identities=14%  Similarity=0.103  Sum_probs=18.7

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCC
Q 046694           36 LILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGG   79 (118)
Q Consensus        36 li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~   79 (118)
                      ++......+.+-.|.++++.|++.+..++..|.=.-|+.+.+.|
T Consensus        13 Il~~l~~~~~~~ta~ei~~~l~~~~~~is~~TVYR~L~~L~e~G   56 (120)
T PF01475_consen   13 ILELLKESPEHLTAEEIYDKLRKKGPRISLATVYRTLDLLEEAG   56 (120)
T ss_dssp             HHHHHHHHSSSEEHHHHHHHHHHTTTT--HHHHHHHHHHHHHTT
T ss_pred             HHHHHHcCCCCCCHHHHHHHhhhccCCcCHHHHHHHHHHHHHCC
Confidence            33444444444445555555554444444444433344444433

These are responsible for controlling the intracellular concentration of iron in many bacteria. Although iron is essential for most organisms, high concentrations can be toxic because of the formation of hydroxyl radicals []. FURs can also control zinc homeostasis [] and is the subject of research on the pathogenesis of mycobacteria.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1MZB_A 2RGV_B 2FE3_B 3F8N_B 3EYY_B 2W57_A 2FU4_A 2O03_A 3MWM_B 2XIG_B ....

>PF11817 Foie-gras_1: Foie gras liver health family 1; InterPro: IPR021773 Mutating the gene foie gras in zebrafish has been shown to affect development; the mutants develop large, lipid-filled hepatocytes in the liver, resembling those in individuals with fatty liver disease []

Probab=82.70  E-value=11  Score=24.77  Aligned_cols=52  Identities=23%  Similarity=0.208  Sum_probs=24.8

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHH----HcCC-CccHHHHHHHHHHHhcCCChhhHHHH
Q 046694           36 LILGYGMLGELDVAINLFEAMR----EDGV-EYYPVSHIGVLTACSLGGLVEKGKKF   87 (118)
Q Consensus        36 li~~~~~~~~~~~a~~~~~~m~----~~~~-~p~~~~~~~ll~~~~~~~~~~~a~~~   87 (118)
                      +-..|.+.|++++|.++|+.+.    ++|- .+...+...+..++.+.|+.+....+
T Consensus       184 ~A~ey~~~g~~~~A~~~l~~~~~~yr~egW~~l~~~~l~~l~~Ca~~~~~~~~~l~~  240 (247)
T PF11817_consen  184 MAEEYFRLGDYDKALKLLEPAASSYRREGWWSLLTEVLWRLLECAKRLGDVEDYLTT  240 (247)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHhCCHHHHHHH
Confidence            3345555555555555555552    2232 23344444445555555555544443

Foie-gras protein is long and has several well-defined domains though none of them has a known function. We have annotated this one as the first []. THe C terminus of this region contains TPR repeats.

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=82.57  E-value=9.2  Score=26.37  Aligned_cols=64  Identities=19%  Similarity=0.173  Sum_probs=50.3

Q ss_pred             HHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHH-----HcCCCccHHHH
Q 046694            5 RLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMR-----EDGVEYYPVSH   68 (118)
Q Consensus         5 ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~-----~~~~~p~~~~~   68 (118)
                      .-..|..+|.+.+|..+.+...   +-+...|-.+|..++..|+--.|.+-++++.     +-|+..+-..+
T Consensus       285 va~~yle~g~~neAi~l~qr~ltldpL~e~~nk~lm~~la~~gD~is~~khyerya~vleaelgi~vddsie  356 (361)
T COG3947         285 VARAYLEAGKPNEAIQLHQRALTLDPLSEQDNKGLMASLATLGDEISAIKHYERYAEVLEAELGIDVDDSIE  356 (361)
T ss_pred             HHHHHHHcCChHHHHHHHHHHhhcChhhhHHHHHHHHHHHHhccchhhhhHHHHHHHHHHHHhCCCcchhHH
Confidence            3457889999999999998776   3377789999999999999888888888874     34776665444

>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=81.82  E-value=6.4  Score=21.37  Aligned_cols=46  Identities=13%  Similarity=-0.086  Sum_probs=33.5

Q ss_pred             hcCCHHHHHHHHHHHHHcCCCcc--HHHHHHHHHHHhcCCChhhHHHH
Q 046694           42 MLGELDVAINLFEAMREDGVEYY--PVSHIGVLTACSLGGLVEKGKKF   87 (118)
Q Consensus        42 ~~~~~~~a~~~~~~m~~~~~~p~--~~~~~~ll~~~~~~~~~~~a~~~   87 (118)
                      ..+.-++|+..|....+.-..|.  -.++..++.+++..|..+++.++
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            56778888888888866543332  36777888889888888776654

Rapsyn is a peripheral membrane protein that is selectively concentrated at the neuromuscular junction and is essential for the formation of synaptic acetylcholine receptor aggregates. Acetylcholine receptors fail to aggregate beneath nerve terminals in mice where rapsyn has been knocked out. The N-terminal six amino acids of rapsyn are its myristoylation site, and myristoylation is necessary for the targeting of the protein to the membrane []. ; GO: 0008270 zinc ion binding, 0033130 acetylcholine receptor binding, 0007268 synaptic transmission, 0005856 cytoskeleton, 0030054 cell junction, 0045211 postsynaptic membrane

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=81.76  E-value=3.1  Score=17.62  Aligned_cols=24  Identities=33%  Similarity=0.355  Sum_probs=11.9

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHH
Q 046694           34 ITLILGYGMLGELDVAINLFEAMR   57 (118)
Q Consensus        34 ~~li~~~~~~~~~~~a~~~~~~m~   57 (118)
                      ..+-..+...|++++|.+.|++..
T Consensus         5 ~~lg~~~~~~~~~~~A~~~~~~al   28 (34)
T PF07719_consen    5 YYLGQAYYQLGNYEEAIEYFEKAL   28 (34)
T ss_dssp             HHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHH
Confidence            334444555555555555555544

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 ....

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=81.65  E-value=24  Score=27.85  Aligned_cols=104  Identities=12%  Similarity=0.144  Sum_probs=48.9

Q ss_pred             HHHHHhcCCHHHHHHHhhhCCCCCHhhHHHHHHHH----HhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCCh
Q 046694            6 LDFYTRTGRIDLANKIFDRLPVKDSASWITLILGY----GMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLV   81 (118)
Q Consensus         6 l~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~----~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~   81 (118)
                      |....+...++-|+.+-..-..+ ..+-..++..|    -+.|++++|..-|-+-... ++|+     -++.-|.++..+
T Consensus       341 L~iL~kK~ly~~Ai~LAk~~~~d-~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~s-----~Vi~kfLdaq~I  413 (933)
T KOG2114|consen  341 LDILFKKNLYKVAINLAKSQHLD-EDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEPS-----EVIKKFLDAQRI  413 (933)
T ss_pred             HHHHHHhhhHHHHHHHHHhcCCC-HHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CChH-----HHHHHhcCHHHH
Confidence            33444444555555554433322 12222222222    2346666666666554322 2222     123344444555


Q ss_pred             hhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           82 EKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      .+-..+++.+.+.|+. +..+-+.|+.+|.+.++.+
T Consensus       414 knLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~  448 (933)
T KOG2114|consen  414 KNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVE  448 (933)
T ss_pred             HHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchH
Confidence            5555566666665554 4444555666666665543

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

Probab=81.58  E-value=22  Score=27.37  Aligned_cols=96  Identities=15%  Similarity=0.096  Sum_probs=60.4

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCCCCCHh-------hHHHHHHHHHhcCCHHHHHHHHHHHHHc----------CCC-c
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLPVKDSA-------SWITLILGYGMLGELDVAINLFEAMRED----------GVE-Y   63 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~-------~~~~li~~~~~~~~~~~a~~~~~~m~~~----------~~~-p   63 (118)
                      |..+-..|-..|+++.|+.+|++-..-+-.       +|-..-..=.++.+++.|+++.+.....          |-. +
T Consensus       390 w~~faklYe~~~~l~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pv  469 (835)
T KOG2047|consen  390 WVEFAKLYENNGDLDDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPV  469 (835)
T ss_pred             HHHHHHHHHhcCcHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcH
Confidence            566778888999999999999987643322       3333333344455677777777665321          111 1


Q ss_pred             c------HHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCC
Q 046694           64 Y------PVSHIGVLTACSLGGLVEKGKKFFDEMQARNVK   97 (118)
Q Consensus        64 ~------~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~   97 (118)
                      .      ...|+-.++.--..|-++....+|+.+.+..+.
T Consensus       470 Q~rlhrSlkiWs~y~DleEs~gtfestk~vYdriidLria  509 (835)
T KOG2047|consen  470 QARLHRSLKIWSMYADLEESLGTFESTKAVYDRIIDLRIA  509 (835)
T ss_pred             HHHHHHhHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhcC
Confidence            1      233444455555667888888888888776654

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=81.53  E-value=23  Score=27.93  Aligned_cols=75  Identities=15%  Similarity=0.190  Sum_probs=50.7

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHH----hhcCCCccHHHHHHHHH
Q 046694           33 WITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEM----QARNVKPTETHYACMVY  108 (118)
Q Consensus        33 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m----~~~g~~~~~~t~~~li~  108 (118)
                      +--+|..+.+..+++.+..+.+..-+.    ++.-|-.+|+.+++.+.++...+...+.    ......|...    +++
T Consensus       708 ~~dl~~~~~q~~d~E~~it~~~~~g~~----~p~l~~~~L~yF~~~~~i~~~~~~v~~vl~~I~~~~~ippl~----VL~  779 (933)
T KOG2114|consen  708 GQDLMLYFQQISDPETVITLCERLGKE----DPSLWLHALKYFVSEESIEDCYEIVYKVLEAIEMQERIPPLH----VLQ  779 (933)
T ss_pred             hHHHHHHHHHhhChHHHHHHHHHhCcc----ChHHHHHHHHHHhhhcchhhHHHHHHHHHHHHHhcccCCHHH----HHH
Confidence            445677778888888888888776544    7888999999999999777666555544    3344444443    455


Q ss_pred             HHHHccc
Q 046694          109 LLIKYNQ  115 (118)
Q Consensus       109 ~~~~~g~  115 (118)
                      .++|++.
T Consensus       780 ~Lakn~~  786 (933)
T KOG2114|consen  780 ILAKNGT  786 (933)
T ss_pred             HHhcCCc
Confidence            5555543

>PRK09462 fur ferric uptake regulator; Provisional

Probab=81.48  E-value=9.3  Score=23.00  Aligned_cols=34  Identities=0%  Similarity=-0.089  Sum_probs=14.8

Q ss_pred             hhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHcc
Q 046694           81 VEKGKKFFDEMQARNVKPTETHYACMVYLLIKYN  114 (118)
Q Consensus        81 ~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g  114 (118)
                      .-.|.++++.+.+.+...+..|.---|+.+.+.|
T Consensus        33 h~sa~eI~~~l~~~~~~i~~aTVYR~L~~L~e~G   66 (148)
T PRK09462         33 HVSAEDLYKRLIDMGEEIGLATVYRVLNQFDDAG   66 (148)
T ss_pred             CCCHHHHHHHHHhhCCCCCHHHHHHHHHHHHHCC
Confidence            3344444444444444444444333344444433

>PF02607 B12-binding_2: B12 binding domain; InterPro: IPR003759 Cobalamin-dependent methionine synthase (2

Probab=81.44  E-value=2.1  Score=22.64  Aligned_cols=39  Identities=18%  Similarity=0.089  Sum_probs=27.5

Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCC
Q 046694           41 GMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGG   79 (118)
Q Consensus        41 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~   79 (118)
                      ...++.+.+.+++++..+.|+.|.......+..+.-+.|
T Consensus        12 l~~~d~~~~~~~~~~~l~~g~~~~~i~~~~l~p~m~~iG   50 (79)
T PF02607_consen   12 LLAGDEEEAEALLEEALAQGYPPEDIIEEILMPAMEEIG   50 (79)
T ss_dssp             HHTT-CCHHHHHHHHHHHCSSSTTHHHHHTHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHH
Confidence            345788888888888888888877777776666655443

1.1.13 from EC) is a large modular protein that catalyses methyl transfer from methyltetrahydrofolate (CH3-H4folate) to homocysteine. During the catalytic cycle, it supports three distinct methyl transfer reactions, each involving the cobalamin (vitamin B12) cofactor and a substrate bound to its own functional unit []. The cobalamin cofactor plays an essential role in this reaction, accepting the methyl group from CH3-H4folate to form methylcob(III)alamin, and in turn donating the methyl group to homocysteine to generate methionine and cob(I)alamin. Methionine synthase is a large enzyme composed of four structurally and functionally distinct modules: the first two modules bind homocysteine and CH3-H4folate, the third module binds the cobalamin cofactor and the C-terminal module binds S-adenosylmethionine. The cobalamin-binding module is composed of two structurally distinct domains: a 4-helical bundle cap domain (residues 651-740 in the Escherichia coli enzyme) and an alpha/beta B12-binding domain (residues 741-896) (IPR006158 from INTERPRO). The 4-helical bundle forms a cap over the alpha/beta domain, which acts to shield the methyl ligand of cobalamin from solvent []. Furthermore, in the conversion to the active conformation of this enzyme, the 4-helical cap rotates to allow the cobalamin cofactor to bind the activation domain (IPR004223 from INTERPRO). The alpha/beta domain is a common cobalamin-binding motif, whereas the 4-helical bundle domain with its methyl cap is a distinctive feature of methionine synthases. This entry represents the 4-helical bundle cap domain. This domain is also present in other shorter proteins that bind to B12, and is always found N terminus to the alpha/beta B12-binding domain.; GO: 0008705 methionine synthase activity, 0031419 cobalamin binding, 0046872 metal ion binding, 0009086 methionine biosynthetic process; PDB: 3EZX_A 3BUL_A 1K7Y_A 1BMT_A 3IV9_A 1K98_A 3IVA_A 2I2X_P.

>PF01475 FUR: Ferric uptake regulator family; InterPro: IPR002481 The Ferric uptake regulator (FUR) family includes metal ion uptake regulator proteins

Probab=80.91  E-value=2.2  Score=24.60  Aligned_cols=47  Identities=9%  Similarity=0.048  Sum_probs=34.7

Q ss_pred             HHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHcccc
Q 046694           70 GVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQK  116 (118)
Q Consensus        70 ~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~  116 (118)
                      .+++.+...+..-.|.++++.|.+.|...+..|.=--|+.+.+.|-+
T Consensus        12 ~Il~~l~~~~~~~ta~ei~~~l~~~~~~is~~TVYR~L~~L~e~Gli   58 (120)
T PF01475_consen   12 AILELLKESPEHLTAEEIYDKLRKKGPRISLATVYRTLDLLEEAGLI   58 (120)
T ss_dssp             HHHHHHHHHSSSEEHHHHHHHHHHTTTT--HHHHHHHHHHHHHTTSE
T ss_pred             HHHHHHHcCCCCCCHHHHHHHhhhccCCcCHHHHHHHHHHHHHCCeE
Confidence            45666666666778899999998888888888777777888777754

These are responsible for controlling the intracellular concentration of iron in many bacteria. Although iron is essential for most organisms, high concentrations can be toxic because of the formation of hydroxyl radicals []. FURs can also control zinc homeostasis [] and is the subject of research on the pathogenesis of mycobacteria.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1MZB_A 2RGV_B 2FE3_B 3F8N_B 3EYY_B 2W57_A 2FU4_A 2O03_A 3MWM_B 2XIG_B ....

>PF09797 NatB_MDM20: N-acetyltransferase B complex (NatB) non catalytic subunit; InterPro: IPR019183 This is the non-catalytic subunit of the N-terminal acetyltransferase B complex (NatB)

Probab=80.87  E-value=13  Score=25.99  Aligned_cols=68  Identities=18%  Similarity=0.318  Sum_probs=43.5

Q ss_pred             HHHHHHHhcCCHH---HHHHHhhhCC--CC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHH
Q 046694            4 PRLDFYTRTGRID---LANKIFDRLP--VK-DSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGV   71 (118)
Q Consensus         4 ~ll~~~~~~~~~~---~a~~~~~~m~--~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l   71 (118)
                      .++..+.+.++..   +|..+++...  .| |...=-.+++.|...|..+.|.+.|..+.-..+.-|...|..+
T Consensus       185 ~Ll~~~~~~~~~~~l~~Ai~lLE~~l~~s~~n~~~~LlLvrlY~~LG~~~~A~~~~~~L~iK~IQ~DTL~h~~~  258 (365)
T PF09797_consen  185 SLLDLYSKTKDSEYLLQAIALLEHALKKSPHNYQLKLLLVRLYSLLGAGSLALEHYESLDIKNIQLDTLGHLIL  258 (365)
T ss_pred             HHHHHhhccCCHHHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHhcChHHHHHHHhHHHHH
Confidence            3455555555544   5666666543  22 4444456778888899999999999888655566666555543

The NatB complex catalyses the acetylation of the amino-terminal methionine residue of all proteins beginning with Met-Asp or Met-Glu and of some proteins beginning with Met-Asn or Met-Met. In Saccharomyces cerevisiae (Baker's yeast) this subunit is called MDM20 and in Schizosaccharomyces pombe (Fission yeast) it is called Arm1. NatB acetylates the Tpm1 protein and regulates and tropomyocin-actin interactions. This subunit is required by the NatB complex for the N-terminal acetylation of Tpm1 [].

>PF07575 Nucleopor_Nup85: Nup85 Nucleoporin; InterPro: IPR011502 This is a family of nucleoporins conserved from yeast to human

Probab=80.08  E-value=8.4  Score=28.65  Aligned_cols=81  Identities=14%  Similarity=0.066  Sum_probs=40.7

Q ss_pred             HHHHHHHhhhCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhc
Q 046694           15 IDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQAR   94 (118)
Q Consensus        15 ~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~   94 (118)
                      ......++.+.+-++-..-.-++..|.+.|..+.|.++.+.+-..-  ....-|...+..+.++|+.+....+-..+.+.
T Consensus       390 ~~~i~~lL~~~p~~t~~~~~k~l~iC~~~~L~~~a~~I~~~~~~~~--~~~~~~g~AL~~~~ra~d~~~v~~i~~~ll~~  467 (566)
T PF07575_consen  390 RERIEELLPRVPLDTNDDAEKLLEICAELGLEDVAREICKILGQRL--LKEGRYGEALSWFIRAGDYSLVTRIADRLLEE  467 (566)
T ss_dssp             HHHHHHHGGG----SHHHHHHHHHHHHHHT-HHHHHHHHHHHHHHH--HHHHHHHHHHHHHH------------------
T ss_pred             HHHHHHHHhhCCCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHHH--HHCCCHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            4445566666665555566778889999999999999999884432  23467889999999999999888777777544


Q ss_pred             CCC
Q 046694           95 NVK   97 (118)
Q Consensus        95 g~~   97 (118)
                      .+.
T Consensus       468 ~~~  470 (566)
T PF07575_consen  468 YCN  470 (566)
T ss_dssp             ---
T ss_pred             Hhc
Confidence            433

Nup85 Nucleoporin is an essential component of the nuclear pore complex (NPC) that seems to be required for NPC assembly and maintenance. As part of the NPC Nup107-160 subcomplex plays a role in RNA export and in tethering NUP98/Nup98 and NUP153 to the nucleus. The Nup107-160 complex seems to be required for spindle assembly during mitosis. NUP85 is required for membrane clustering of CCL2-activated CCR2. Seems to be involved in CCR2-mediated chemotaxis of monocytes and may link activated CCR2 to the phosphatidyl-inositol-3-kinase-Rac-lammellipodium protrusion cascade [, , ]. ; PDB: 3F3F_D 3F3P_G 3F3G_G 3EWE_B.

>KOG4567 consensus GTPase-activating protein [General function prediction only]

Probab=80.02  E-value=16  Score=25.42  Aligned_cols=58  Identities=9%  Similarity=0.108  Sum_probs=46.4

Q ss_pred             HHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHH
Q 046694           50 INLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIK  112 (118)
Q Consensus        50 ~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~  112 (118)
                      .++++.|+..++.|.-..|.-+.-.+...=.+.....+++.+....     .-+..|+.+||.
T Consensus       263 ~EL~~~L~~~~i~PqfyaFRWitLLLsQEF~lpDvi~lWDsl~sD~-----~rfd~Ll~iCcs  320 (370)
T KOG4567|consen  263 EELWRHLEEKEIHPQFYAFRWITLLLSQEFPLPDVIRLWDSLLSDP-----QRFDFLLYICCS  320 (370)
T ss_pred             HHHHHHHHhcCCCccchhHHHHHHHHhccCCchhHHHHHHHHhcCh-----hhhHHHHHHHHH
Confidence            4678888888999999999988888888888999999999986633     336777777764

---

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	118
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	3e-07

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 46.7 bits (109), Expect = 3e-07
 Identities = 10/93 (10%), Positives = 27/93 (29%), Gaps = 3/93 (3%)

Query: 29  DSASWITLILGYGMLGELDVAINLFEAMRE---DGVEYYPVSHIGVLTACSLGGLVEKGK 85
                +       +  +L +A +L                  +  V+   +  G  ++  
Sbjct: 126 QQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELV 185

Query: 86  KFFDEMQARNVKPTETHYACMVYLLIKYNQKAR 118
                ++   + P    YA  +  + + +Q A 
Sbjct: 186 YVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAG 218

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	118
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.97
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.96
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.96
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.88
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.56
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.55
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.22
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.15
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.03
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.02
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	99.02
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.01
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.0
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.0
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.0
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	98.99
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	98.98
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	98.96
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	98.95
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	98.95
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	98.94
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	98.93
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	98.93
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.92
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	98.9
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.88
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	98.88
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	98.87
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	98.86
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	98.85
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	98.85
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.84
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.84
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	98.83
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.82
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	98.81
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	98.78
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	98.77
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	98.77
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.76
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	98.76
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	98.73
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	98.73
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.73
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	98.72
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.69
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	98.68
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	98.68
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.68
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.68
3u4t_A	272	TPR repeat-containing protein; structural genomics	98.68
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.67
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.67
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	98.66
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.65
2gw1_A	514	Mitochondrial precursor proteins import receptor;	98.63
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	98.62
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.62
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	98.61
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.6
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	98.6
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	98.58
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.57
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.57
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	98.57
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	98.55
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	98.54
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.54
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	98.54
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	98.53
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.51
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	98.51
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	98.5
2gw1_A	514	Mitochondrial precursor proteins import receptor;	98.5
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	98.49
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	98.49
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	98.49
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.49
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.48
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.46
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.46
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	98.45
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.44
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.43
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	98.43
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.41
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.41
3u4t_A	272	TPR repeat-containing protein; structural genomics	98.39
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	98.39
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.39
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	98.38
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	98.37
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.36
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	98.35
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.28
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.27
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.25
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.24
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.22
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.22
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.19
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.18
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	98.18
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.16
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.16
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.16
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.16
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.16
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.15
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.15
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	98.14
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	98.13
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	98.13
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.13
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.12
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.12
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.12
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.11
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.1
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	98.1
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	98.07
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.07
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	98.07
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.07
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.07
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.05
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.05
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	98.04
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.04
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.03
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.03
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.02
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	98.01
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.0
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	97.99
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	97.99
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	97.99
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	97.99
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	97.99
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	97.98
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	97.97
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	97.93
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	97.93
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	97.93
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	97.91
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	97.91
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	97.91
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	97.9
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.88
4g1t_A	472	Interferon-induced protein with tetratricopeptide	97.85
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.85
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.84
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.84
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	97.84
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.8
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	97.8
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	97.8
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	97.79
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	97.78
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.78
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	97.78
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.76
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	97.76
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	97.73
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.7
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	97.7
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	97.69
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	97.69
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	97.67
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	97.66
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.65
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.64
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	97.64
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	97.64
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	97.61
3k9i_A	117	BH0479 protein; putative protein binding protein,	97.5
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	97.49
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.48
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	97.37
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	97.37
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	97.33
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	97.32
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.26
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	97.26
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	97.26
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.15
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	97.13
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	97.12
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	97.11
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.1
4g1t_A	472	Interferon-induced protein with tetratricopeptide	97.05
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	97.0
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	96.96
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	96.9
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	96.88
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	96.75
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	96.75
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	96.7
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	96.66
1klx_A	138	Cysteine rich protein B; structural genomics, heli	96.56
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	96.44
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.36
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	96.33
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.26
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	96.25
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	96.25
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	96.24
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	95.95
1klx_A	138	Cysteine rich protein B; structural genomics, heli	95.94
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	95.67
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	95.57
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	95.54
2ion_A	152	PDCD4, programmed cell death 4, PDCD4; alpha-helic	95.47
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	95.19
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	95.11
2nsz_A	129	Programmed cell death protein 4; PDCD4, tumor supp	95.03
1ug3_A	339	EIF4GI, eukaryotic protein synthesis initiation fa	94.7
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	94.51
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	94.42
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	94.41
2p58_C	116	Putative type III secretion protein YSCG; type III	94.24
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	94.22
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	93.87
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	93.86
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	93.74
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	93.69
1pc2_A	152	Mitochondria fission protein; unknown function; NM	93.51
3eiq_C	358	Programmed cell death protein 4; PDCD4, anti-oncog	93.35
2zu6_B	307	Programmed cell death protein 4; protein-protein c	93.08
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	93.07
2nsz_A	129	Programmed cell death protein 4; PDCD4, tumor supp	92.76
2fu4_A	83	Ferric uptake regulation protein; DNA binding doma	92.21
2ion_A	152	PDCD4, programmed cell death 4, PDCD4; alpha-helic	92.11
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	92.09
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	91.87
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	91.79
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	91.25
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	91.07
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	90.67
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	90.51
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	89.49
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	89.34
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	88.92
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	88.48
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	88.4
3eyy_A	145	Putative iron uptake regulatory protein; NUR, nick	87.83
3eiq_C	358	Programmed cell death protein 4; PDCD4, anti-oncog	86.35
3l6a_A	364	Eukaryotic translation initiation factor 4 gamma;	85.93
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	85.71
2fe3_A	145	Peroxide operon regulator; oxidative stress regula	85.46
2rg8_A	165	Programmed cell death protein 4; MA3 domain, heat	85.29
1mzb_A	136	Ferric uptake regulation protein; ferric uptake re	85.08
2zu6_B	307	Programmed cell death protein 4; protein-protein c	84.9
3ygs_P	97	Procaspase 9; apoptosis, caspase activation, caspa	84.66
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	84.35
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	84.07
2w57_A	150	Ferric uptake regulation protein; gene regulation,	84.07
4ets_A	162	Ferric uptake regulation protein; metal binding pr	83.87
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	83.84
3mwm_A	139	ZUR, putative metal uptake regulation protein; FUR	83.32
3l6a_A	364	Eukaryotic translation initiation factor 4 gamma;	83.06
2yru_A	118	Steroid receptor RNA activator 1; SRAP, structural	82.49
2fe3_A	145	Peroxide operon regulator; oxidative stress regula	82.4
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	82.02
2xig_A	150	Ferric uptake regulation protein; hpfur, transcrip	82.02
2o03_A	131	Probable zinc uptake regulation protein FURB; DNA-	81.17
1pc2_A	152	Mitochondria fission protein; unknown function; NM	80.76
3esl_A	202	Checkpoint serine/threonine-protein kinase BUB1; m	80.65
1ug3_A	339	EIF4GI, eukaryotic protein synthesis initiation fa	80.61
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	80.44
4ets_A	162	Ferric uptake regulation protein; metal binding pr	80.4

>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=99.97  E-value=1.2e-30  Score=182.67  Aligned_cols=117  Identities=15%  Similarity=0.110  Sum_probs=99.1

Q ss_pred             CchHHHHHHHhcCC---------HHHHHHHhhhCC----CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHH
Q 046694            1 MIEPRLDFYTRTGR---------IDLANKIFDRLP----VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVS   67 (118)
Q Consensus         1 t~~~ll~~~~~~~~---------~~~a~~~~~~m~----~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~   67 (118)
                      |||+||.+|++.+.         +++|.++|++|.    .||..|||++|.+|++.|++++|.++|++|++.|+.||..|
T Consensus        63 tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~t  142 (501)
T 4g26_A           63 HYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRS  142 (501)
T ss_dssp             HHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHH
T ss_pred             HHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccce
Confidence            58888888887654         678888888885    57888888888888888888888888888888888888888


Q ss_pred             HHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           68 HIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        68 ~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      |+++|.+|++.|++++|.++|++|.+.|+.||..||++||++|++.|+++
T Consensus       143 yn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~~~g~~d  192 (501)
T 4g26_A          143 YGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDTKNAD  192 (501)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHH
T ss_pred             ehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhhCCCHH
Confidence            88888888888888888888888888888888888888888888888765

>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=99.96  E-value=5.3e-29  Score=174.33  Aligned_cols=114  Identities=11%  Similarity=0.051  Sum_probs=110.6

Q ss_pred             CchHHHHHHHhcCCHHHHHHHhhhCC----CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHh
Q 046694            1 MIEPRLDFYTRTGRIDLANKIFDRLP----VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACS   76 (118)
Q Consensus         1 t~~~ll~~~~~~~~~~~a~~~~~~m~----~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~   76 (118)
                      |||+||.+|++.|++++|.++|++|.    .||..+||++|.+|++.|++++|.++|++|.+.|+.||..||+++|++|+
T Consensus       107 tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~  186 (501)
T 4g26_A          107 TFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSM  186 (501)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHh
Confidence            69999999999999999999999997    68999999999999999999999999999999999999999999999999


Q ss_pred             cCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHcc
Q 046694           77 LGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYN  114 (118)
Q Consensus        77 ~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g  114 (118)
                      +.|++++|.+++++|.+.|+.|+..||+.|+..|++.+
T Consensus       187 ~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~~  224 (501)
T 4g26_A          187 DTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSEV  224 (501)
T ss_dssp             HTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSHH
T ss_pred             hCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcCc
Confidence            99999999999999999999999999999999998754

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.96  E-value=9e-30  Score=186.83  Aligned_cols=114  Identities=11%  Similarity=0.106  Sum_probs=107.0

Q ss_pred             CchHHHHHHHhcCCHHHHHHHhhhCC-------CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHH
Q 046694            1 MIEPRLDFYTRTGRIDLANKIFDRLP-------VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLT   73 (118)
Q Consensus         1 t~~~ll~~~~~~~~~~~a~~~~~~m~-------~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~   73 (118)
                      |||+||++||+.|++++|..+|++|.       .||+.|||+||++||+.|++++|.++|++|++.|+.||.+|||++|+
T Consensus       129 TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYntLI~  208 (1134)
T 3spa_A          129 RLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQ  208 (1134)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHH
Confidence            69999999999999999999997763       68999999999999999999999999999999999999999999999


Q ss_pred             HHhcCCCh-hhHHHHHHHHhhcCCCccHHHHHHHHHHHHHcc
Q 046694           74 ACSLGGLV-EKGKKFFDEMQARNVKPTETHYACMVYLLIKYN  114 (118)
Q Consensus        74 ~~~~~~~~-~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g  114 (118)
                      ++|+.|+. +.|.++|++|.+.|+.||..||++++..+.+.+
T Consensus       209 glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~  250 (1134)
T 3spa_A          209 CMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRAT  250 (1134)
T ss_dssp             HHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHH
T ss_pred             HHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHH
Confidence            99999985 789999999999999999999998877776654

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.88  E-value=2.2e-22  Score=148.20  Aligned_cols=88  Identities=10%  Similarity=0.042  Sum_probs=83.3

Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHH---cCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHH
Q 046694           29 DSASWITLILGYGMLGELDVAINLFEAMRE---DGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYAC  105 (118)
Q Consensus        29 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~  105 (118)
                      -..|||++|++||+.|++++|.++|++|.+   .|+.||.+|||++|++||+.|++++|.++|++|.+.|+.||..|||+
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            446999999999999999999999999864   58999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHcccc
Q 046694          106 MVYLLIKYNQK  116 (118)
Q Consensus       106 li~~~~~~g~~  116 (118)
                      ||+++|+.|+.
T Consensus       206 LI~glcK~G~~  216 (1134)
T 3spa_A          206 ALQCMGRQDQD  216 (1134)
T ss_dssp             HHHHHHHHTCC
T ss_pred             HHHHHHhCCCc
Confidence            99999999874

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.56  E-value=5.5e-14  Score=98.71  Aligned_cols=114  Identities=11%  Similarity=0.012  Sum_probs=56.8

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcC
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLG   78 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~   78 (118)
                      |+.++.+|.+.|++++|.++|+++.   ..+..+|+.+..+|.+.|++++|.++|+++.+.. +.+..+|+.+...|.+.
T Consensus       410 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~  488 (597)
T 2xpi_A          410 WIGFAHSFAIEGEHDQAISAYTTAARLFQGTHLPYLFLGMQHMQLGNILLANEYLQSSYALF-QYDPLLLNELGVVAFNK  488 (597)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHTTTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHh
Confidence            4455555555555555555555442   2244455555555555555555555555554332 12444555555555555


Q ss_pred             CChhhHHHHHHHHhhc----CCCcc--HHHHHHHHHHHHHcccc
Q 046694           79 GLVEKGKKFFDEMQAR----NVKPT--ETHYACMVYLLIKYNQK  116 (118)
Q Consensus        79 ~~~~~a~~~~~~m~~~----g~~~~--~~t~~~li~~~~~~g~~  116 (118)
                      |++++|.++|+++.+.    +..|+  ..+|..+..+|.+.|++
T Consensus       489 g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~  532 (597)
T 2xpi_A          489 SDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMY  532 (597)
T ss_dssp             TCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCH
T ss_pred             CCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCH
Confidence            5555555555555333    44444  44555555555555543

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.55  E-value=4.9e-14  Score=99.00  Aligned_cols=114  Identities=11%  Similarity=0.067  Sum_probs=102.6

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcC
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLG   78 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~   78 (118)
                      |+.+..+|.+.|++++|.++|+++.   ..+..+|+.++.+|.+.|++++|.++|+++.+.+ +.+..+|+.+..+|.+.
T Consensus       376 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~  454 (597)
T 2xpi_A          376 WLAVGIYYLCVNKISEARRYFSKSSTMDPQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQHMQL  454 (597)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHc
Confidence            6788999999999999999999875   4578899999999999999999999999998763 34889999999999999


Q ss_pred             CChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           79 GLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        79 ~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      |++++|.++|+++.+.. +.+..+|+.+..+|.+.|+++
T Consensus       455 g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~  492 (597)
T 2xpi_A          455 GNILLANEYLQSSYALF-QYDPLLLNELGVVAFNKSDMQ  492 (597)
T ss_dssp             TCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHH
T ss_pred             CCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHH
Confidence            99999999999997754 347899999999999999875

>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=99.22  E-value=5.6e-10  Score=63.48  Aligned_cols=114  Identities=13%  Similarity=0.140  Sum_probs=96.8

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcC
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLG   78 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~   78 (118)
                      |..+...|.+.|++++|..+|+++.   ..+...|..+...+...|++++|...|+++.+.+ +.+...+..+...+...
T Consensus         4 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~   82 (136)
T 2fo7_A            4 WYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQ   82 (136)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHcCCcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHHHHh
Confidence            5677888999999999999999774   3477788899999999999999999999998764 34677888899999999


Q ss_pred             CChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           79 GLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        79 ~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      |++++|.++++++.+.. +.+...+..+..++.+.|+.+
T Consensus        83 ~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~  120 (136)
T 2fo7_A           83 GDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYD  120 (136)
T ss_dssp             TCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHH
T ss_pred             cCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHH
Confidence            99999999999997754 335778888999999888764

>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=99.15  E-value=8.4e-10  Score=73.98  Aligned_cols=114  Identities=12%  Similarity=0.041  Sum_probs=88.8

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcC
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLG   78 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~   78 (118)
                      |..+..+|.+.|++++|...|+++.   ..+..+|..+...+.+.|++++|.+.|+++.+.. +.+..+++.+...+.+.
T Consensus       240 ~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~  318 (388)
T 1w3b_A          240 HGNLACVYYEQGLIDLAIDTYRRAIELQPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKREQ  318 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHc
Confidence            4566778888888888888888764   3356778888888888888888888888887652 45778888888888888


Q ss_pred             CChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           79 GLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        79 ~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      |++++|.+.++++.+.. +.+..++..+..+|.+.|+.+
T Consensus       319 g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~  356 (388)
T 1w3b_A          319 GNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQ  356 (388)
T ss_dssp             TCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHTTTCCH
T ss_pred             CCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHH
Confidence            88888888888886642 345778888888888888765

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.03  E-value=1.2e-08  Score=66.86  Aligned_cols=105  Identities=13%  Similarity=0.084  Sum_probs=45.7

Q ss_pred             HHHHhcCCHHHHHHHhhhCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHH---HHHHHHHhcCCChhh
Q 046694            7 DFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSH---IGVLTACSLGGLVEK   83 (118)
Q Consensus         7 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~---~~ll~~~~~~~~~~~   83 (118)
                      ..|.+.|++++|+..|++  ..+...+..+...+.+.|++++|.+.|+++.+..  |+....   ...+..+...|++++
T Consensus       109 ~~~~~~g~~~~Al~~l~~--~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~l~~a~~~l~~~~~~~~e  184 (291)
T 3mkr_A          109 SIYFYDQNPDAALRTLHQ--GDSLECMAMTVQILLKLDRLDLARKELKKMQDQD--EDATLTQLATAWVSLAAGGEKLQD  184 (291)
T ss_dssp             HHHHHTTCHHHHHHHHTT--CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCTTHHHH
T ss_pred             HHHHHCCCHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--cCcHHHHHHHHHHHHHhCchHHHH
Confidence            344445555555555554  2344444555555555555555555555554332  221111   112222223344445


Q ss_pred             HHHHHHHHhhcCCCccHHHHHHHHHHHHHcccc
Q 046694           84 GKKFFDEMQARNVKPTETHYACMVYLLIKYNQK  116 (118)
Q Consensus        84 a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~  116 (118)
                      |..+|+++.+. .+.+...++.+-.++.+.|++
T Consensus       185 A~~~~~~~l~~-~p~~~~~~~~la~~~~~~g~~  216 (291)
T 3mkr_A          185 AYYIFQEMADK-CSPTLLLLNGQAACHMAQGRW  216 (291)
T ss_dssp             HHHHHHHHHHH-SCCCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHh-CCCcHHHHHHHHHHHHHcCCH
Confidence            55555444433 223444444444444444443

>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=99.02  E-value=1.1e-08  Score=64.62  Aligned_cols=85  Identities=7%  Similarity=-0.057  Sum_probs=34.9

Q ss_pred             HHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc-cHHHHHHHHHHHhcCCChh
Q 046694            7 DFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEY-YPVSHIGVLTACSLGGLVE   82 (118)
Q Consensus         7 ~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~   82 (118)
                      .+|.+.|++++|...|++..   ..+...|..+...|...|++++|.+.|++..+.+..| +...+..+...+.+.|+++
T Consensus        79 ~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  158 (252)
T 2ho1_A           79 VVFQTEMEPKLADEEYRKALASDSRNARVLNNYGGFLYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPA  158 (252)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHH
Confidence            33444444444444444332   1233344444444444444444444444443321222 2333344444444444444


Q ss_pred             hHHHHHHHH
Q 046694           83 KGKKFFDEM   91 (118)
Q Consensus        83 ~a~~~~~~m   91 (118)
                      +|.+.+++.
T Consensus       159 ~A~~~~~~~  167 (252)
T 2ho1_A          159 QAKEYFEKS  167 (252)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            444444444

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=99.02  E-value=3.8e-08  Score=55.16  Aligned_cols=110  Identities=14%  Similarity=0.125  Sum_probs=89.3

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcC
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLG   78 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~   78 (118)
                      |..+...+.+.|++++|..+|++..   ..+...+..+...+...|++++|...|+++.+.. +.+...+..+...+.+.
T Consensus        12 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~   90 (125)
T 1na0_A           12 WYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQ   90 (125)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHh
Confidence            4556778899999999999999775   3477889999999999999999999999998753 34678889999999999


Q ss_pred             CChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHc
Q 046694           79 GLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKY  113 (118)
Q Consensus        79 ~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~  113 (118)
                      |++++|...++++.+.. +.+...+..+-.++.+.
T Consensus        91 ~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~  124 (125)
T 1na0_A           91 GDYDEAIEYYQKALELD-PNNAEAKQNLGNAKQKQ  124 (125)
T ss_dssp             TCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHhc
Confidence            99999999999997754 23455666666665544

>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=99.01  E-value=3.3e-10  Score=78.23  Aligned_cols=97  Identities=7%  Similarity=-0.053  Sum_probs=44.8

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCCh
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLV   81 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~   81 (118)
                      .+.|+.+|.+.|++++++++++   .|+..+|+.+...|...|.+++|...|+.+         ..|..+..++.+.|++
T Consensus        97 ~~~Li~~Y~Klg~l~e~e~f~~---~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~~~LA~~L~~Lg~y  164 (449)
T 1b89_A           97 ETELIFALAKTNRLAELEEFIN---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEY  164 (449)
T ss_dssp             ------------CHHHHTTTTT---CC----------------CTTTHHHHHHHT---------TCHHHHHHHHHTTTCH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHc---CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhHHHHHHHHHHhccH
Confidence            3456667777777777776664   255556666666666666666666666654         3666666666666666


Q ss_pred             hhHHHHHHHHhhcCCCccHHHHHHHHHHHHHcccc
Q 046694           82 EKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQK  116 (118)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~  116 (118)
                      ++|.+.+.++      .++.+|..++.+|...|++
T Consensus       165 q~AVea~~KA------~~~~~Wk~v~~aCv~~~ef  193 (449)
T 1b89_A          165 QAAVDGARKA------NSTRTWKEVCFACVDGKEF  193 (449)
T ss_dssp             HHHHHHHHHH------TCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHc------CCchhHHHHHHHHHHcCcH
Confidence            6666666666      2566666666666666654

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.00  E-value=2.2e-08  Score=61.71  Aligned_cols=110  Identities=9%  Similarity=-0.011  Sum_probs=48.5

Q ss_pred             HHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhc-CCHHHHHHHHHHHHHcCCCc-cHHHHHHHHHHHhcCC
Q 046694            5 RLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGML-GELDVAINLFEAMREDGVEY-YPVSHIGVLTACSLGG   79 (118)
Q Consensus         5 ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~-~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~   79 (118)
                      +..+|...|++++|...|++..   ..+...+..+...+... |++++|...|++..+.+..| +...+..+...+.+.|
T Consensus        48 l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  127 (225)
T 2vq2_A           48 RAEIYQYLKVNDKAQESFRQALSIKPDSAEINNNYGWFLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQG  127 (225)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcC
Confidence            3344444444444444444332   22344444444445555 55555555555544421122 2344444444444555


Q ss_pred             ChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccc
Q 046694           80 LVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQ  115 (118)
Q Consensus        80 ~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~  115 (118)
                      ++++|...+++..+.. +.+...+..+..++.+.|+
T Consensus       128 ~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~  162 (225)
T 2vq2_A          128 QFGLAEAYLKRSLAAQ-PQFPPAFKELARTKMLAGQ  162 (225)
T ss_dssp             CHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTC
T ss_pred             CHHHHHHHHHHHHHhC-CCCchHHHHHHHHHHHcCC
Confidence            5555555555443321 1124444444444444444

>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=99.00  E-value=1.8e-08  Score=60.24  Aligned_cols=109  Identities=12%  Similarity=-0.006  Sum_probs=51.0

Q ss_pred             HHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCCh
Q 046694            5 RLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLV   81 (118)
Q Consensus         5 ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~   81 (118)
                      +...+...|++++|...|++..   ..+...+..+...+...|++++|.+.+++..+.. +.+...+..+...+...|++
T Consensus        14 ~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~   92 (186)
T 3as5_A           14 KGISHAKAGRYSQAVMLLEQVYDADAFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTYVQVQKY   92 (186)
T ss_dssp             HHHHHHHHTCHHHHHHHHTTTCCTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHhCccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCH
Confidence            3444455555555555555443   1244444555555555555555555555544331 12344444444455555555


Q ss_pred             hhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccc
Q 046694           82 EKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQ  115 (118)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~  115 (118)
                      ++|.+.+++..+.. +.+...+..+..++.+.|+
T Consensus        93 ~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~  125 (186)
T 3as5_A           93 DLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGR  125 (186)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCc
Confidence            55555555543321 2234444444444444444

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.00  E-value=2e-08  Score=61.94  Aligned_cols=115  Identities=15%  Similarity=-0.031  Sum_probs=82.8

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcC
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLG   78 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~   78 (118)
                      |..+...+...|++++|...|++..   ..+...|..+...+...|++++|.+.|++..+.. +.+...+..+...+...
T Consensus        11 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~   89 (225)
T 2vq2_A           11 KTQLAMEYMRGQDYRQATASIEDALKSDPKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGWFLCGR   89 (225)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHh
Confidence            3456667778888888888887654   3456677778888888888888888888876642 23566777778888888


Q ss_pred             -CChhhHHHHHHHHhhcCCCcc-HHHHHHHHHHHHHccccc
Q 046694           79 -GLVEKGKKFFDEMQARNVKPT-ETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        79 -~~~~~a~~~~~~m~~~g~~~~-~~t~~~li~~~~~~g~~~  117 (118)
                       |++++|.+.++++.+.+..|+ ...+..+..++.+.|+.+
T Consensus        90 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  130 (225)
T 2vq2_A           90 LNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFG  130 (225)
T ss_dssp             TCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHH
T ss_pred             cCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHH
Confidence             888888888888866333333 566777777777777654

>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=98.99  E-value=3.7e-08  Score=58.79  Aligned_cols=114  Identities=13%  Similarity=0.079  Sum_probs=97.3

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcC
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLG   78 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~   78 (118)
                      |..+...|.+.|++++|...|++..   ..+...|..+...+...|++++|.+.|++..+.. +.+...+..+...+.+.
T Consensus        45 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~  123 (186)
T 3as5_A           45 ALHLGIAYVKTGAVDRGTELLERSLADAPDNVKVATVLGLTYVQVQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNL  123 (186)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHc
Confidence            4566778899999999999999765   4477889999999999999999999999998763 34678888899999999


Q ss_pred             CChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           79 GLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        79 ~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      |++++|.+.+++..+.. +.+...+..+..++.+.|+.+
T Consensus       124 ~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~  161 (186)
T 3as5_A          124 GRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQMGRHE  161 (186)
T ss_dssp             TCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             CcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCHH
Confidence            99999999999997754 346788999999999998765

>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=98.98  E-value=9.5e-09  Score=68.85  Aligned_cols=109  Identities=13%  Similarity=0.095  Sum_probs=75.5

Q ss_pred             HHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhh
Q 046694            7 DFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEK   83 (118)
Q Consensus         7 ~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~   83 (118)
                      ..+...|++++|...|++..   ..+..+|..+...+.+.|++++|.+.|+++.+.. +.+..+|..+...+.+.|++++
T Consensus       211 ~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~  289 (388)
T 1w3b_A          211 NVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAE  289 (388)
T ss_dssp             HHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhhCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHH
Confidence            33444444444444444332   2256677788888888888888888888887653 2246678888888888888888


Q ss_pred             HHHHHHHHhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           84 GKKFFDEMQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        84 a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      |.+.|+++.+. .+.+..+++.+..++.+.|+++
T Consensus       290 A~~~~~~al~~-~p~~~~~~~~l~~~~~~~g~~~  322 (388)
T 1w3b_A          290 AEDCYNTALRL-CPTHADSLNNLANIKREQGNIE  322 (388)
T ss_dssp             HHHHHHHHHHH-CTTCHHHHHHHHHHHHTTTCHH
T ss_pred             HHHHHHHHHhh-CcccHHHHHHHHHHHHHcCCHH
Confidence            88888888665 2456778888888888877764

>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=98.96  E-value=1.4e-08  Score=64.07  Aligned_cols=115  Identities=9%  Similarity=-0.040  Sum_probs=97.1

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcC
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLG   78 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~   78 (118)
                      |..+...|...|++++|...|++..   ..+...|..+...+...|++++|.+.|++..+.. +.+...+..+...+...
T Consensus        40 ~~~~a~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~  118 (252)
T 2ho1_A           40 YIQLGLGYLQRGNTEQAKVPLRKALEIDPSSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGFLYEQ  118 (252)
T ss_dssp             HHHHHHHHHHTTCTGGGHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHhcCCChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHH
Confidence            4456778889999999999999775   3477889999999999999999999999998763 33678899999999999


Q ss_pred             CChhhHHHHHHHHhhcCCCc-cHHHHHHHHHHHHHccccc
Q 046694           79 GLVEKGKKFFDEMQARNVKP-TETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        79 ~~~~~a~~~~~~m~~~g~~~-~~~t~~~li~~~~~~g~~~  117 (118)
                      |++++|.+++++..+.+..| +...+..+..+|.+.|+++
T Consensus       119 g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  158 (252)
T 2ho1_A          119 KRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPA  158 (252)
T ss_dssp             TCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHH
T ss_pred             hHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHH
Confidence            99999999999997754455 5778888889998888764

>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=98.95  E-value=1.4e-08  Score=68.94  Aligned_cols=111  Identities=9%  Similarity=-0.051  Sum_probs=57.4

Q ss_pred             hHHHHHHHhcCCHHHHHHHhhhCC--CC-CHhhHHHH------------HHHHHhcCCHHHHHHHHHHHHHcCCCcc---
Q 046694            3 EPRLDFYTRTGRIDLANKIFDRLP--VK-DSASWITL------------ILGYGMLGELDVAINLFEAMREDGVEYY---   64 (118)
Q Consensus         3 ~~ll~~~~~~~~~~~a~~~~~~m~--~~-~~~~~~~l------------i~~~~~~~~~~~a~~~~~~m~~~~~~p~---   64 (118)
                      ..+..+|.+.|++++|...|+++.  .| +...+..+            ...+.+.|++++|...|+++.+.  .|+   
T Consensus       215 ~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~--~p~~~~  292 (450)
T 2y4t_A          215 YKISTLYYQLGDHELSLSEVRECLKLDQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKT--EPSIAE  292 (450)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CCSSHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcchH
Confidence            444555555555555555555443  12 23333332            45555555666666666555542  222   


Q ss_pred             --HHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHcccc
Q 046694           65 --PVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQK  116 (118)
Q Consensus        65 --~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~  116 (118)
                        ...+..+...+.+.|++++|...++++.+.. +.+...|..+..+|.+.|++
T Consensus       293 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~~~~~~~  345 (450)
T 2y4t_A          293 YTVRSKERICHCFSKDEKPVEAIRVCSEVLQME-PDNVNALKDRAEAYLIEEMY  345 (450)
T ss_dssp             HHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhcCH
Confidence              2345555556666666666666666654432 22455566666666655554

>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=98.95  E-value=2e-08  Score=65.20  Aligned_cols=115  Identities=14%  Similarity=0.042  Sum_probs=94.9

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcC
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLG   78 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~   78 (118)
                      +..+...|.+.|++++|...|++..   ..+...|..+...+...|++++|...|++..+.. +.+...+..+...+.+.
T Consensus       175 ~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~  253 (327)
T 3cv0_A          175 HASLGVLYNLSNNYDSAAANLRRAVELRPDDAQLWNKLGATLANGNRPQEALDAYNRALDIN-PGYVRVMYNMAVSYSNM  253 (327)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHh
Confidence            4556778889999999999998764   3467889999999999999999999999987653 33678888999999999


Q ss_pred             CChhhHHHHHHHHhhcCCCc-----------cHHHHHHHHHHHHHccccc
Q 046694           79 GLVEKGKKFFDEMQARNVKP-----------TETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        79 ~~~~~a~~~~~~m~~~g~~~-----------~~~t~~~li~~~~~~g~~~  117 (118)
                      |++++|.+.+++..+.....           +...|..+..++.+.|+.+
T Consensus       254 g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  303 (327)
T 3cv0_A          254 SQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPD  303 (327)
T ss_dssp             TCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHH
T ss_pred             ccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHH
Confidence            99999999999986644332           5788889999999988764

>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=98.94  E-value=1.4e-08  Score=67.12  Aligned_cols=116  Identities=16%  Similarity=0.090  Sum_probs=93.1

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcC
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLG   78 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~   78 (118)
                      |..+..+|.+.|++++|...|++..   ..+...|..+...+...|++++|...|++..+.. +.+...+..+...+.+.
T Consensus       220 ~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~  298 (368)
T 1fch_A          220 QCGLGVLFNLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINL  298 (368)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHC
Confidence            4567778889999999999998764   3467789999999999999999999999987652 33678888899999999


Q ss_pred             CChhhHHHHHHHHhhcCCCc----------cHHHHHHHHHHHHHcccccC
Q 046694           79 GLVEKGKKFFDEMQARNVKP----------TETHYACMVYLLIKYNQKAR  118 (118)
Q Consensus        79 ~~~~~a~~~~~~m~~~g~~~----------~~~t~~~li~~~~~~g~~~~  118 (118)
                      |++++|...|++..+.....          ...+|..+..+|.+.|+.++
T Consensus       299 g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  348 (368)
T 1fch_A          299 GAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDA  348 (368)
T ss_dssp             TCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGG
T ss_pred             CCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCChHh
Confidence            99999999999885532211          26789999999999888753

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=98.93  E-value=1.9e-08  Score=65.82  Aligned_cols=105  Identities=7%  Similarity=-0.009  Sum_probs=51.5

Q ss_pred             HHHHHhcCCHHHHHHHhhhCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcc-HHHHHHHHHHHhcCCChhhH
Q 046694            6 LDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYY-PVSHIGVLTACSLGGLVEKG   84 (118)
Q Consensus         6 l~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~a   84 (118)
                      ..+|...|++++|...++....|+..++..+...+...++.++|++.++++...+..|+ ...+..+-..+...|++++|
T Consensus        41 ~r~yi~~g~~~~al~~~~~~~~~~~~a~~~la~~~~~~~~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~A  120 (291)
T 3mkr_A           41 YRAYLAQRKYGVVLDEIKPSSAPELQAVRMFAEYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAA  120 (291)
T ss_dssp             HHHHHHTTCHHHHHHHSCTTSCHHHHHHHHHHHHHHCSTTHHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHCCCHHHHHHHhcccCChhHHHHHHHHHHHcCCCcHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHH
Confidence            34455555555555555444344445555555555555555555555555554443332 23333333444455555555


Q ss_pred             HHHHHHHhhcCCCccHHHHHHHHHHHHHcccc
Q 046694           85 KKFFDEMQARNVKPTETHYACMVYLLIKYNQK  116 (118)
Q Consensus        85 ~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~  116 (118)
                      .+.+++      ..+...+..+..+|.+.|+.
T Consensus       121 l~~l~~------~~~~~~~~~l~~~~~~~g~~  146 (291)
T 3mkr_A          121 LRTLHQ------GDSLECMAMTVQILLKLDRL  146 (291)
T ss_dssp             HHHHTT------CCSHHHHHHHHHHHHHTTCH
T ss_pred             HHHHhC------CCCHHHHHHHHHHHHHCCCH
Confidence            555544      23444444555555554443

>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=98.93  E-value=1.1e-08  Score=69.53  Aligned_cols=112  Identities=9%  Similarity=0.084  Sum_probs=83.2

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc-cHHHHHHH------
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEY-YPVSHIGV------   71 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~l------   71 (118)
                      +..+..+|.+.|++++|...|+++.   ..+..+|..+...|...|++++|...|+++.+.  .| +...+..+      
T Consensus       180 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~~~~~~~~  257 (450)
T 2y4t_A          180 RELRAECFIKEGEPRKAISDLKAASKLKNDNTEAFYKISTLYYQLGDHELSLSEVRECLKL--DQDHKRCFAHYKQVKKL  257 (450)
T ss_dssp             HHHHHHHHHHTTCGGGGHHHHHHHHHHHCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCChHHHHHHHHHHHHH
Confidence            4556777888888888888888764   347788888888888888888888888888754  33 33334333      


Q ss_pred             ------HHHHhcCCChhhHHHHHHHHhhcCCCcc-----HHHHHHHHHHHHHccccc
Q 046694           72 ------LTACSLGGLVEKGKKFFDEMQARNVKPT-----ETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        72 ------l~~~~~~~~~~~a~~~~~~m~~~g~~~~-----~~t~~~li~~~~~~g~~~  117 (118)
                            ...+.+.|++++|..+|+++.+.  .|+     ..++..+..++.+.|+++
T Consensus       258 ~~~~~~~~~~~~~g~~~~A~~~~~~~l~~--~p~~~~~~~~~~~~l~~~~~~~g~~~  312 (450)
T 2y4t_A          258 NKLIESAEELIRDGRYTDATSKYESVMKT--EPSIAEYTVRSKERICHCFSKDEKPV  312 (450)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CCSSHHHHHHHHHHHHHHHHTTTCHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHHHHCCCHH
Confidence                  67788888888888888888663  333     447778888888888764

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.92  E-value=1.4e-07  Score=53.20  Aligned_cols=114  Identities=11%  Similarity=0.039  Sum_probs=94.9

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcC
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLG   78 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~   78 (118)
                      |..+...+...|++++|...|++..   ..+...|..+...+...|++++|.+.+++..+.. +.+...+..+...+.+.
T Consensus        15 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~   93 (131)
T 2vyi_A           15 LKTEGNEQMKVENFEAAVHFYGKAIELNPANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGLALSSL   93 (131)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHHHHHHh
Confidence            3456678889999999999999764   3477889999999999999999999999998753 33577888889999999


Q ss_pred             CChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           79 GLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        79 ~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      |++++|.+.+++..+.. +.+...+..+..++.+.|+.+
T Consensus        94 ~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~  131 (131)
T 2vyi_A           94 NKHVEAVAYYKKALELD-PDNETYKSNLKIAELKLREAP  131 (131)
T ss_dssp             TCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTTCC
T ss_pred             CCHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHhcCC
Confidence            99999999999997753 236778888889998888753

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=98.90  E-value=5.9e-08  Score=60.59  Aligned_cols=110  Identities=9%  Similarity=0.070  Sum_probs=51.1

Q ss_pred             HHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCCh
Q 046694            5 RLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLV   81 (118)
Q Consensus         5 ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~   81 (118)
                      +...|.+.|++++|...|++..   ..+...+..+...+...|++++|...+++..+.. +.+...+..+...+.+.|++
T Consensus        97 la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~  175 (243)
T 2q7f_A           97 AGNVYVVKEMYKEAKDMFEKALRAGMENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN-ENDTEARFQFGMCLANEGML  175 (243)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHcCCH
Confidence            3344444555555555554332   2234444445555555555555555555544331 12344444455555555555


Q ss_pred             hhHHHHHHHHhhcCCCccHHHHHHHHHHHHHcccc
Q 046694           82 EKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQK  116 (118)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~  116 (118)
                      ++|.+.+++..+.. +.+..++..+..+|.+.|+.
T Consensus       176 ~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~  209 (243)
T 2q7f_A          176 DEALSQFAAVTEQD-PGHADAFYNAGVTYAYKENR  209 (243)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCT
T ss_pred             HHHHHHHHHHHHhC-cccHHHHHHHHHHHHHccCH
Confidence            55555555543332 12344455555555555443

>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=98.88  E-value=2.4e-07  Score=57.06  Aligned_cols=113  Identities=11%  Similarity=-0.047  Sum_probs=95.3

Q ss_pred             HHHHHHHhcCCHHHHHHHhhhCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhh
Q 046694            4 PRLDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEK   83 (118)
Q Consensus         4 ~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~   83 (118)
                      .+-..+.+.|++++|...|++...++...|..+-..|...|++++|.+.|++..+.. +.+...+..+-..+.+.|++++
T Consensus        11 ~~g~~~~~~~~~~~A~~~~~~a~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~   89 (213)
T 1hh8_A           11 NEGVLAADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKYDL   89 (213)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHcCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcccHHH
Confidence            345677889999999999999988899999999999999999999999999998753 3467889999999999999999


Q ss_pred             HHHHHHHHhhcCC--------------Cc-cHHHHHHHHHHHHHccccc
Q 046694           84 GKKFFDEMQARNV--------------KP-TETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        84 a~~~~~~m~~~g~--------------~~-~~~t~~~li~~~~~~g~~~  117 (118)
                      |.+.|++..+..-              .| ....+..+-.+|.+.|+.+
T Consensus        90 A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  138 (213)
T 1hh8_A           90 AIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWK  138 (213)
T ss_dssp             HHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHH
Confidence            9999999976432              12 2367888888888888764

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=98.88  E-value=9.5e-08  Score=59.65  Aligned_cols=114  Identities=9%  Similarity=-0.047  Sum_probs=89.7

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcC
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLG   78 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~   78 (118)
                      |..+...|.+.|++++|...|++..   ..+...+..+...+...|++++|.+.|++..+.. +.+...+..+...+.+.
T Consensus        60 ~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~  138 (243)
T 2q7f_A           60 YINFANLLSSVNELERALAFYDKALELDSSAATAYYGAGNVYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKL  138 (243)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHh
Confidence            3456677888899999999888764   3477788888888899999999999999887653 33667788888888899


Q ss_pred             CChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           79 GLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        79 ~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      |++++|..++++..+.. +.+...+..+..++.+.|+.+
T Consensus       139 ~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~  176 (243)
T 2q7f_A          139 EQPKLALPYLQRAVELN-ENDTEARFQFGMCLANEGMLD  176 (243)
T ss_dssp             SCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCH
T ss_pred             ccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHcCCHH
Confidence            99999999999886643 335777888888888888764

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=98.87  E-value=4e-08  Score=61.48  Aligned_cols=69  Identities=16%  Similarity=0.167  Sum_probs=29.9

Q ss_pred             CCHHHHHHHHHHHHHcCCCc-cHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHcccc
Q 046694           44 GELDVAINLFEAMREDGVEY-YPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQK  116 (118)
Q Consensus        44 ~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~  116 (118)
                      |++++|...|++..+.  .| +...+..+-..+...|++++|...|++..+..  .+...+..+-.+|.+.|+.
T Consensus        98 g~~~~A~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~la~~~~~~g~~  167 (217)
T 2pl2_A           98 GYLEQALSVLKDAERV--NPRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSALAELYLSMGRL  167 (217)
T ss_dssp             HHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCH
T ss_pred             cCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHHHHHHHHHcCCH
Confidence            4444444444444332  12 23344444444444444444444444444433  3444444444444444443

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=98.86  E-value=2.1e-08  Score=66.63  Aligned_cols=112  Identities=10%  Similarity=-0.040  Sum_probs=90.4

Q ss_pred             HHHHHHHhcCCHHHHHHHhhhCC--CC---CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcC
Q 046694            4 PRLDFYTRTGRIDLANKIFDRLP--VK---DSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLG   78 (118)
Q Consensus         4 ~ll~~~~~~~~~~~a~~~~~~m~--~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~   78 (118)
                      .+...|.+.|++++|...|++..  .|   +..+|..+...|...|++++|.+.|++..+.. +.+..++..+...+.+.
T Consensus       182 ~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~  260 (365)
T 4eqf_A          182 RMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVLFHLSGEFNRAIDAFNAALTVR-PEDYSLWNRLGATLANG  260 (365)
T ss_dssp             -------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHc
Confidence            45678888999999999999875  23   68899999999999999999999999998753 34688999999999999


Q ss_pred             CChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           79 GLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        79 ~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      |++++|...|++..+.. +.+..++..+..+|.+.|+.+
T Consensus       261 g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~  298 (365)
T 4eqf_A          261 DRSEEAVEAYTRALEIQ-PGFIRSRYNLGISCINLGAYR  298 (365)
T ss_dssp             TCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCH
T ss_pred             CCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHH
Confidence            99999999999997753 334888999999999998865

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=98.85  E-value=4.3e-08  Score=61.35  Aligned_cols=114  Identities=11%  Similarity=0.040  Sum_probs=92.3

Q ss_pred             chHHHHHHHhc-----------CCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHH
Q 046694            2 IEPRLDFYTRT-----------GRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVS   67 (118)
Q Consensus         2 ~~~ll~~~~~~-----------~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~   67 (118)
                      |..+-.+|.+.           |++++|+..|++..   ..+...|..+-..+...|++++|...|++..+..  .+...
T Consensus        76 ~~~lg~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~  153 (217)
T 2pl2_A           76 YMVLSEAYVALYRQAEDRERGKGYLEQALSVLKDAERVNPRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEI  153 (217)
T ss_dssp             HHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHH
T ss_pred             HHHHHHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHH
Confidence            34556667777           99999999998765   3477889999999999999999999999998877  68889


Q ss_pred             HHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHcccccC
Q 046694           68 HIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQKAR  118 (118)
Q Consensus        68 ~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~~  118 (118)
                      +..+-..+...|++++|...|++..+.. +.+...+..+..++.+.|+.++
T Consensus       154 ~~~la~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~  203 (217)
T 2pl2_A          154 RSALAELYLSMGRLDEALAQYAKALEQA-PKDLDLRVRYASALLLKGKAEE  203 (217)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTC------
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHH
Confidence            9999999999999999999999997753 3357788889999988888764

>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=98.85  E-value=1e-08  Score=70.88  Aligned_cols=101  Identities=13%  Similarity=0.030  Sum_probs=59.1

Q ss_pred             CchHHHHHHHhcCCHHHHHHHhhhCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCC
Q 046694            1 MIEPRLDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGL   80 (118)
Q Consensus         1 t~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~   80 (118)
                      +|+.+...|...|++++|..+|.++     ..|..+..++.+.|++++|.+.+.++      .++.+|..++.+|...|+
T Consensus       124 a~~~IGd~~~~~g~yeeA~~~Y~~a-----~n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~e  192 (449)
T 1b89_A          124 HIQQVGDRCYDEKMYDAAKLLYNNV-----SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKE  192 (449)
T ss_dssp             -------------CTTTHHHHHHHT-----TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHh-----hhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCc
Confidence            4666777777778888888887766     36777777777777777777777776      266777777777777777


Q ss_pred             hhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           81 VEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        81 ~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      ++.|......     +...+.....++..|.+.|+++
T Consensus       193 f~lA~~~~l~-----L~~~ad~l~~lv~~Yek~G~~e  224 (449)
T 1b89_A          193 FRLAQMCGLH-----IVVHADELEELINYYQDRGYFE  224 (449)
T ss_dssp             HHHHHHTTTT-----TTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHH-----HHhCHhhHHHHHHHHHHCCCHH
Confidence            7777443332     2223333445777777777654

>1elr_A TPR2A-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, protein binding, chaperone; 1.90A {Homo sapiens} SCOP: a.118.8.1 PDB: 3esk_A 3fwv_A

Probab=98.84  E-value=1.2e-07  Score=53.49  Aligned_cols=113  Identities=12%  Similarity=-0.022  Sum_probs=90.5

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC--Ccc----HHHHHHHH
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGV--EYY----PVSHIGVL   72 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~--~p~----~~~~~~ll   72 (118)
                      |..+...+...|++++|...|++..   ..+...+..+...+...|++++|...|++..+..-  .++    ...+..+.
T Consensus         7 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~la   86 (131)
T 1elr_A            7 EKELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIG   86 (131)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHHHH
Confidence            4566778899999999999998764   34778889999999999999999999999976421  122    67888899


Q ss_pred             HHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHcccc
Q 046694           73 TACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQK  116 (118)
Q Consensus        73 ~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~  116 (118)
                      ..+.+.|++++|.+.|++..+.  .|+......+-.+....++.
T Consensus        87 ~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~  128 (131)
T 1elr_A           87 NSYFKEEKYKDAIHFYNKSLAE--HRTPDVLKKCQQAEKILKEQ  128 (131)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHhccHHHHHHHHHHHHHh--CCCHHHHHHHHHHHHHHHHh
Confidence            9999999999999999999775  35677777776666555443

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.84  E-value=2.1e-07  Score=52.84  Aligned_cols=111  Identities=11%  Similarity=0.005  Sum_probs=90.7

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcC
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLG   78 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~   78 (118)
                      |..+...+.+.|++++|...|++..   ..+...|..+...+...|++++|.+.|++..+.. +.+...+..+...+.+.
T Consensus        19 ~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~   97 (133)
T 2lni_A           19 VKNKGNECFQKGDYPQAMKHYTEAIKRNPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRKAAALEAM   97 (133)
T ss_dssp             HHHHHHHHHHTTCSHHHHHHHHHHHTTCTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHH
Confidence            4566778899999999999999764   3477889999999999999999999999998753 33678888899999999


Q ss_pred             CChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHcc
Q 046694           79 GLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYN  114 (118)
Q Consensus        79 ~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g  114 (118)
                      |++++|.+.+++..+.. +.+...+..+..++.+.|
T Consensus        98 ~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~  132 (133)
T 2lni_A           98 KDYTKAMDVYQKALDLD-SSCKEAADGYQRCMMAQY  132 (133)
T ss_dssp             TCHHHHHHHHHHHHHHC-GGGTHHHHHHHHHHHHHT
T ss_pred             hhHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHhc
Confidence            99999999999987653 224566777777776655

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=98.83  E-value=4.4e-08  Score=65.04  Aligned_cols=115  Identities=14%  Similarity=0.066  Sum_probs=95.7

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcC
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLG   78 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~   78 (118)
                      |..+...|.+.|++++|+..|++..   ..+..+|..+...|...|++++|...|++..+.. +.+...+..+...+.+.
T Consensus       216 ~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~  294 (365)
T 4eqf_A          216 QTGLGVLFHLSGEFNRAIDAFNAALTVRPEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQ-PGFIRSRYNLGISCINL  294 (365)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHC
Confidence            5567888999999999999999775   4478899999999999999999999999998752 23588899999999999


Q ss_pred             CChhhHHHHHHHHhhcCCC-----------ccHHHHHHHHHHHHHccccc
Q 046694           79 GLVEKGKKFFDEMQARNVK-----------PTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        79 ~~~~~a~~~~~~m~~~g~~-----------~~~~t~~~li~~~~~~g~~~  117 (118)
                      |++++|...|++..+..-.           .+...|..+-.++...|+.+
T Consensus       295 g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  344 (365)
T 4eqf_A          295 GAYREAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPE  344 (365)
T ss_dssp             TCCHHHHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHH
T ss_pred             CCHHHHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHH
Confidence            9999999999998553211           13678899999988887654

>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=98.82  E-value=1.6e-07  Score=53.08  Aligned_cols=92  Identities=15%  Similarity=0.180  Sum_probs=78.8

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcC
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLG   78 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~   78 (118)
                      |..+...+...|++++|..+|++..   ..+...+..+...+...|++++|.+.++++.+.. +.+...+..+...+.+.
T Consensus        38 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~  116 (136)
T 2fo7_A           38 WYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQ  116 (136)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHCCCchHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHH
Confidence            4556778889999999999999775   3467788899999999999999999999998753 33677888899999999


Q ss_pred             CChhhHHHHHHHHhhc
Q 046694           79 GLVEKGKKFFDEMQAR   94 (118)
Q Consensus        79 ~~~~~a~~~~~~m~~~   94 (118)
                      |++++|.+.++++.+.
T Consensus       117 ~~~~~A~~~~~~~~~~  132 (136)
T 2fo7_A          117 GDYDEAIEYYQKALEL  132 (136)
T ss_dssp             TCHHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHcc
Confidence            9999999999998664

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=98.81  E-value=9.6e-08  Score=60.66  Aligned_cols=111  Identities=18%  Similarity=0.170  Sum_probs=83.5

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcC
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLG   78 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~   78 (118)
                      |..+..+|...|++++|...|++..   ..+...|..+...|...|++++|.+.|++..+.. +.+...+..+...+.+.
T Consensus        46 ~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~  124 (275)
T 1xnf_A           46 LYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAHLNRGIALYYG  124 (275)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC-ccccHHHHHHHHHHHHh
Confidence            4566778888999999999998764   3467888889999999999999999999987752 23577888888899999


Q ss_pred             CChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccc
Q 046694           79 GLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQ  115 (118)
Q Consensus        79 ~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~  115 (118)
                      |++++|.+.++++.+..  |+.......+..+.+.|+
T Consensus       125 g~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~  159 (275)
T 1xnf_A          125 GRDKLAQDDLLAFYQDD--PNDPFRSLWLYLAEQKLD  159 (275)
T ss_dssp             TCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHC
T ss_pred             ccHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHhcC
Confidence            99999999999987643  443333333334444444

>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=98.78  E-value=1.2e-07  Score=61.62  Aligned_cols=111  Identities=14%  Similarity=0.030  Sum_probs=57.9

Q ss_pred             HHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC--------CCccHHHHHHHHH
Q 046694            5 RLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDG--------VEYYPVSHIGVLT   73 (118)
Q Consensus         5 ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~--------~~p~~~~~~~ll~   73 (118)
                      +...|...|++++|...|++..   ..+...+..+...+...|++++|...|++..+..        .+.....+..+..
T Consensus       165 l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~  244 (330)
T 3hym_B          165 IGLEYGLTNNSKLAERFFSQALSIAPEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGH  244 (330)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHH
Confidence            3444555555555555555442   2244555555556666666666666665554321        0222345555555


Q ss_pred             HHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHcccc
Q 046694           74 ACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQK  116 (118)
Q Consensus        74 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~  116 (118)
                      .+.+.|++++|...+++..+.. +.+...+..+..+|.+.|+.
T Consensus       245 ~~~~~g~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~  286 (330)
T 3hym_B          245 VCRKLKKYAEALDYHRQALVLI-PQNASTYSAIGYIHSLMGNF  286 (330)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCH
T ss_pred             HHHHhcCHHHHHHHHHHHHhhC-ccchHHHHHHHHHHHHhccH
Confidence            5666666666666666554432 22345555555555555544

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=98.77  E-value=3e-07  Score=57.65  Aligned_cols=114  Identities=8%  Similarity=-0.045  Sum_probs=87.2

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCCC-----------------------------CCHhhHHHHHHHHHhcCCHHHHHHH
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLPV-----------------------------KDSASWITLILGYGMLGELDVAINL   52 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~~-----------------------------~~~~~~~~li~~~~~~~~~~~a~~~   52 (118)
                      |..+..+|.+.|++++|...|++...                             .+...|..+...+...|++++|...
T Consensus        82 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  161 (258)
T 3uq3_A           82 FARIGNAYHKLGDLKKTIEYYQKSLTEHRTADILTKLRNAEKELKKAEAEAYVNPEKAEEARLEGKEYFTKSDWPNAVKA  161 (258)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHhcCchhHHHHHHhHHHHHHHHHHHHHHcCcchHHHHHHHHHHHHHhcCHHHHHHH
Confidence            34566677788888888888776532                             2455777888888888999999999


Q ss_pred             HHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           53 FEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        53 ~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      |++..+.. +.+...+..+...+.+.|++++|.+.+++..+.. +.+...+..+-.+|.+.|+.+
T Consensus       162 ~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~  224 (258)
T 3uq3_A          162 YTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIAVKEYA  224 (258)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHhcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-HHHHHHHHHHHHHHHHHhhHH
Confidence            99987653 3367788888888899999999999999887653 335777888888888888754

>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=98.77  E-value=1.3e-07  Score=61.46  Aligned_cols=114  Identities=14%  Similarity=0.045  Sum_probs=67.8

Q ss_pred             hHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCC
Q 046694            3 EPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGG   79 (118)
Q Consensus         3 ~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~   79 (118)
                      ..+..+|...|++++|...|++..   ..+...+..+...|...|++++|.+.|++..+.. +.+...+..+...+.+.|
T Consensus       129 ~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~  207 (330)
T 3hym_B          129 IAYGHSFAVESEHDQAMAAYFTAAQLMKGCHLPMLYIGLEYGLTNNSKLAERFFSQALSIA-PEDPFVMHEVGVVAFQNG  207 (330)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHTTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcc
Confidence            345556666666666666666543   2234455556666666666777777666665542 234566666666777777


Q ss_pred             ChhhHHHHHHHHhhcC--------CCccHHHHHHHHHHHHHccccc
Q 046694           80 LVEKGKKFFDEMQARN--------VKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        80 ~~~~a~~~~~~m~~~g--------~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      ++++|...+++..+..        ......++..+..+|.+.|+.+
T Consensus       208 ~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  253 (330)
T 3hym_B          208 EWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYA  253 (330)
T ss_dssp             CHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHH
T ss_pred             cHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHH
Confidence            7777777776664421        1223456666666666666543

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.76  E-value=5.6e-07  Score=51.82  Aligned_cols=102  Identities=10%  Similarity=0.058  Sum_probs=84.0

Q ss_pred             hHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCC
Q 046694            3 EPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGG   79 (118)
Q Consensus         3 ~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~   79 (118)
                      ...-..|.+.|++++|+..|++..   ..+...|..+-..|.+.|++++|+..|++..+.. +.+...|..+-.++...|
T Consensus        17 ~~~G~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~   95 (126)
T 4gco_A           17 KNKGNEYFKKGDYPTAMRHYNEAVKRDPENAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYIRKAACLVAMR   95 (126)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHHHHHHHHHHCC
Confidence            445678899999999999999764   4588899999999999999999999999998753 236788999999999999


Q ss_pred             ChhhHHHHHHHHhhcCCCcc-HHHHHHHH
Q 046694           80 LVEKGKKFFDEMQARNVKPT-ETHYACMV  107 (118)
Q Consensus        80 ~~~~a~~~~~~m~~~g~~~~-~~t~~~li  107 (118)
                      ++++|.+.|++..+.  .|+ ......|-
T Consensus        96 ~~~~A~~~~~~al~l--~P~~~~a~~~l~  122 (126)
T 4gco_A           96 EWSKAQRAYEDALQV--DPSNEEAREGVR  122 (126)
T ss_dssp             CHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHH--CcCCHHHHHHHH
Confidence            999999999999774  443 44444443

>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=98.76  E-value=4.1e-07  Score=60.10  Aligned_cols=91  Identities=11%  Similarity=-0.008  Sum_probs=68.7

Q ss_pred             hHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCC
Q 046694            3 EPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGG   79 (118)
Q Consensus         3 ~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~   79 (118)
                      ..+...+.+.|++++|...|++..   ..+...|..+...+...|++++|.+.|++..+.. +.+...+..+...+...|
T Consensus        68 ~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g  146 (368)
T 1fch_A           68 FEEGLRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNES  146 (368)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcC
Confidence            345667778888888888888764   3466778888888888888888888888887653 336777788888888888


Q ss_pred             ChhhHHHHHHHHhhc
Q 046694           80 LVEKGKKFFDEMQAR   94 (118)
Q Consensus        80 ~~~~a~~~~~~m~~~   94 (118)
                      ++++|.+.++++.+.
T Consensus       147 ~~~~A~~~~~~~~~~  161 (368)
T 1fch_A          147 LQRQACEILRDWLRY  161 (368)
T ss_dssp             CHHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHh
Confidence            888888888776553

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=98.73  E-value=6.2e-07  Score=54.07  Aligned_cols=115  Identities=11%  Similarity=0.027  Sum_probs=72.1

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-----------------
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGV-----------------   61 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-----------------   61 (118)
                      |..|-..|.+.|++++|+..|++..   +.+...|..+-..|.+.|++++|...+++......                 
T Consensus         8 y~~lG~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (184)
T 3vtx_A            8 YMDIGDKKRTKGDFDGAIRAYKKVLKADPNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLDTTSAEAYYILGSANFMID   87 (184)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHcC
Confidence            4556677777788888887777653   33566666666777777777777766666543211                 


Q ss_pred             ---------------Cc-cHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           62 ---------------EY-YPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        62 ---------------~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                                     .| +...+..+-..+.+.|++++|.+.|++..+.. +.+...|..+-.+|.+.|+.+
T Consensus        88 ~~~~a~~~~~~a~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~~~g~~~  158 (184)
T 3vtx_A           88 EKQAAIDALQRAIALNTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYEGKGLRD  158 (184)
T ss_dssp             CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             CHHHHHHHHHHHHHhCccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHHHCCCHH
Confidence                           11 34445555666666677777777777765542 224566667777777766654

>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=98.73  E-value=3e-07  Score=67.20  Aligned_cols=112  Identities=9%  Similarity=0.019  Sum_probs=61.1

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc-cHHHHHHHHHHHhc
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEY-YPVSHIGVLTACSL   77 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~   77 (118)
                      |+.|-.+|.+.|++++|+..|++..   ..+...|+.+-..|.+.|++++|+..|++..+.  .| +...|..+-..+.+
T Consensus        12 l~nLG~~~~~~G~~~eAi~~~~kAl~l~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l--~P~~~~a~~nLg~~l~~   89 (723)
T 4gyw_A           12 LNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI--SPTFADAYSNMGNTLKE   89 (723)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHH
Confidence            3455556666666666666665443   224555566666666666666666666665543  23 34555555555556


Q ss_pred             CCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHcccc
Q 046694           78 GGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQK  116 (118)
Q Consensus        78 ~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~  116 (118)
                      .|++++|.+.|++..+.. +-+...|+.+-.+|.+.|++
T Consensus        90 ~g~~~~A~~~~~kAl~l~-P~~~~a~~~Lg~~~~~~g~~  127 (723)
T 4gyw_A           90 MQDVQGALQCYTRAIQIN-PAFADAHSNLASIHKDSGNI  127 (723)
T ss_dssp             TTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             cCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCH
Confidence            666666666665554432 11344555555555555544

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.73  E-value=7e-07  Score=49.00  Aligned_cols=94  Identities=10%  Similarity=-0.024  Sum_probs=80.0

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc--cHHHHHHHHHHHh
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEY--YPVSHIGVLTACS   76 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p--~~~~~~~ll~~~~   76 (118)
                      |..+...+.+.|++++|...|++..   ..+...|..+-..+...|++++|...|++..+.. +.  +...+..+...+.
T Consensus         9 ~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~l~~~~~   87 (112)
T 2kck_A            9 YYLEGVLQYDAGNYTESIDLFEKAIQLDPEESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAAKADALR   87 (112)
T ss_dssp             GGGHHHHHHSSCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHHHHHHHH
Confidence            5567788899999999999998764   4477888999999999999999999999998753 22  5788899999999


Q ss_pred             cC-CChhhHHHHHHHHhhcCC
Q 046694           77 LG-GLVEKGKKFFDEMQARNV   96 (118)
Q Consensus        77 ~~-~~~~~a~~~~~~m~~~g~   96 (118)
                      +. |++++|.+.+++..+..-
T Consensus        88 ~~~~~~~~A~~~~~~~~~~~p  108 (112)
T 2kck_A           88 YIEGKEVEAEIAEARAKLEHH  108 (112)
T ss_dssp             TCSSCSHHHHHHHHHHGGGCC
T ss_pred             HHhCCHHHHHHHHHHHhhccc
Confidence            99 999999999999977543

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=98.72  E-value=2.2e-07  Score=58.32  Aligned_cols=115  Identities=16%  Similarity=0.078  Sum_probs=94.4

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCCC--C-C-------HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC-----------
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLPV--K-D-------SASWITLILGYGMLGELDVAINLFEAMREDG-----------   60 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~~--~-~-------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-----------   60 (118)
                      |..+..+|.+.|++++|...|++...  | +       ...|..+...+...|++++|...|++..+..           
T Consensus        41 ~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~  120 (258)
T 3uq3_A           41 LNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFARIGNAYHKLGDLKKTIEYYQKSLTEHRTADILTKLRN  120 (258)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCHHHHHHHHH
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhcCchhHHHHHHhH
Confidence            45667788999999999999987652  2 1       5789999999999999999999999998732           


Q ss_pred             -------------CCc-cHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           61 -------------VEY-YPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        61 -------------~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                                   ..| +...+..+...+...|++++|.+.+++..+.. +.+...+..+..+|.+.|+++
T Consensus       121 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~  190 (258)
T 3uq3_A          121 AEKELKKAEAEAYVNPEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFP  190 (258)
T ss_dssp             HHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHcCcchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHhCCHH
Confidence                         233 46678888899999999999999999997754 336788999999999988765

>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=98.69  E-value=9.4e-07  Score=51.99  Aligned_cols=113  Identities=9%  Similarity=-0.015  Sum_probs=87.7

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcC
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLG   78 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~   78 (118)
                      |..+...+...|++++|...|++..   ..+...|..+...+...|++++|...|++..+.. +.+...+..+-..+.+.
T Consensus        16 ~~~~a~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~   94 (166)
T 1a17_A           16 LKTQANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMAL   94 (166)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHh
Confidence            4456678889999999999998764   3478889999999999999999999999998753 33677888899999999


Q ss_pred             CChhhHHHHHHHHhhcCCCccHHHH--HHHHHHHHHcccc
Q 046694           79 GLVEKGKKFFDEMQARNVKPTETHY--ACMVYLLIKYNQK  116 (118)
Q Consensus        79 ~~~~~a~~~~~~m~~~g~~~~~~t~--~~li~~~~~~g~~  116 (118)
                      |++++|...+++..+.... +...+  -.+...+.+.|++
T Consensus        95 ~~~~~A~~~~~~a~~~~p~-~~~~~~~~~~~~~~~~~~~~  133 (166)
T 1a17_A           95 GKFRAALRDYETVVKVKPH-DKDAKMKYQECNKIVKQKAF  133 (166)
T ss_dssp             TCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999775422 33344  3333335555554

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=98.68  E-value=1.2e-06  Score=52.79  Aligned_cols=94  Identities=17%  Similarity=0.133  Sum_probs=72.9

Q ss_pred             HHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChh
Q 046694            6 LDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVE   82 (118)
Q Consensus         6 l~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~   82 (118)
                      ...+...++++.|...+++..   ..+...+..+-..|.+.|++++|++.|++..+.. +-+...|..+-.++.+.|+++
T Consensus        80 ~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~~~g~~~  158 (184)
T 3vtx_A           80 GSANFMIDEKQAAIDALQRAIALNTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYEGKGLRD  158 (184)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHHHCCCHH
Confidence            344555666666666665443   3367788899999999999999999999998753 336788999999999999999


Q ss_pred             hHHHHHHHHhhcCCCccHHH
Q 046694           83 KGKKFFDEMQARNVKPTETH  102 (118)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~t  102 (118)
                      +|.+.|++..+.  .|+...
T Consensus       159 ~A~~~~~~al~~--~p~~a~  176 (184)
T 3vtx_A          159 EAVKYFKKALEK--EEKKAK  176 (184)
T ss_dssp             HHHHHHHHHHHT--THHHHH
T ss_pred             HHHHHHHHHHhC--CccCHH
Confidence            999999998774  455433

>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=98.68  E-value=8.5e-07  Score=64.86  Aligned_cols=114  Identities=6%  Similarity=0.010  Sum_probs=98.7

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc-cHHHHHHHHHHHhc
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEY-YPVSHIGVLTACSL   77 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~   77 (118)
                      |+.|-.+|.+.|++++|+..|++..   ..+...|..+-..|...|++++|++.|++..+.  .| +...|+.+-..+.+
T Consensus        46 ~~nLg~~l~~~g~~~eA~~~~~~Al~l~P~~~~a~~nLg~~l~~~g~~~~A~~~~~kAl~l--~P~~~~a~~~Lg~~~~~  123 (723)
T 4gyw_A           46 HSNLASVLQQQGKLQEALMHYKEAIRISPTFADAYSNMGNTLKEMQDVQGALQCYTRAIQI--NPAFADAHSNLASIHKD  123 (723)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHH
Confidence            5677889999999999999999764   447889999999999999999999999998875  34 57889999999999


Q ss_pred             CCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHcccccC
Q 046694           78 GGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQKAR  118 (118)
Q Consensus        78 ~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~~  118 (118)
                      .|++++|.+.|++..+.. +-+...+..+..+|.+.|++++
T Consensus       124 ~g~~~eAi~~~~~Al~l~-P~~~~a~~~L~~~l~~~g~~~~  163 (723)
T 4gyw_A          124 SGNIPEAIASYRTALKLK-PDFPDAYCNLAHCLQIVCDWTD  163 (723)
T ss_dssp             TTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCCTT
T ss_pred             cCCHHHHHHHHHHHHHhC-CCChHHHhhhhhHHHhcccHHH
Confidence            999999999999997753 2257889999999999998764

>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=98.68  E-value=3.2e-07  Score=54.28  Aligned_cols=109  Identities=15%  Similarity=0.060  Sum_probs=74.3

Q ss_pred             HHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc-cHHHHHHHHHHHhcCC
Q 046694            4 PRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEY-YPVSHIGVLTACSLGG   79 (118)
Q Consensus         4 ~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~   79 (118)
                      .+-.+|.+.|++++|+..|++..   ..+...|..+-..|.+.|++++|...|++..+.  .| +...+..+-..+.+.|
T Consensus        36 ~la~~y~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~~  113 (150)
T 4ga2_A           36 YFAKLYYEAKEYDLAKKYICTYINVQERDPKAHRFLGLLYELEENTDKAVECYRRSVEL--NPTQKDLVLKIAELLCKND  113 (150)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCchHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcC
Confidence            35567778888888888887654   347777888888888888888888888887664  34 4667777777778888


Q ss_pred             ChhhHHHH-HHHHhhcCCCccHHHHHHHHHHHHHccc
Q 046694           80 LVEKGKKF-FDEMQARNVKPTETHYACMVYLLIKYNQ  115 (118)
Q Consensus        80 ~~~~a~~~-~~~m~~~g~~~~~~t~~~li~~~~~~g~  115 (118)
                      +.+++.+. +++..+.. +-++..|...-..+.+.|+
T Consensus       114 ~~~~aa~~~~~~al~l~-P~~~~~~~l~~~ll~~~G~  149 (150)
T 4ga2_A          114 VTDGRAKYWVERAAKLF-PGSPAVYKLKEQLLDCEGE  149 (150)
T ss_dssp             SSSSHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTCCC
T ss_pred             ChHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCc
Confidence            87765554 46665532 2245666666666665553

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.68  E-value=4e-07  Score=54.32  Aligned_cols=92  Identities=15%  Similarity=0.052  Sum_probs=78.8

Q ss_pred             hHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCC
Q 046694            3 EPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGG   79 (118)
Q Consensus         3 ~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~   79 (118)
                      ..+-..+.+.|++++|+..|++..   ..+...|..+-..|...|++++|+..|++..+.. +-+...|..+-.++.+.|
T Consensus        40 ~~lg~~~~~~g~~~eA~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~-P~~~~~~~~lg~~~~~lg  118 (151)
T 3gyz_A           40 YSYAYDFYNKGRIEEAEVFFRFLCIYDFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALG-KNDYTPVFHTGQCQLRLK  118 (151)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SSCCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcC
Confidence            345567889999999999999775   3478899999999999999999999999998753 225788889999999999


Q ss_pred             ChhhHHHHHHHHhhcC
Q 046694           80 LVEKGKKFFDEMQARN   95 (118)
Q Consensus        80 ~~~~a~~~~~~m~~~g   95 (118)
                      ++++|...|++..+..
T Consensus       119 ~~~eA~~~~~~al~l~  134 (151)
T 3gyz_A          119 APLKAKECFELVIQHS  134 (151)
T ss_dssp             CHHHHHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHHhC
Confidence            9999999999997754

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=98.68  E-value=6.9e-07  Score=56.72  Aligned_cols=112  Identities=12%  Similarity=0.037  Sum_probs=85.5

Q ss_pred             HHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcc--HHHHHHHHHHHhcCC
Q 046694            5 RLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYY--PVSHIGVLTACSLGG   79 (118)
Q Consensus         5 ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~--~~~~~~ll~~~~~~~   79 (118)
                      ....+.+.|++++|+..|++..   ..+...|..+...|...|++++|.+.|++..+.+-.|+  ...|..+-..+...|
T Consensus         9 ~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~~~~~   88 (272)
T 3u4t_A            9 YADFLFKNNNYAEAIEVFNKLEAKKYNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKILMKKG   88 (272)
T ss_dssp             HHHHHHTTTCHHHHHHHHHHHHHTTCCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHHcc
Confidence            4567778899999999998764   33566888888889999999999999999877432222  334788888888999


Q ss_pred             ChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           80 LVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        80 ~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      ++++|.+.|++..+.. +.+...+..+-.+|.+.|+++
T Consensus        89 ~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~  125 (272)
T 3u4t_A           89 QDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFP  125 (272)
T ss_dssp             CHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHH
T ss_pred             cHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHH
Confidence            9999999999887643 235678888888888888764

>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=98.67  E-value=1.2e-06  Score=51.71  Aligned_cols=110  Identities=13%  Similarity=-0.015  Sum_probs=89.1

Q ss_pred             HHHHHhcCCHHHHHHHhhhCCCC---CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChh
Q 046694            6 LDFYTRTGRIDLANKIFDRLPVK---DSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVE   82 (118)
Q Consensus         6 l~~~~~~~~~~~a~~~~~~m~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~   82 (118)
                      -..+...|++++|+..+++....   +...+-.+-..|.+.|++++|.+.|++..+.. +-+...|..+-.++.+.|+++
T Consensus         4 G~~~~~~~~~e~ai~~~~~a~~~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~   82 (150)
T 4ga2_A            4 GSMRRSKADVERYIASVQGSTPSPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQ-ERDPKAHRFLGLLYELEENTD   82 (150)
T ss_dssp             ---CCCHHHHHHHHHHHHHHSCSHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHcChHHHHHHHHHHhcccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCchH
Confidence            34556678999999999877633   55667778899999999999999999998753 226889999999999999999


Q ss_pred             hHHHHHHHHhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           83 KGKKFFDEMQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      +|...|++..+.. +-+...+..+-.+|.+.|+.+
T Consensus        83 ~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~  116 (150)
T 4ga2_A           83 KAVECYRRSVELN-PTQKDLVLKIAELLCKNDVTD  116 (150)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCSSS
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChH
Confidence            9999999998753 225788999999999988765

>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=98.67  E-value=7.6e-07  Score=51.22  Aligned_cols=103  Identities=8%  Similarity=-0.059  Sum_probs=81.4

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCcc----HHHHHHHH
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDG--VEYY----PVSHIGVL   72 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~--~~p~----~~~~~~ll   72 (118)
                      +..|-..+.+.|++++|+..|++..   ..+...|+.+-..|.+.|++++|++.|++..+..  ..++    ..+|..+-
T Consensus        11 ~~~lG~~~~~~~~~~~A~~~y~~Al~~~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg   90 (127)
T 4gcn_A           11 EKDLGNAAYKQKDFEKAHVHYDKAIELDPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSRAG   90 (127)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHHHH
Confidence            4556778999999999999998764   4578899999999999999999999999986531  1111    24677778


Q ss_pred             HHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHH
Q 046694           73 TACSLGGLVEKGKKFFDEMQARNVKPTETHYACM  106 (118)
Q Consensus        73 ~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~l  106 (118)
                      .++...|++++|.+.|++..+  ..||+.+...|
T Consensus        91 ~~~~~~~~~~~A~~~~~kal~--~~~~~~~~~~l  122 (127)
T 4gcn_A           91 NAFQKQNDLSLAVQWFHRSLS--EFRDPELVKKV  122 (127)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH--HSCCHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHh--hCcCHHHHHHH
Confidence            888999999999999999876  35666655444

>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=98.66  E-value=1.4e-07  Score=59.86  Aligned_cols=116  Identities=13%  Similarity=0.089  Sum_probs=93.4

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC-----------CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc------CC-Cc
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP-----------VKDSASWITLILGYGMLGELDVAINLFEAMRED------GV-EY   63 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~-----------~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------~~-~p   63 (118)
                      |..+...|...|++++|...|++..           .....+|..+-..|...|++++|.+.|++..+.      .- +.
T Consensus        46 ~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  125 (283)
T 3edt_B           46 LNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPD  125 (283)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHH
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChH
Confidence            4567788899999999999998664           124568889999999999999999999998654      11 23


Q ss_pred             cHHHHHHHHHHHhcCCChhhHHHHHHHHhhc------CCCc-cHHHHHHHHHHHHHccccc
Q 046694           64 YPVSHIGVLTACSLGGLVEKGKKFFDEMQAR------NVKP-TETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        64 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~------g~~~-~~~t~~~li~~~~~~g~~~  117 (118)
                      ....+..+-..+...|++++|..++++..+.      +-.| ...++..+-.+|.+.|+.+
T Consensus       126 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  186 (283)
T 3edt_B          126 VAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNNLASCYLKQGKYQ  186 (283)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHH
Confidence            5678888999999999999999999998664      2233 4678888999999988765

>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=98.65  E-value=3.1e-06  Score=46.71  Aligned_cols=104  Identities=11%  Similarity=0.016  Sum_probs=83.5

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcC
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLG   78 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~   78 (118)
                      |..+...+...|++++|...|++..   ..+...+..+...+...|++++|...+++..+.. +.+...+..+...+.+.
T Consensus         7 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~   85 (118)
T 1elw_A            7 LKEKGNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFL   85 (118)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHH
Confidence            4456778889999999999999764   3477888999999999999999999999998753 23577888899999999


Q ss_pred             CChhhHHHHHHHHhhcCCCccHHHHHHHH
Q 046694           79 GLVEKGKKFFDEMQARNVKPTETHYACMV  107 (118)
Q Consensus        79 ~~~~~a~~~~~~m~~~g~~~~~~t~~~li  107 (118)
                      |++++|.+.+++..+... .+...+..+-
T Consensus        86 ~~~~~A~~~~~~~~~~~~-~~~~~~~~l~  113 (118)
T 1elw_A           86 NRFEEAKRTYEEGLKHEA-NNPQLKEGLQ  113 (118)
T ss_dssp             TCHHHHHHHHHHHHTTCT-TCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCC-CCHHHHHHHH
Confidence            999999999999876532 2344444443

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=98.63  E-value=1e-06  Score=60.49  Aligned_cols=105  Identities=13%  Similarity=0.048  Sum_probs=87.3

Q ss_pred             HHHHHHHhcCCHHHHHHHhhhCC--CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCCh
Q 046694            4 PRLDFYTRTGRIDLANKIFDRLP--VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLV   81 (118)
Q Consensus         4 ~ll~~~~~~~~~~~a~~~~~~m~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~   81 (118)
                      .+-..+.+.|++++|+..|+++.  .|+...|..+...+.+.|++++|...|+++.+.. +.+...+..+..++.+.|++
T Consensus        11 ~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~   89 (514)
T 2gw1_A           11 DKGNQFFRNKKYDDAIKYYNWALELKEDPVFYSNLSACYVSVGDLKKVVEMSTKALELK-PDYSKVLLRRASANEGLGKF   89 (514)
T ss_dssp             HHHHHHHHTSCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHhcCccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC-hHHHHHHHHHHHHHHHHhhH
Confidence            45567889999999999999886  5899999999999999999999999999998764 33678899999999999999


Q ss_pred             hhHHHHHHHHhhcCCCccHHHHHHHHHHH
Q 046694           82 EKGKKFFDEMQARNVKPTETHYACMVYLL  110 (118)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~~t~~~li~~~  110 (118)
                      ++|...|+++.+.+- ++......++..+
T Consensus        90 ~~A~~~~~~~~~~~~-~~~~~~~~~~~~~  117 (514)
T 2gw1_A           90 ADAMFDLSVLSLNGD-FNDASIEPMLERN  117 (514)
T ss_dssp             HHHHHHHHHHHHSSS-CCGGGTHHHHHHH
T ss_pred             HHHHHHHHHHHhcCC-CccchHHHHHHHH
Confidence            999999999987663 3444444444433

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=98.62  E-value=2.4e-07  Score=59.68  Aligned_cols=92  Identities=11%  Similarity=0.108  Sum_probs=75.7

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCCC----------C-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc------CCCc-
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLPV----------K-DSASWITLILGYGMLGELDVAINLFEAMRED------GVEY-   63 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~~----------~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------~~~p-   63 (118)
                      |..+...|...|++++|...|++...          + ....+..+...+...|++++|.+.|++..+.      +-.| 
T Consensus       114 ~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~  193 (311)
T 3nf1_A          114 LNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPN  193 (311)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHH
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHH
Confidence            45677888999999999999987641          2 4557888889999999999999999999764      2233 


Q ss_pred             cHHHHHHHHHHHhcCCChhhHHHHHHHHhh
Q 046694           64 YPVSHIGVLTACSLGGLVEKGKKFFDEMQA   93 (118)
Q Consensus        64 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~   93 (118)
                      ...++..+...+.+.|++++|.+.+++..+
T Consensus       194 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~  223 (311)
T 3nf1_A          194 VAKTKNNLASCYLKQGKFKQAETLYKEILT  223 (311)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            456788899999999999999999999865

>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=98.62  E-value=2.1e-06  Score=48.71  Aligned_cols=93  Identities=13%  Similarity=0.019  Sum_probs=79.3

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcC
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLG   78 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~   78 (118)
                      |..+-..+.+.|++++|+..|++..   ..+...|..+-..+.+.|++++|+..|++..+.. +-+...|..+-.++...
T Consensus         7 ~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~   85 (126)
T 3upv_A            7 ARLEGKEYFTKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIAV   85 (126)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHH
Confidence            3455678889999999999998764   4478899999999999999999999999998753 23578888999999999


Q ss_pred             CChhhHHHHHHHHhhcC
Q 046694           79 GLVEKGKKFFDEMQARN   95 (118)
Q Consensus        79 ~~~~~a~~~~~~m~~~g   95 (118)
                      |++++|...|++..+..
T Consensus        86 ~~~~~A~~~~~~al~~~  102 (126)
T 3upv_A           86 KEYASALETLDAARTKD  102 (126)
T ss_dssp             TCHHHHHHHHHHHHHHH
T ss_pred             hCHHHHHHHHHHHHHhC
Confidence            99999999999986643

>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=98.61  E-value=2.4e-07  Score=58.72  Aligned_cols=92  Identities=11%  Similarity=0.092  Sum_probs=76.3

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCCC----------C-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc------CCCc-
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLPV----------K-DSASWITLILGYGMLGELDVAINLFEAMRED------GVEY-   63 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~~----------~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------~~~p-   63 (118)
                      |..+..+|...|++++|...|++...          | ...+|..+-..|...|++++|...|++..+.      +-.| 
T Consensus        88 ~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  167 (283)
T 3edt_B           88 LNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPN  167 (283)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHH
Confidence            45677889999999999999987641          2 4568888999999999999999999999764      2133 


Q ss_pred             cHHHHHHHHHHHhcCCChhhHHHHHHHHhh
Q 046694           64 YPVSHIGVLTACSLGGLVEKGKKFFDEMQA   93 (118)
Q Consensus        64 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~   93 (118)
                      ...++..+...+.+.|++++|..++++..+
T Consensus       168 ~~~~~~~la~~~~~~g~~~~A~~~~~~~l~  197 (283)
T 3edt_B          168 VAKTKNNLASCYLKQGKYQDAETLYKEILT  197 (283)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            467888899999999999999999999855

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.60  E-value=4.2e-06  Score=49.71  Aligned_cols=110  Identities=8%  Similarity=-0.070  Sum_probs=86.3

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcC
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLG   78 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~   78 (118)
                      |..+-..+.+.|++++|+..|++..   ..+...|..+-..|.+.|++++|+..|++..+.. +-+...|..+-.++.+.
T Consensus        14 ~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~   92 (164)
T 3sz7_A           14 LKSEGNAAMARKEYSKAIDLYTQALSIAPANPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWSRLGLARFDM   92 (164)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHc
Confidence            3456678889999999999999765   3478899999999999999999999999998763 23588899999999999


Q ss_pred             CChhhHHHHHHHHhhcCC-CccHHHHHHHHHHHHH
Q 046694           79 GLVEKGKKFFDEMQARNV-KPTETHYACMVYLLIK  112 (118)
Q Consensus        79 ~~~~~a~~~~~~m~~~g~-~~~~~t~~~li~~~~~  112 (118)
                      |++++|.+.|++..+..- .++......+..+..+
T Consensus        93 g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~~  127 (164)
T 3sz7_A           93 ADYKGAKEAYEKGIEAEGNGGSDAMKRGLETTKRK  127 (164)
T ss_dssp             TCHHHHHHHHHHHHHHHSSSCCHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHHH
Confidence            999999999999866432 2233334444444443

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=98.60  E-value=1.1e-06  Score=57.37  Aligned_cols=77  Identities=9%  Similarity=-0.037  Sum_probs=42.1

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHcccc
Q 046694           38 LGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQK  116 (118)
Q Consensus        38 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~  116 (118)
                      ..+...|++++|.+.|++..+.. +.+...+..+...+.+.|++++|...+++..+.. +.+..++..+..+|.+.|+.
T Consensus       128 ~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~  204 (359)
T 3ieg_A          128 LDAFDGADYTAAITFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDH  204 (359)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHccCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCH
Confidence            44555555555555555554432 2244555555666666666666666666665432 23455566666666655554

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=98.58  E-value=6.5e-07  Score=57.61  Aligned_cols=116  Identities=13%  Similarity=0.076  Sum_probs=92.7

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC-----------CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc------CCCc-
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP-----------VKDSASWITLILGYGMLGELDVAINLFEAMRED------GVEY-   63 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~-----------~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------~~~p-   63 (118)
                      +..+...|...|++++|...|++..           ......+..+...|...|++++|.+.|++..+.      +-.| 
T Consensus        72 ~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~  151 (311)
T 3nf1_A           72 LNILALVYRDQNKYKDAANLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPD  151 (311)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChH
Confidence            4567778899999999999998664           114568888999999999999999999999754      2233 


Q ss_pred             cHHHHHHHHHHHhcCCChhhHHHHHHHHhhc------CCCc-cHHHHHHHHHHHHHccccc
Q 046694           64 YPVSHIGVLTACSLGGLVEKGKKFFDEMQAR------NVKP-TETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        64 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~------g~~~-~~~t~~~li~~~~~~g~~~  117 (118)
                      ....+..+...+...|++++|.+++++..+.      +..| ...++..+..+|.+.|+.+
T Consensus       152 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  212 (311)
T 3nf1_A          152 VAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFK  212 (311)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHH
Confidence            4567888899999999999999999998664      2233 3567888999999988765

>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=98.57  E-value=4.4e-06  Score=47.76  Aligned_cols=110  Identities=7%  Similarity=-0.100  Sum_probs=86.5

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcC
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLG   78 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~   78 (118)
                      |..+...+.+.|++++|...|++..   ..+...|..+-..+...|++++|...|++..+.. +-+...+..+-.++...
T Consensus        12 ~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~   90 (137)
T 3q49_B           12 LKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQCQLEM   90 (137)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhCcHHHHHHHHHHHHhhCcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHH
Confidence            3456678889999999999998764   4477889999999999999999999999998753 23678889999999999


Q ss_pred             CChhhHHHHHHHHhhcC----CCccHHHHHHHHHHHHH
Q 046694           79 GLVEKGKKFFDEMQARN----VKPTETHYACMVYLLIK  112 (118)
Q Consensus        79 ~~~~~a~~~~~~m~~~g----~~~~~~t~~~li~~~~~  112 (118)
                      |+++.|...|++..+..    ...+......+..+..+
T Consensus        91 ~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~l~~~~~~  128 (137)
T 3q49_B           91 ESYDEAIANLQRAYSLAKEQRLNFGDDIPSALRIAKKK  128 (137)
T ss_dssp             TCHHHHHHHHHHHHHHHHHTTCCCTTHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHChhHHHHHHHHHHHHHHHHHHH
Confidence            99999999999985432    22345555555555443

>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=98.57  E-value=5e-06  Score=49.02  Aligned_cols=91  Identities=15%  Similarity=0.027  Sum_probs=77.4

Q ss_pred             hHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCC
Q 046694            3 EPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGG   79 (118)
Q Consensus         3 ~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~   79 (118)
                      ..+-..+.+.|++++|+..|++..   ..+...|..+-..|...|++++|...|++..+.. +-+...+..+-.++...|
T Consensus        25 ~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~~g  103 (148)
T 2vgx_A           25 YSLAFNQYQSGXYEDAHXVFQALCVLDHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-IXEPRFPFHAAECLLQXG  103 (148)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHcCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHHHHcC
Confidence            345667889999999999999764   4488889999999999999999999999997753 236778888999999999


Q ss_pred             ChhhHHHHHHHHhhc
Q 046694           80 LVEKGKKFFDEMQAR   94 (118)
Q Consensus        80 ~~~~a~~~~~~m~~~   94 (118)
                      ++++|.+.|++..+.
T Consensus       104 ~~~~A~~~~~~al~~  118 (148)
T 2vgx_A          104 ELAEAESGLFLAQEL  118 (148)
T ss_dssp             CHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHH
Confidence            999999999998664

>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=98.57  E-value=5.1e-07  Score=58.49  Aligned_cols=107  Identities=9%  Similarity=-0.021  Sum_probs=91.7

Q ss_pred             HHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHH
Q 046694            9 YTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGK   85 (118)
Q Consensus         9 ~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~   85 (118)
                      +...|++++|...|++..   ..+...+..+...+...|++++|.+.+++..+.. +.+...+..+...+.+.|++++|.
T Consensus       148 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~  226 (327)
T 3cv0_A          148 FAAPNEYRECRTLLHAALEMNPNDAQLHASLGVLYNLSNNYDSAAANLRRAVELR-PDDAQLWNKLGATLANGNRPQEAL  226 (327)
T ss_dssp             TTSHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHcccHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHH
Confidence            677889999999998875   3478899999999999999999999999998753 336788999999999999999999


Q ss_pred             HHHHHHhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           86 KFFDEMQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        86 ~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      +.+++..+.. +.+...+..+..+|.+.|+.+
T Consensus       227 ~~~~~a~~~~-~~~~~~~~~l~~~~~~~g~~~  257 (327)
T 3cv0_A          227 DAYNRALDIN-PGYVRVMYNMAVSYSNMSQYD  257 (327)
T ss_dssp             HHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHcC-CCCHHHHHHHHHHHHHhccHH
Confidence            9999997753 336788999999999988765

>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=98.55  E-value=7.7e-07  Score=61.58  Aligned_cols=112  Identities=11%  Similarity=-0.006  Sum_probs=69.7

Q ss_pred             HHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCC
Q 046694            4 PRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGL   80 (118)
Q Consensus         4 ~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~   80 (118)
                      .+...|.+.|++++|...|++..   ..+..+|..+...+...|++++|...|++..+.. +-+...+..+...+.+.|+
T Consensus       281 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~  359 (537)
T 3fp2_A          281 FLALTLADKENSQEFFKFFQKAVDLNPEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLN-PENVYPYIQLACLLYKQGK  359 (537)
T ss_dssp             HHHHHTCCSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCSHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHhccCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCC
Confidence            34455556666666666666553   2355666667777777777777777777766542 1234566666677777777


Q ss_pred             hhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           81 VEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        81 ~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      +++|...+++..+.. +.+...+..+..++.+.|+++
T Consensus       360 ~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~  395 (537)
T 3fp2_A          360 FTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFD  395 (537)
T ss_dssp             HHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHH
Confidence            777777777765542 234556666666666666543

>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=98.54  E-value=2.7e-06  Score=57.89  Aligned_cols=114  Identities=10%  Similarity=0.026  Sum_probs=76.7

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCC-HHHHHHHHHHHHHcCCCccHHHHHHHHHHHhc
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGE-LDVAINLFEAMREDGVEYYPVSHIGVLTACSL   77 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~-~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~   77 (118)
                      |+.+-.++.+.|++++|+..|++..   ..+...|+.+-..+...|+ +++|+..|++..+.. +-+...|..+-.++.+
T Consensus       100 ~~~lg~~~~~~g~~~~Al~~~~~al~l~P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~-P~~~~a~~~~g~~~~~  178 (382)
T 2h6f_A          100 YDYFRAVLQRDERSERAFKLTRDAIELNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVLVEW  178 (382)
T ss_dssp             HHHHHHHHHHTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCChHHHHHHHHHHHHhCccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHH
Confidence            3445566677777888887777654   3366677777777777775 888888887776642 1256667777777777


Q ss_pred             CCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           78 GGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        78 ~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      .|++++|...|++..+.. +-+...|..+-.++.+.|+++
T Consensus       179 ~g~~~eAl~~~~kal~ld-P~~~~a~~~lg~~~~~~g~~~  217 (382)
T 2h6f_A          179 LRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWD  217 (382)
T ss_dssp             HTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCT
T ss_pred             ccCHHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChH
Confidence            777777777777776643 224666666666666666654

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.54  E-value=2.5e-06  Score=49.72  Aligned_cols=90  Identities=18%  Similarity=0.026  Sum_probs=76.6

Q ss_pred             HHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCC
Q 046694            4 PRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGL   80 (118)
Q Consensus         4 ~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~   80 (118)
                      .+-..+.+.|++++|+..|++..   ..+...|..+-..+...|++++|...|++..+.. +-+...+..+-.++...|+
T Consensus        23 ~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~  101 (142)
T 2xcb_A           23 ALGFNQYQAGKWDDAQKIFQALCMLDHYDARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAAECHLQLGD  101 (142)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCC
Confidence            34567788999999999999764   3478889999999999999999999999998763 2366778888999999999


Q ss_pred             hhhHHHHHHHHhhc
Q 046694           81 VEKGKKFFDEMQAR   94 (118)
Q Consensus        81 ~~~a~~~~~~m~~~   94 (118)
                      +++|.+.|++..+.
T Consensus       102 ~~~A~~~~~~al~~  115 (142)
T 2xcb_A          102 LDGAESGFYSARAL  115 (142)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh
Confidence            99999999998664

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=98.54  E-value=7.2e-07  Score=56.57  Aligned_cols=106  Identities=11%  Similarity=-0.033  Sum_probs=89.4

Q ss_pred             HhcCCHHHHHHHhhhCCC-------CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChh
Q 046694           10 TRTGRIDLANKIFDRLPV-------KDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVE   82 (118)
Q Consensus        10 ~~~~~~~~a~~~~~~m~~-------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~   82 (118)
                      ...|++++|+..|+++..       .+...|..+...+...|++++|...|++..+.. +.+...+..+...+...|+++
T Consensus        16 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~   94 (275)
T 1xnf_A           16 QPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFD   94 (275)
T ss_dssp             CCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHH
T ss_pred             CccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHH
Confidence            345789999999987753       156789999999999999999999999998753 336889999999999999999


Q ss_pred             hHHHHHHHHhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           83 KGKKFFDEMQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      +|.+.|++..+.. +.+...+..+..+|.+.|+.+
T Consensus        95 ~A~~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~  128 (275)
T 1xnf_A           95 AAYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDK  128 (275)
T ss_dssp             HHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHhcC-ccccHHHHHHHHHHHHhccHH
Confidence            9999999997753 335788999999999988865

>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=98.53  E-value=2.8e-06  Score=54.30  Aligned_cols=102  Identities=10%  Similarity=0.000  Sum_probs=57.7

Q ss_pred             HHHHHHhcCCHHHHHHHhhhCCCC-CHhhHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhc--
Q 046694            5 RLDFYTRTGRIDLANKIFDRLPVK-DSASWITLILGYGM----LGELDVAINLFEAMREDGVEYYPVSHIGVLTACSL--   77 (118)
Q Consensus         5 ll~~~~~~~~~~~a~~~~~~m~~~-~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~--   77 (118)
                      +-..|.+.|++++|...|++...+ +...+..+-..|..    .+++++|.+.|++..+.+   +...+..+-..|..  
T Consensus        12 lg~~~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~   88 (273)
T 1ouv_A           12 LGAKSYKEKDFTQAKKYFEKACDLKENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHLLGNLYYSGQ   88 (273)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTS
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHhCCC
Confidence            344555566666666666554322 44455555555665    666666666666665544   44555555555555  


Q ss_pred             --CCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHH
Q 046694           78 --GGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIK  112 (118)
Q Consensus        78 --~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~  112 (118)
                        .+++++|.+.|++..+.+   +...+..+-..|.+
T Consensus        89 ~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~  122 (273)
T 1ouv_A           89 GVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHD  122 (273)
T ss_dssp             SSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHH
T ss_pred             CcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHc
Confidence              666666666666665543   44555555555554

>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=98.51  E-value=2.8e-06  Score=56.55  Aligned_cols=114  Identities=12%  Similarity=0.049  Sum_probs=93.7

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC--CC-C---------------HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP--VK-D---------------SASWITLILGYGMLGELDVAINLFEAMREDGVEY   63 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~--~~-~---------------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p   63 (118)
                      |..+-..|.+.|++++|+..|++..  .| +               ...|..+-..|.+.|++++|+..|++..+.. +.
T Consensus       150 ~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p~  228 (336)
T 1p5q_A          150 VKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELD-SN  228 (336)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TT
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CC
Confidence            4456678889999999999998764  23 3               5889999999999999999999999998753 33


Q ss_pred             cHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           64 YPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        64 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      +...+..+-.++...|++++|...|++..+.. +.+...+..+-.++.+.|+.+
T Consensus       229 ~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~  281 (336)
T 1p5q_A          229 NEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQQRIRRQL  281 (336)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHH
Confidence            78889999999999999999999999997753 235677888888888777653

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=98.51  E-value=6.6e-07  Score=62.19  Aligned_cols=69  Identities=14%  Similarity=0.006  Sum_probs=29.1

Q ss_pred             HHHhcCCH-HHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcC
Q 046694            8 FYTRTGRI-DLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLG   78 (118)
Q Consensus         8 ~~~~~~~~-~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~   78 (118)
                      .|...|++ ++|+..|++..   ..+...|..+-..|...|++++|.+.|++..+.  .|+...+..+-..+...
T Consensus       111 ~~~~~g~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~lg~~~~~~  183 (474)
T 4abn_A          111 ALNVTPDYSPEAEVLLSKAVKLEPELVEAWNQLGEVYWKKGDVTSAHTCFSGALTH--CKNKVSLQNLSMVLRQL  183 (474)
T ss_dssp             HHTSSSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT--CCCHHHHHHHHHHHTTC
T ss_pred             HHHhccccHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCHHHHHHHHHHHHHh
Confidence            33444444 44444444332   123344444444444444444444444444332  23334444444444444

>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=98.50  E-value=6.5e-06  Score=51.20  Aligned_cols=112  Identities=9%  Similarity=-0.095  Sum_probs=87.5

Q ss_pred             hHHHHHHHhcCCHHHHHHHhhhCC---C-CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcC
Q 046694            3 EPRLDFYTRTGRIDLANKIFDRLP---V-KDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLG   78 (118)
Q Consensus         3 ~~ll~~~~~~~~~~~a~~~~~~m~---~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~   78 (118)
                      ..+-..+.+.|++++|+..|++..   . ++...+..+-..+...|++++|.+.|++..+.. +-+...+..+-..+.+.
T Consensus        11 ~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~   89 (228)
T 4i17_A           11 KNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKN-YNLANAYIGKSAAYRDM   89 (228)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-CSHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhC-cchHHHHHHHHHHHHHc
Confidence            345567889999999999998764   3 677788888999999999999999999998753 22677888999999999


Q ss_pred             CChhhHHHHHHHHhhcCCCccH-------HHHHHHHHHHHHcccc
Q 046694           79 GLVEKGKKFFDEMQARNVKPTE-------THYACMVYLLIKYNQK  116 (118)
Q Consensus        79 ~~~~~a~~~~~~m~~~g~~~~~-------~t~~~li~~~~~~g~~  116 (118)
                      |++++|...+++..+... .+.       ..|..+-.++.+.|+.
T Consensus        90 ~~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~g~~~~~~~~~  133 (228)
T 4i17_A           90 KNNQEYIATLTEGIKAVP-GNATIEKLYAIYYLKEGQKFQQAGNI  133 (228)
T ss_dssp             TCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHHHHHHHTTCH
T ss_pred             ccHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHHHhHHHHHhccH
Confidence            999999999999977432 234       3455555555555554

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=98.50  E-value=8.7e-07  Score=60.83  Aligned_cols=111  Identities=8%  Similarity=-0.003  Sum_probs=55.8

Q ss_pred             HHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-cc----HHHHHHHHHHHh
Q 046694            5 RLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVE-YY----PVSHIGVLTACS   76 (118)
Q Consensus         5 ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-p~----~~~~~~ll~~~~   76 (118)
                      +...|.+.|++++|...|++..   ..+...|..+...+...|++++|...|+++.+..-. ++    ...+..+...+.
T Consensus       344 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~  423 (514)
T 2gw1_A          344 LACLAYRENKFDDCETLFSEAKRKFPEAPEVPNFFAEILTDKNDFDKALKQYDLAIELENKLDGIYVGIAPLVGKATLLT  423 (514)
T ss_dssp             HHHHTTTTTCHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHh
Confidence            3444455555555555555442   223445555555555555666665555555432100 11    225555555555


Q ss_pred             c---CCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHcccc
Q 046694           77 L---GGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQK  116 (118)
Q Consensus        77 ~---~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~  116 (118)
                      +   .|++++|.+.+++..+.. +.+..++..+..+|.+.|+.
T Consensus       424 ~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~  465 (514)
T 2gw1_A          424 RNPTVENFIEATNLLEKASKLD-PRSEQAKIGLAQMKLQQEDI  465 (514)
T ss_dssp             TSCCTTHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             hhhhcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhcCH
Confidence            5   566666666666554432 22345555555555555544

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=98.49  E-value=3.5e-06  Score=55.02  Aligned_cols=86  Identities=8%  Similarity=0.023  Sum_probs=37.5

Q ss_pred             HHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChh
Q 046694            6 LDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVE   82 (118)
Q Consensus         6 l~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~   82 (118)
                      ...+.+.|++++|..+|++..   ..+...|..+...+...|++++|...|++..+.. +-+...+..+...+.+.|+++
T Consensus        10 ~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~   88 (359)
T 3ieg_A           10 GKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGHLLLKQGKLD   88 (359)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHHHHHHcCChH
Confidence            334444455555555554432   1233444444444444444444444444444321 113344444444444444444


Q ss_pred             hHHHHHHHHh
Q 046694           83 KGKKFFDEMQ   92 (118)
Q Consensus        83 ~a~~~~~~m~   92 (118)
                      +|...+++..
T Consensus        89 ~A~~~~~~~~   98 (359)
T 3ieg_A           89 EAEDDFKKVL   98 (359)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            4444444443

>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=98.49  E-value=1.2e-06  Score=60.60  Aligned_cols=113  Identities=15%  Similarity=0.031  Sum_probs=95.1

Q ss_pred             hHHHHHHHhcCCHHHHHHHhhhCC--CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCC
Q 046694            3 EPRLDFYTRTGRIDLANKIFDRLP--VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGL   80 (118)
Q Consensus         3 ~~ll~~~~~~~~~~~a~~~~~~m~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~   80 (118)
                      ..+...+...|++++|...|++..  .|+...|..+...+...|++++|.+.|++..+.. +.+..++..+...+...|+
T Consensus       247 ~~~g~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~  325 (537)
T 3fp2_A          247 CYTGIFHFLKNNLLDAQVLLQESINLHPTPNSYIFLALTLADKENSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQD  325 (537)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCCCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHhcccHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCHHHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCC
Confidence            344567788899999999999875  5667889999999999999999999999998753 3367889999999999999


Q ss_pred             hhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           81 VEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        81 ~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      +++|.+.+++..+.. +.+...+..+..+|.+.|+++
T Consensus       326 ~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~  361 (537)
T 3fp2_A          326 YKNAKEDFQKAQSLN-PENVYPYIQLACLLYKQGKFT  361 (537)
T ss_dssp             HHHHHHHHHHHHHHC-TTCSHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHH
Confidence            999999999997754 234678889999999988865

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=98.49  E-value=2.1e-06  Score=56.21  Aligned_cols=73  Identities=14%  Similarity=0.128  Sum_probs=43.4

Q ss_pred             CCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcC-CCc--cHHHHHHHHHHHHHccccc
Q 046694           44 GELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARN-VKP--TETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        44 ~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g-~~~--~~~t~~~li~~~~~~g~~~  117 (118)
                      |++++|..+|++..+.. +-+...|..++..+.+.|++++|..+|++..+.. +.|  ....|..++..+.+.|+.+
T Consensus       183 ~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~  258 (308)
T 2ond_A          183 KDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLA  258 (308)
T ss_dssp             CCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHH
T ss_pred             CCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHH
Confidence            44444444444443321 1245566666667777777777777777776653 344  3556777777777666543

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.49  E-value=7.1e-06  Score=47.21  Aligned_cols=106  Identities=8%  Similarity=-0.108  Sum_probs=83.0

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC--CCC----HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHH
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP--VKD----SASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTAC   75 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~--~~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~   75 (118)
                      |..+...+.+.|++++|...|++..  .|+    ...|..+-..|...|++++|...+++..+.. +.+...+..+-.++
T Consensus        31 ~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~  109 (148)
T 2dba_A           31 LRKEGNELFKCGDYGGALAAYTQALGLDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKALYRRSQAL  109 (148)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHHHHHHHHHH
Confidence            3455677889999999999999764  344    6788888999999999999999999987652 23677888888999


Q ss_pred             hcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHH
Q 046694           76 SLGGLVEKGKKFFDEMQARNVKPTETHYACMVYL  109 (118)
Q Consensus        76 ~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~  109 (118)
                      ...|++++|.+.|++..+.. +.+...+..+-..
T Consensus       110 ~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~  142 (148)
T 2dba_A          110 EKLGRLDQAVLDLQRCVSLE-PKNKVFQEALRNI  142 (148)
T ss_dssp             HHHTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHH
Confidence            99999999999999997753 2234444444443

>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=98.48  E-value=1.1e-05  Score=49.39  Aligned_cols=109  Identities=11%  Similarity=-0.020  Sum_probs=86.4

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC--------------CCc-
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDG--------------VEY-   63 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~--------------~~p-   63 (118)
                      |..+..+|.+.|++++|+..|++..   ..+...|..+-..|...|++++|...|++..+..              ..| 
T Consensus        40 ~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~  119 (213)
T 1hh8_A           40 CFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLYYQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLF  119 (213)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEE
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCcc
Confidence            4567788999999999999998764   4477889999999999999999999999998742              122 


Q ss_pred             cHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHH
Q 046694           64 YPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLL  110 (118)
Q Consensus        64 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~  110 (118)
                      ....+..+-.++.+.|++++|.+.|++..+..-..........+..+
T Consensus       120 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~a~~~~  166 (213)
T 1hh8_A          120 ACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEPRHSKIDKAMECV  166 (213)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSGGGGHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHccCHHHHHHHHHHHHHcCcccccchHHHHHHHH
Confidence            23778888999999999999999999998765444444444444444

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.46  E-value=1.5e-05  Score=44.96  Aligned_cols=90  Identities=10%  Similarity=-0.013  Sum_probs=73.9

Q ss_pred             HHHHHHHhcCCHHHHHHHhhhCC--CC-CH---hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcc----HHHHHHHHH
Q 046694            4 PRLDFYTRTGRIDLANKIFDRLP--VK-DS---ASWITLILGYGMLGELDVAINLFEAMREDGVEYY----PVSHIGVLT   73 (118)
Q Consensus         4 ~ll~~~~~~~~~~~a~~~~~~m~--~~-~~---~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~----~~~~~~ll~   73 (118)
                      .+...+.+.|++++|...|++..  .| +.   ..+..+-..+...|++++|...|++..+..  |+    ...+..+-.
T Consensus         7 ~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~la~   84 (129)
T 2xev_A            7 NVAFDALKNGKYDDASQLFLSFLELYPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY--PTHDKAAGGLLKLGL   84 (129)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTSTTHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC--CCCcccHHHHHHHHH
Confidence            34567889999999999999775  33 33   477778889999999999999999998753  32    566788888


Q ss_pred             HHhcCCChhhHHHHHHHHhhcC
Q 046694           74 ACSLGGLVEKGKKFFDEMQARN   95 (118)
Q Consensus        74 ~~~~~~~~~~a~~~~~~m~~~g   95 (118)
                      ++.+.|++++|...|++..+..
T Consensus        85 ~~~~~g~~~~A~~~~~~~~~~~  106 (129)
T 2xev_A           85 SQYGEGKNTEAQQTLQQVATQY  106 (129)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHcCCHHHHHHHHHHHHHHC
Confidence            9999999999999999997753

>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=98.46  E-value=5.1e-06  Score=58.64  Aligned_cols=114  Identities=10%  Similarity=-0.110  Sum_probs=93.8

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcC
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLG   78 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~   78 (118)
                      |..+-..|.+.|++++|...|++..   ..+...|..+-..|...|++++|.+.|++..+.. +-+...+..+-..+.+.
T Consensus        26 ~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~  104 (568)
T 2vsy_A           26 WLMLADAELGMGDTTAGEMAVQRGLALHPGHPEAVARLGRVRWTQQRHAEAAVLLQQASDAA-PEHPGIALWLGHALEDA  104 (568)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHTTSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHc
Confidence            4556778889999999999998764   3467889999999999999999999999997753 23578889999999999


Q ss_pred             CChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHc---cccc
Q 046694           79 GLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKY---NQKA  117 (118)
Q Consensus        79 ~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~---g~~~  117 (118)
                      |++++|.+.+++..+.. +.+...+..+..++.+.   |+.+
T Consensus       105 g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~g~~~  145 (568)
T 2vsy_A          105 GQAEAAAAAYTRAHQLL-PEEPYITAQLLNWRRRLCDWRALD  145 (568)
T ss_dssp             TCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCTTHH
T ss_pred             CCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhhccccHH
Confidence            99999999999997753 23577888888888888   6543

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=98.45  E-value=3.4e-06  Score=55.18  Aligned_cols=114  Identities=12%  Similarity=0.057  Sum_probs=86.7

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC--CC-CHh-hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHh-
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP--VK-DSA-SWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACS-   76 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~--~~-~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~-   76 (118)
                      |..+...+.+.|++++|..+|++..  .| +.. .|..+...+.+.|++++|..+|++..+.. +++...|........ 
T Consensus       102 ~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~a~~~~~  180 (308)
T 2ond_A          102 YFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYY  180 (308)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-TCCTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhccccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHH
Confidence            5567778889999999999999765  33 343 79999999999999999999999998753 234444544333322 


Q ss_pred             cCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           77 LGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        77 ~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      ..|+.++|.++|++..+.. +-+...|..++..+.+.|+.+
T Consensus       181 ~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~  220 (308)
T 2ond_A          181 CSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDN  220 (308)
T ss_dssp             TSCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHH
T ss_pred             HcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHH
Confidence            3699999999999986642 336888999999998888764

>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=98.44  E-value=1.1e-05  Score=49.32  Aligned_cols=112  Identities=11%  Similarity=0.025  Sum_probs=88.8

Q ss_pred             hHHHHHHHhcCCHHHHHHHhhhCC---CCCH----------------hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc
Q 046694            3 EPRLDFYTRTGRIDLANKIFDRLP---VKDS----------------ASWITLILGYGMLGELDVAINLFEAMREDGVEY   63 (118)
Q Consensus         3 ~~ll~~~~~~~~~~~a~~~~~~m~---~~~~----------------~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p   63 (118)
                      ..+-..+.+.|++++|...|++..   ..+.                ..|..+-..|.+.|++++|+..+++..+.. +.
T Consensus        42 ~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~  120 (198)
T 2fbn_A           42 KEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID-KN  120 (198)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-cc
Confidence            345567888999999999998664   1222                788888999999999999999999998752 33


Q ss_pred             cHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHcccc
Q 046694           64 YPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQK  116 (118)
Q Consensus        64 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~  116 (118)
                      +...+..+-.++...|++++|.+.|++..+.. +-+...+..+..++.+.|+.
T Consensus       121 ~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~  172 (198)
T 2fbn_A          121 NVKALYKLGVANMYFGFLEEAKENLYKAASLN-PNNLDIRNSYELCVNKLKEA  172 (198)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHHHH
Confidence            67888889999999999999999999987753 23566777777777666544

>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=98.43  E-value=7.8e-06  Score=49.18  Aligned_cols=54  Identities=9%  Similarity=-0.036  Sum_probs=43.7

Q ss_pred             cHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCc-cHHHHHHHHHHHHHccccc
Q 046694           64 YPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKP-TETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        64 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~-~~~t~~~li~~~~~~g~~~  117 (118)
                      +...+..+-..+...|++++|...|++..+....+ +...+..+..++...|+.+
T Consensus       107 ~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~  161 (176)
T 2r5s_A          107 NFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGN  161 (176)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSC
T ss_pred             CHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCC
Confidence            46777788888889999999999999998765443 3568888999999888765

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=98.43  E-value=2.1e-06  Score=59.64  Aligned_cols=98  Identities=6%  Similarity=-0.032  Sum_probs=81.8

Q ss_pred             CCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCH-HHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHH
Q 046694           13 GRIDLANKIFDRLP---VKDSASWITLILGYGMLGEL-DVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFF   88 (118)
Q Consensus        13 ~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~-~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~   88 (118)
                      .+++++...+++..   ..+...|..+-..+...|++ ++|.+.|++..+.. +-+...|..+-..|.+.|++++|.+.|
T Consensus        82 ~~~~~al~~l~~~~~~~~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~  160 (474)
T 4abn_A           82 EEMEKTLQQMEEVLGSAQVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTCF  160 (474)
T ss_dssp             HHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccCchhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            34677777777653   34788899999999999999 99999999997753 225789999999999999999999999


Q ss_pred             HHHhhcCCCccHHHHHHHHHHHHHc
Q 046694           89 DEMQARNVKPTETHYACMVYLLIKY  113 (118)
Q Consensus        89 ~~m~~~g~~~~~~t~~~li~~~~~~  113 (118)
                      ++..+..  |+...+..+-.+|.+.
T Consensus       161 ~~al~~~--p~~~~~~~lg~~~~~~  183 (474)
T 4abn_A          161 SGALTHC--KNKVSLQNLSMVLRQL  183 (474)
T ss_dssp             HHHHTTC--CCHHHHHHHHHHHTTC
T ss_pred             HHHHhhC--CCHHHHHHHHHHHHHh
Confidence            9998754  6778888888888887

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.41  E-value=6.1e-06  Score=51.11  Aligned_cols=106  Identities=8%  Similarity=0.019  Sum_probs=83.8

Q ss_pred             HHHHhcCCHHHHHHHhhhCC--CC-CHhhHHH----------------HHHHHHhcCCHHHHHHHHHHHHHcCCCccHHH
Q 046694            7 DFYTRTGRIDLANKIFDRLP--VK-DSASWIT----------------LILGYGMLGELDVAINLFEAMREDGVEYYPVS   67 (118)
Q Consensus         7 ~~~~~~~~~~~a~~~~~~m~--~~-~~~~~~~----------------li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~   67 (118)
                      ..+.+.|++++|+..|++..  .| +...|..                +-..|.+.|++++|...|++..+.. +-+...
T Consensus        12 ~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~   90 (208)
T 3urz_A           12 SAAIEAGQNGQAVSYFRQTIALNIDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQKA-PNNVDC   90 (208)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHH
Confidence            45678899999999999875  33 4455666                8888999999999999999998753 226788


Q ss_pred             HHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHcc
Q 046694           68 HIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYN  114 (118)
Q Consensus        68 ~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g  114 (118)
                      +..+-..+...|++++|...|++..+.. +-+...+..+-.+|...|
T Consensus        91 ~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~  136 (208)
T 3urz_A           91 LEACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYYYLTA  136 (208)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHHh
Confidence            8999999999999999999999997753 225677777777765544

>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=98.41  E-value=9.2e-06  Score=48.64  Aligned_cols=93  Identities=4%  Similarity=-0.016  Sum_probs=73.6

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHH-HHhcCCH--HHHHHHHHHHHHcCCCccHHHHHHHHHHH
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILG-YGMLGEL--DVAINLFEAMREDGVEYYPVSHIGVLTAC   75 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~-~~~~~~~--~~a~~~~~~m~~~~~~p~~~~~~~ll~~~   75 (118)
                      |..+..+|...|++++|...|++..   ..+...|..+-.. +...|++  ++|...|++..+.. +-+...+..+...+
T Consensus        47 ~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~l~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~  125 (177)
T 2e2e_A           47 WALLGEYYLWQNDYSNSLLAYRQALQLRGENAELYAALATVLYYQASQHMTAQTRAMIDKALALD-SNEITALMLLASDA  125 (177)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhC-CCcHHHHHHHHHHH
Confidence            4556677888999999999998765   3466777777777 7788888  99999999987653 22567788888889


Q ss_pred             hcCCChhhHHHHHHHHhhcC
Q 046694           76 SLGGLVEKGKKFFDEMQARN   95 (118)
Q Consensus        76 ~~~~~~~~a~~~~~~m~~~g   95 (118)
                      ...|++++|...+++..+..
T Consensus       126 ~~~g~~~~A~~~~~~al~~~  145 (177)
T 2e2e_A          126 FMQANYAQAIELWQKVMDLN  145 (177)
T ss_dssp             HHTTCHHHHHHHHHHHHHTC
T ss_pred             HHcccHHHHHHHHHHHHhhC
Confidence            99999999999999987643

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=98.39  E-value=6.6e-06  Score=52.12  Aligned_cols=104  Identities=13%  Similarity=0.008  Sum_probs=67.5

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCCC--CC----HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHH
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLPV--KD----SASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTAC   75 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~~--~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~   75 (118)
                      |..+..+|.+.|++++|+..|++...  ++    ...|..+-..+...|++++|.+.|++..+.. +-+...+..+-..+
T Consensus        40 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~  118 (272)
T 3u4t_A           40 YNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKILMKKGQDSLAIQQYQAAVDRD-TTRLDMYGQIGSYF  118 (272)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhcC-cccHHHHHHHHHHH
Confidence            34556677777888888777775532  22    2236777777777788888888887776542 22456777777777


Q ss_pred             hcCCChhhHHHHHHHHhhcCCCccHHHHHHHH
Q 046694           76 SLGGLVEKGKKFFDEMQARNVKPTETHYACMV  107 (118)
Q Consensus        76 ~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li  107 (118)
                      ...|++++|.+.+++..+. -+.+...+..+-
T Consensus       119 ~~~~~~~~A~~~~~~al~~-~~~~~~~~~~l~  149 (272)
T 3u4t_A          119 YNKGNFPLAIQYMEKQIRP-TTTDPKVFYELG  149 (272)
T ss_dssp             HHTTCHHHHHHHHGGGCCS-SCCCHHHHHHHH
T ss_pred             HHccCHHHHHHHHHHHhhc-CCCcHHHHHHHH
Confidence            7777777777777777554 222344454444

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=98.39  E-value=2.3e-06  Score=55.72  Aligned_cols=116  Identities=9%  Similarity=-0.051  Sum_probs=84.5

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCCC-------C--CHhhHHHHHHHHHhc-CCHHHHHHHHHHHHHc----CCCcc-HH
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLPV-------K--DSASWITLILGYGML-GELDVAINLFEAMRED----GVEYY-PV   66 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~~-------~--~~~~~~~li~~~~~~-~~~~~a~~~~~~m~~~----~~~p~-~~   66 (118)
                      |+.+-.+|.+.|++++|+..|++...       +  -..+|+.+-..|... |++++|+..|++..+.    +-.+. ..
T Consensus        80 ~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~  159 (292)
T 1qqe_A           80 YVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNK  159 (292)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHH
Confidence            45667788888999999888876541       1  145788888889886 9999999999988642    11111 35


Q ss_pred             HHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccH------HHHHHHHHHHHHccccc
Q 046694           67 SHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTE------THYACMVYLLIKYNQKA  117 (118)
Q Consensus        67 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~------~t~~~li~~~~~~g~~~  117 (118)
                      +++.+-..+.+.|++++|...|++..+.......      ..+..+..++...|+.+
T Consensus       160 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~  216 (292)
T 1qqe_A          160 CFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAV  216 (292)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHH
Confidence            6888889999999999999999998775543322      15667777777777653

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.39  E-value=7.8e-06  Score=45.40  Aligned_cols=86  Identities=13%  Similarity=0.143  Sum_probs=73.1

Q ss_pred             HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHH
Q 046694           30 SASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYL  109 (118)
Q Consensus        30 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~  109 (118)
                      ...|..+...+...|++++|.+.|+++.+.. +.+...+..+...+.+.|++++|..+++++.+.. +.+..++..+..+
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            5678888899999999999999999998753 3467888899999999999999999999997753 3467888899999


Q ss_pred             HHHccccc
Q 046694          110 LIKYNQKA  117 (118)
Q Consensus       110 ~~~~g~~~  117 (118)
                      |.+.|+.+
T Consensus        87 ~~~~~~~~   94 (125)
T 1na0_A           87 YYKQGDYD   94 (125)
T ss_dssp             HHHTTCHH
T ss_pred             HHHhcCHH
Confidence            99888764

>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=98.38  E-value=2e-05  Score=50.29  Aligned_cols=102  Identities=11%  Similarity=0.006  Sum_probs=54.5

Q ss_pred             HHHHHHh----cCCHHHHHHHhhhCC-CCCHhhHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHH
Q 046694            5 RLDFYTR----TGRIDLANKIFDRLP-VKDSASWITLILGYGM----LGELDVAINLFEAMREDGVEYYPVSHIGVLTAC   75 (118)
Q Consensus         5 ll~~~~~----~~~~~~a~~~~~~m~-~~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~   75 (118)
                      +-..|..    .+++++|...|++.. ..+...+..+-..|..    .+++++|.+.|++..+.+   +...+..+-..|
T Consensus        44 lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~  120 (273)
T 1ouv_A           44 LGVLYYQGQGVEKNLKKAASFYAKACDLNYSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIY  120 (273)
T ss_dssp             HHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHH
T ss_pred             HHHHHHcCCCcCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHH
Confidence            3444555    566666666665443 2245555555555555    566666666666655543   444555555555


Q ss_pred             hc----CCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHH
Q 046694           76 SL----GGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIK  112 (118)
Q Consensus        76 ~~----~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~  112 (118)
                      .+    .+++++|.+.|++..+.+   +...+..+-.+|.+
T Consensus       121 ~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~  158 (273)
T 1ouv_A          121 HDGKVVTRDFKKAVEYFTKACDLN---DGDGCTILGSLYDA  158 (273)
T ss_dssp             HHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHH
T ss_pred             HcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHHHHHHHc
Confidence            55    566666666666655544   33344444444443

>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=98.37  E-value=1.8e-05  Score=49.15  Aligned_cols=110  Identities=9%  Similarity=-0.019  Sum_probs=88.5

Q ss_pred             HHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccH-------HHHHHHHH
Q 046694            4 PRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYP-------VSHIGVLT   73 (118)
Q Consensus         4 ~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~-------~~~~~ll~   73 (118)
                      .+..+|.+.|++++|+..|++..   ..+...|..+-..|...|++++|...|++..+.. +-+.       ..|..+-.
T Consensus        47 ~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~  125 (228)
T 4i17_A           47 NCGVCADNIKKYKEAADYFDIAIKKNYNLANAYIGKSAAYRDMKNNQEYIATLTEGIKAV-PGNATIEKLYAIYYLKEGQ  125 (228)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTTCSHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhcHHHHHHHHHHHHHhCcchHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHhH
Confidence            36678889999999999998764   3467789999999999999999999999998752 1133       55777888


Q ss_pred             HHhcCCChhhHHHHHHHHhhcCCCcc---HHHHHHHHHHHHHcccc
Q 046694           74 ACSLGGLVEKGKKFFDEMQARNVKPT---ETHYACMVYLLIKYNQK  116 (118)
Q Consensus        74 ~~~~~~~~~~a~~~~~~m~~~g~~~~---~~t~~~li~~~~~~g~~  116 (118)
                      .+.+.|++++|.+.|++..+.  .|+   ...+..+-.+|...|+.
T Consensus       126 ~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~l~~~~~~~~~~  169 (228)
T 4i17_A          126 KFQQAGNIEKAEENYKHATDV--TSKKWKTDALYSLGVLFYNNGAD  169 (228)
T ss_dssp             HHHHTTCHHHHHHHHHHHTTS--SCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhccHHHHHHHHHHHHhc--CCCcccHHHHHHHHHHHHHHHHH
Confidence            888999999999999999774  454   56777777777766653

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.36  E-value=6.5e-06  Score=46.87  Aligned_cols=89  Identities=10%  Similarity=-0.030  Sum_probs=73.6

Q ss_pred             HHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCCh
Q 046694            5 RLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLV   81 (118)
Q Consensus         5 ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~   81 (118)
                      +...+.+.|++++|+..|++..   ..+...|..+-..+...|++++|+..|++..+.. +-+...+..+-.++.+.|++
T Consensus        23 ~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~~~~~la~~~~~~g~~  101 (121)
T 1hxi_A           23 EGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHNA  101 (121)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCH
Confidence            4457788999999999998775   3478888888899999999999999999987753 22567888888899999999


Q ss_pred             hhHHHHHHHHhhc
Q 046694           82 EKGKKFFDEMQAR   94 (118)
Q Consensus        82 ~~a~~~~~~m~~~   94 (118)
                      ++|...+++..+.
T Consensus       102 ~~A~~~~~~al~~  114 (121)
T 1hxi_A          102 NAALASLRAWLLS  114 (121)
T ss_dssp             HHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999988653

>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=98.35  E-value=4.8e-06  Score=56.62  Aligned_cols=112  Identities=6%  Similarity=0.031  Sum_probs=93.6

Q ss_pred             chHHHHHHHhcCC-HHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhc
Q 046694            2 IEPRLDFYTRTGR-IDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSL   77 (118)
Q Consensus         2 ~~~ll~~~~~~~~-~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~   77 (118)
                      |+.+-.++.+.|+ +++|+..|++..   ..+...|+.+-..+...|++++|+..|++..+.. +-+...|..+-.++.+
T Consensus       134 ~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~~~~a~~~~g~~~~~~g~~~eAl~~~~kal~ld-P~~~~a~~~lg~~~~~  212 (382)
T 2h6f_A          134 WHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLVEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQE  212 (382)
T ss_dssp             HHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHH
Confidence            5667778889996 999999999775   4488899999999999999999999999998753 2277889999999999


Q ss_pred             CCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHH-ccc
Q 046694           78 GGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIK-YNQ  115 (118)
Q Consensus        78 ~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~-~g~  115 (118)
                      .|++++|...++++.+.... +...|+.+-.++.+ .|.
T Consensus       213 ~g~~~eAl~~~~~al~l~P~-~~~a~~~lg~~l~~l~~~  250 (382)
T 2h6f_A          213 FKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISNTTGY  250 (382)
T ss_dssp             HTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCS
T ss_pred             cCChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCc
Confidence            99999999999999886433 67888888888887 444

>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=98.28  E-value=7.3e-06  Score=57.16  Aligned_cols=111  Identities=10%  Similarity=-0.021  Sum_probs=87.4

Q ss_pred             HHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChh
Q 046694            6 LDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVE   82 (118)
Q Consensus         6 l~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~   82 (118)
                      -..+.+.|++++|+..|++..   ..+...|..+-..|.+.|++++|.+.+++..+.. +-+...+..+-.++.+.|+++
T Consensus        13 g~~~~~~g~~~~A~~~~~~Al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~~g~~~   91 (477)
T 1wao_1           13 ANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKFR   91 (477)
T ss_dssp             SSSTTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHH
Confidence            345677899999999998764   4478899999999999999999999999998763 236788899999999999999


Q ss_pred             hHHHHHHHHhhcCCCccHHHHHHHHHH--HHHcccccC
Q 046694           83 KGKKFFDEMQARNVKPTETHYACMVYL--LIKYNQKAR  118 (118)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~t~~~li~~--~~~~g~~~~  118 (118)
                      +|.+.|++..+..- .+...+..+-.+  +.+.|++++
T Consensus        92 eA~~~~~~al~~~p-~~~~~~~~l~~~~~~~~~g~~~~  128 (477)
T 1wao_1           92 AALRDYETVVKVKP-HDKDAKMKYQECNKIVKQKAFER  128 (477)
T ss_dssp             HHHHHHHHHHHHST-TCTTHHHHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999977532 133445555444  777676653

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.27  E-value=2.5e-05  Score=46.19  Aligned_cols=95  Identities=9%  Similarity=0.012  Sum_probs=77.9

Q ss_pred             hHHHHHHHhcCCHHHHHHHhhhCCC---------------------CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC
Q 046694            3 EPRLDFYTRTGRIDLANKIFDRLPV---------------------KDSASWITLILGYGMLGELDVAINLFEAMREDGV   61 (118)
Q Consensus         3 ~~ll~~~~~~~~~~~a~~~~~~m~~---------------------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~   61 (118)
                      ...-..+.+.|++++|+..|++...                     .+...|..+-.+|.+.|++++|+..+++..+.. 
T Consensus        15 ~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al~~~-   93 (162)
T 3rkv_A           15 RQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVLKRE-   93 (162)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhcC-
Confidence            3456678899999999999976531                     134688889999999999999999999998753 


Q ss_pred             CccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccH
Q 046694           62 EYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTE  100 (118)
Q Consensus        62 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~  100 (118)
                      +-+...|..+-.++...|++++|...|++..+.  .|+.
T Consensus        94 p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l--~p~~  130 (162)
T 3rkv_A           94 ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRN--HPAA  130 (162)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CGGG
T ss_pred             CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhc--CCCC
Confidence            336788999999999999999999999999775  4543

>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=98.25  E-value=2e-05  Score=51.13  Aligned_cols=113  Identities=6%  Similarity=-0.073  Sum_probs=84.3

Q ss_pred             HHHHHHhcCCHHHHHHHhhhCCC-----CC----HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-cc----HHHHHH
Q 046694            5 RLDFYTRTGRIDLANKIFDRLPV-----KD----SASWITLILGYGMLGELDVAINLFEAMREDGVE-YY----PVSHIG   70 (118)
Q Consensus         5 ll~~~~~~~~~~~a~~~~~~m~~-----~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-p~----~~~~~~   70 (118)
                      .+..+.+.|++++|..++++...     ++    ...+..+...+...+++++|+..|++..+.... ++    ..+++.
T Consensus        81 ~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~  160 (293)
T 3u3w_A           81 QVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENA  160 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHH
Confidence            35678889999999999987642     22    223445666777778999999999999874322 23    346899


Q ss_pred             HHHHHhcCCChhhHHHHHHHHhh----c-CCCcc-HHHHHHHHHHHHHccccc
Q 046694           71 VLTACSLGGLVEKGKKFFDEMQA----R-NVKPT-ETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        71 ll~~~~~~~~~~~a~~~~~~m~~----~-g~~~~-~~t~~~li~~~~~~g~~~  117 (118)
                      +-..|...|++++|...|++..+    . +..+. ..++..+-.+|.+.|+.+
T Consensus       161 lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~  213 (293)
T 3u3w_A          161 IANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYE  213 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHH
Confidence            99999999999999999999863    2 22333 447888999999888765

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A

Probab=98.24  E-value=2.4e-05  Score=54.20  Aligned_cols=113  Identities=14%  Similarity=0.100  Sum_probs=89.4

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC--CC-C---------------HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP--VK-D---------------SASWITLILGYGMLGELDVAINLFEAMREDGVEY   63 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~--~~-~---------------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p   63 (118)
                      |..+-..|.+.|++++|+..|++..  .| +               ...|..+-.+|.+.|++++|+..|++..+.. +-
T Consensus       271 ~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p~  349 (457)
T 1kt0_A          271 VKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD-SA  349 (457)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TT
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-Cc
Confidence            3455678889999999999998764  22 3               5789999999999999999999999998753 23


Q ss_pred             cHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHcccc
Q 046694           64 YPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQK  116 (118)
Q Consensus        64 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~  116 (118)
                      +...|..+-.+|.+.|++++|...|++..+.. +-+...+..+-.++.+.|+.
T Consensus       350 ~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~  401 (457)
T 1kt0_A          350 NEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN-PQNKAARLQISMCQKKAKEH  401 (457)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHH
Confidence            67889999999999999999999999997743 22456777777777766653

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.22  E-value=3.5e-05  Score=50.05  Aligned_cols=111  Identities=6%  Similarity=-0.069  Sum_probs=75.6

Q ss_pred             HHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHH--------------------------
Q 046694            6 LDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAM--------------------------   56 (118)
Q Consensus         6 l~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m--------------------------   56 (118)
                      -..+.+.|++++|+..|++..   ..+...+..+-..+...|++++|...+++.                          
T Consensus       124 a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~p~~~~~~~~~~~~l~~~~~~~~  203 (287)
T 3qou_A          124 AMQLMQESNYTDALPLLXDAWQLSNQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQDQDTRYQGLVAQIELLXQAADTP  203 (287)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGGCSHHHHHHHHHHHHHHHHTSCH
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHhCCcchhHHHHHHHHHHHCCCHHHHHHHHHhCchhhcchHHHHHHHHHHHHhhcccCc
Confidence            344556666666666666553   225556666666666666666666665553                          


Q ss_pred             --------HHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCC-ccHHHHHHHHHHHHHccccc
Q 046694           57 --------REDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVK-PTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        57 --------~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~-~~~~t~~~li~~~~~~g~~~  117 (118)
                              .+.. +.+...+..+-..+...|++++|...+.+..+..-. .+...+..+..+|...|+.+
T Consensus       204 a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~  272 (287)
T 3qou_A          204 EIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALGTGD  272 (287)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCTTC
T ss_pred             cHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcCCCC
Confidence                    2221 235677888888889999999999999999775433 23678889999998888754

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.22  E-value=1.4e-05  Score=48.41  Aligned_cols=108  Identities=16%  Similarity=0.170  Sum_probs=79.7

Q ss_pred             HhcCCHHHHHH---HhhhCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHH----cCCCc-cHHHHHHHHHHHhcCCCh
Q 046694           10 TRTGRIDLANK---IFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMRE----DGVEY-YPVSHIGVLTACSLGGLV   81 (118)
Q Consensus        10 ~~~~~~~~a~~---~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~----~~~~p-~~~~~~~ll~~~~~~~~~   81 (118)
                      ...|++++|.+   ++..-+......+..+-..+...|++++|...+++..+    .+..| ....+..+-..+...|++
T Consensus         3 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~   82 (203)
T 3gw4_A            3 FEAHDYALAERQAQALLAHPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNW   82 (203)
T ss_dssp             ----CHHHHHHHHHHHHTSTTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             cccccHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCH
Confidence            46799999999   76654445677889999999999999999999999865    22233 456788888899999999


Q ss_pred             hhHHHHHHHHhhc----CCCc--cHHHHHHHHHHHHHccccc
Q 046694           82 EKGKKFFDEMQAR----NVKP--TETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        82 ~~a~~~~~~m~~~----g~~~--~~~t~~~li~~~~~~g~~~  117 (118)
                      ++|.+.+++..+.    +-.|  ....+..+-.++...|+++
T Consensus        83 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~  124 (203)
T 3gw4_A           83 DAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLA  124 (203)
T ss_dssp             HHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHH
Confidence            9999999987442    3122  3456777888888887764

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.19  E-value=5.4e-06  Score=50.30  Aligned_cols=116  Identities=15%  Similarity=0.028  Sum_probs=85.6

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCCC---------CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCc--cHH
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLPV---------KDSASWITLILGYGMLGELDVAINLFEAMRED----GVEY--YPV   66 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~~---------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~p--~~~   66 (118)
                      +..+-..|...|++++|...|++...         .....+..+-..+...|++++|.+.+++..+.    +-.|  ...
T Consensus        29 ~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  108 (203)
T 3gw4_A           29 RFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNWDAARRCFLEERELLASLPEDPLAASA  108 (203)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHH
T ss_pred             HHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCccHHHHHH
Confidence            45567788899999999998876642         14567888888999999999999999988543    2122  245


Q ss_pred             HHHHHHHHHhcCCChhhHHHHHHHHhhc----CCCc-cHHHHHHHHHHHHHccccc
Q 046694           67 SHIGVLTACSLGGLVEKGKKFFDEMQAR----NVKP-TETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        67 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~----g~~~-~~~t~~~li~~~~~~g~~~  117 (118)
                      .+..+-..+...|++++|...+++..+.    +-.+ -..++..+-.++.+.|+.+
T Consensus       109 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  164 (203)
T 3gw4_A          109 NAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKNLL  164 (203)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcCHH
Confidence            6778888889999999999999987432    2211 2344677778888888764

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=98.18  E-value=3e-05  Score=52.41  Aligned_cols=113  Identities=6%  Similarity=-0.069  Sum_probs=89.4

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCCC-------------------CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLPV-------------------KDSASWITLILGYGMLGELDVAINLFEAMREDGVE   62 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~~-------------------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~   62 (118)
                      |..+-..+.+.|++++|+..|++...                   .+...|..+-..|.+.|++++|+..+++..+.. +
T Consensus       226 ~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p  304 (370)
T 1ihg_A          226 LKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID-P  304 (370)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-T
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhC-c
Confidence            34566788899999999999986542                   256788899999999999999999999998753 2


Q ss_pred             ccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHcccc
Q 046694           63 YYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQK  116 (118)
Q Consensus        63 p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~  116 (118)
                      -+...+..+-.++.+.|++++|.+.|++..+.. +.+...+..+-.++.+.++.
T Consensus       305 ~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~-P~~~~~~~~l~~~~~~~~~~  357 (370)
T 1ihg_A          305 SNTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLKVKQKIKAQ  357 (370)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHH
Confidence            367888889999999999999999999997753 22566667777776665543

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=98.18  E-value=1.5e-05  Score=55.79  Aligned_cols=55  Identities=15%  Similarity=0.172  Sum_probs=27.8

Q ss_pred             hHHHHHHHhcCCHHHHHHHhhhCC--CC-CH-hhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 046694            3 EPRLDFYTRTGRIDLANKIFDRLP--VK-DS-ASWITLILGYGMLGELDVAINLFEAMR   57 (118)
Q Consensus         3 ~~ll~~~~~~~~~~~a~~~~~~m~--~~-~~-~~~~~li~~~~~~~~~~~a~~~~~~m~   57 (118)
                      ..+...+.+.|++++|..+|++..  .| +. ..|...+..+.+.|++++|..+|++..
T Consensus       325 ~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al  383 (530)
T 2ooe_A          325 FAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAR  383 (530)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHSSSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHhCccccCchHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            344455555666666666666543  22 21 345555554444455555555554443

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.16  E-value=1.4e-05  Score=46.17  Aligned_cols=116  Identities=11%  Similarity=-0.030  Sum_probs=85.9

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCCC-----C----CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCc-cHHH
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLPV-----K----DSASWITLILGYGMLGELDVAINLFEAMRED----GVEY-YPVS   67 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~~-----~----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~p-~~~~   67 (118)
                      +..+-..|...|++++|...|++...     +    -..++..+-..+...|++++|.+.+++..+.    +-.+ ....
T Consensus        12 ~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~   91 (164)
T 3ro3_A           12 FGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQS   91 (164)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHH
Confidence            45667788899999999999987641     1    1247888889999999999999999998542    2111 2456


Q ss_pred             HHHHHHHHhcCCChhhHHHHHHHHhhc----CCCc-cHHHHHHHHHHHHHccccc
Q 046694           68 HIGVLTACSLGGLVEKGKKFFDEMQAR----NVKP-TETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        68 ~~~ll~~~~~~~~~~~a~~~~~~m~~~----g~~~-~~~t~~~li~~~~~~g~~~  117 (118)
                      +..+-..+...|++++|.+.+++..+.    +..+ ....+..+-.++...|+.+
T Consensus        92 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  146 (164)
T 3ro3_A           92 CYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHD  146 (164)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHH
Confidence            778888899999999999999987432    2222 2456777788888877654

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.16  E-value=9e-06  Score=45.70  Aligned_cols=101  Identities=14%  Similarity=0.064  Sum_probs=74.4

Q ss_pred             hcCCHHHHHHHhhhCCC-----C-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhH
Q 046694           11 RTGRIDLANKIFDRLPV-----K-DSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKG   84 (118)
Q Consensus        11 ~~~~~~~a~~~~~~m~~-----~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a   84 (118)
                      ..|++++|+..|++...     | +...|..+-..|...|++++|...|++..+.. +-+...+..+-.++.+.|++++|
T Consensus         2 ~~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A   80 (117)
T 3k9i_A            2 VLGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQF-PNHQALRVFYAMVLYNLGRYEQG   80 (117)
T ss_dssp             -----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             CCCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHcCCHHHH
Confidence            45788889999986642     3 56688889999999999999999999998763 22577888899999999999999


Q ss_pred             HHHHHHHhhcC-CCccHHHHHHHHHHHHH
Q 046694           85 KKFFDEMQARN-VKPTETHYACMVYLLIK  112 (118)
Q Consensus        85 ~~~~~~m~~~g-~~~~~~t~~~li~~~~~  112 (118)
                      ...+++..+.. -.|+...|...+..|.+
T Consensus        81 ~~~~~~al~~~p~~~~~~~~~~ai~~~~~  109 (117)
T 3k9i_A           81 VELLLKIIAETSDDETIQSYKQAILFYAD  109 (117)
T ss_dssp             HHHHHHHHHHHCCCHHHHHTHHHHHHHTT
T ss_pred             HHHHHHHHHhCCCcHHHHHHHHHHHHHHH
Confidence            99999985543 33445555555555543

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.16  E-value=6.5e-05  Score=48.67  Aligned_cols=113  Identities=13%  Similarity=-0.029  Sum_probs=84.4

Q ss_pred             HHHHHHhcCCHHHHHHHhhhCC-----CCC----HhhHHHHHHHHHhcCCHHHHHHHHHHHHH---c-CCCc--cHHHHH
Q 046694            5 RLDFYTRTGRIDLANKIFDRLP-----VKD----SASWITLILGYGMLGELDVAINLFEAMRE---D-GVEY--YPVSHI   69 (118)
Q Consensus         5 ll~~~~~~~~~~~a~~~~~~m~-----~~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~-~~~p--~~~~~~   69 (118)
                      +...+...|++++|...|++..     ..+    ..+|+.+-..|...|++++|...|++..+   . +-.+  ...++.
T Consensus       121 ~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~  200 (293)
T 2qfc_A          121 VAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRY  200 (293)
T ss_dssp             HHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHH
T ss_pred             HHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHH
Confidence            3445677889999999887542     111    45889999999999999999999999862   2 1112  236888


Q ss_pred             HHHHHHhcCCChhhHHHHHHHHhhcC----CCc-cHHHHHHHHHHHHHccccc
Q 046694           70 GVLTACSLGGLVEKGKKFFDEMQARN----VKP-TETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        70 ~ll~~~~~~~~~~~a~~~~~~m~~~g----~~~-~~~t~~~li~~~~~~g~~~  117 (118)
                      .+-..|.+.|++++|...+++..+..    ... -..+|..+-.+|.+.|+.+
T Consensus       201 nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~  253 (293)
T 2qfc_A          201 NHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQRGECLRKLEYEE  253 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHHHHHHHHHHHHHHTTCCH
T ss_pred             hHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHcCCcH
Confidence            99999999999999999999874432    111 2677888888888888764

>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=98.16  E-value=5e-06  Score=49.83  Aligned_cols=106  Identities=8%  Similarity=-0.025  Sum_probs=80.8

Q ss_pred             HhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHH-HhcCCCh--hh
Q 046694           10 TRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTA-CSLGGLV--EK   83 (118)
Q Consensus        10 ~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~-~~~~~~~--~~   83 (118)
                      ...|++++|...|++..   ..+...|..+-..|...|++++|...|++..+.. +.+...+..+... +...|++  ++
T Consensus        21 ~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~~~~~~~   99 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRANPQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQASQHMTAQ   99 (177)
T ss_dssp             C-----CCCCHHHHHHHHHCCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTTTCCCHH
T ss_pred             hhccCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCCcchHH
Confidence            45677888888887653   4477889999999999999999999999997653 2356677777777 7789998  99


Q ss_pred             HHHHHHHHhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           84 GKKFFDEMQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        84 a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      |...+++..+.. +.+...+..+-.+|.+.|+.+
T Consensus       100 A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~  132 (177)
T 2e2e_A          100 TRAMIDKALALD-SNEITALMLLASDAFMQANYA  132 (177)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHhC-CCcHHHHHHHHHHHHHcccHH
Confidence            999999997754 235778888888898888764

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.16  E-value=2.1e-05  Score=52.19  Aligned_cols=86  Identities=12%  Similarity=0.169  Sum_probs=46.4

Q ss_pred             HHHHHHhcCCHHHHHHHhhhCC--CC-----CHhhHHHHHHHHHh--cC--CHHHHHHHHHHHHHcCCCccHHHHHHHHH
Q 046694            5 RLDFYTRTGRIDLANKIFDRLP--VK-----DSASWITLILGYGM--LG--ELDVAINLFEAMREDGVEYYPVSHIGVLT   73 (118)
Q Consensus         5 ll~~~~~~~~~~~a~~~~~~m~--~~-----~~~~~~~li~~~~~--~~--~~~~a~~~~~~m~~~~~~p~~~~~~~ll~   73 (118)
                      ++..+.+.|+.+.|.+.+++|.  .|     +-.+...+..++..  .|  +..+|..+|+++.+.  .|+..+-..++.
T Consensus       142 ~vqi~L~~~r~d~A~k~l~~~~~~~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln  219 (310)
T 3mv2_B          142 AIEVALLNNNVSTASTIFDNYTNAIEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLN  219 (310)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhcCccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHH
Confidence            4556666666666666666664  23     12333444434222  12  666666666666443  233333334444


Q ss_pred             HHhcCCChhhHHHHHHHHh
Q 046694           74 ACSLGGLVEKGKKFFDEMQ   92 (118)
Q Consensus        74 ~~~~~~~~~~a~~~~~~m~   92 (118)
                      ++.+.|++++|++.++.+.
T Consensus       220 ~~~~~g~~~eAe~~L~~l~  238 (310)
T 3mv2_B          220 LHLQQRNIAEAQGIVELLL  238 (310)
T ss_dssp             HHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHH
Confidence            6666667777776666553

>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=98.15  E-value=2.7e-05  Score=54.99  Aligned_cols=104  Identities=8%  Similarity=-0.112  Sum_probs=75.0

Q ss_pred             cCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHH
Q 046694           12 TGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFF   88 (118)
Q Consensus        12 ~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~   88 (118)
                      .|++++|...|++..   ..+...|..+-..+...|++++|.+.|++..+.. +-+...+..+-..+...|++++|.+.+
T Consensus         2 ~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~   80 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHRPQDFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAVLL   80 (568)
T ss_dssp             -------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            478899999998875   3367889999999999999999999999988753 235788999999999999999999999


Q ss_pred             HHHhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           89 DEMQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        89 ~~m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      ++..+.. +.+...+..+-.+|.+.|+.+
T Consensus        81 ~~al~~~-p~~~~~~~~la~~~~~~g~~~  108 (568)
T 2vsy_A           81 QQASDAA-PEHPGIALWLGHALEDAGQAE  108 (568)
T ss_dssp             HHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHhcC-CCCHHHHHHHHHHHHHcCCHH
Confidence            9997753 335788899999999988865

>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=98.15  E-value=4.7e-05  Score=49.35  Aligned_cols=90  Identities=8%  Similarity=-0.104  Sum_probs=76.9

Q ss_pred             hHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCC
Q 046694            3 EPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGG   79 (118)
Q Consensus         3 ~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~   79 (118)
                      ..+...+.+.|++++|+..|++..   ..+...|..+-..|.+.|++++|...+++..+.. +-+...+..+-.++...|
T Consensus         8 ~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g   86 (281)
T 2c2l_A            8 KEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQCQLEME   86 (281)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcC
Confidence            455678889999999999998764   3488899999999999999999999999987652 236788888999999999


Q ss_pred             ChhhHHHHHHHHhh
Q 046694           80 LVEKGKKFFDEMQA   93 (118)
Q Consensus        80 ~~~~a~~~~~~m~~   93 (118)
                      ++++|.+.|++..+
T Consensus        87 ~~~~A~~~~~~al~  100 (281)
T 2c2l_A           87 SYDEAIANLQRAYS  100 (281)
T ss_dssp             CHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHH
Confidence            99999999998754

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=98.14  E-value=2.8e-05  Score=52.07  Aligned_cols=116  Identities=9%  Similarity=-0.014  Sum_probs=76.8

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC-----CC-----CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCc-cHH
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP-----VK-----DSASWITLILGYGMLGELDVAINLFEAMRED----GVEY-YPV   66 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~-----~~-----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~p-~~~   66 (118)
                      |..+-..|...|++++|...+++..     .+     ...+++.+-..|...|++++|.+.|++..+.    +-.+ ...
T Consensus       146 ~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  225 (383)
T 3ulq_A          146 FFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGR  225 (383)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHH
Confidence            3455667777788887777776543     11     2346777777888888888888888877532    1111 224


Q ss_pred             HHHHHHHHHhcCCChhhHHHHHHHHhhc----CC-CccHHHHHHHHHHHHHccccc
Q 046694           67 SHIGVLTACSLGGLVEKGKKFFDEMQAR----NV-KPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        67 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~----g~-~~~~~t~~~li~~~~~~g~~~  117 (118)
                      ++..+-..|...|++++|.+.+++..+.    +. +....++..+-.+|.+.|+.+
T Consensus       226 ~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  281 (383)
T 3ulq_A          226 TLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFLITQIHYKLGKID  281 (383)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHHCCCHH
Confidence            6777777888888888888888877552    33 334666777777777777654

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=98.13  E-value=7.2e-05  Score=47.46  Aligned_cols=91  Identities=15%  Similarity=0.056  Sum_probs=72.6

Q ss_pred             HHHHHHhcCCHHHHHHHhhhCC--CC-C---HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-Cc-cHHHHHHHHHHHh
Q 046694            5 RLDFYTRTGRIDLANKIFDRLP--VK-D---SASWITLILGYGMLGELDVAINLFEAMREDGV-EY-YPVSHIGVLTACS   76 (118)
Q Consensus         5 ll~~~~~~~~~~~a~~~~~~m~--~~-~---~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~p-~~~~~~~ll~~~~   76 (118)
                      +...+.+.|++++|+..|++..  .| +   ...+..+-..|.+.|++++|...|++..+..- .| ....+..+-.++.
T Consensus        21 ~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~  100 (261)
T 3qky_A           21 RAMEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEYERAMCYY  100 (261)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHHHHHHHHH
Confidence            3456788999999999999886  23 3   56788888999999999999999999987521 12 2455666777777


Q ss_pred             c--------CCChhhHHHHHHHHhhcC
Q 046694           77 L--------GGLVEKGKKFFDEMQARN   95 (118)
Q Consensus        77 ~--------~~~~~~a~~~~~~m~~~g   95 (118)
                      +        .|++++|...|++..+..
T Consensus       101 ~~~~~~~~~~~~~~~A~~~~~~~l~~~  127 (261)
T 3qky_A          101 KLSPPYELDQTDTRKAIEAFQLFIDRY  127 (261)
T ss_dssp             HHCCCTTSCCHHHHHHHHHHHHHHHHC
T ss_pred             HhcccccccchhHHHHHHHHHHHHHHC
Confidence            7        999999999999997753

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=98.13  E-value=1.9e-05  Score=52.92  Aligned_cols=92  Identities=12%  Similarity=0.043  Sum_probs=73.8

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCCC-----C----CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc----CC-CccHHH
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLPV-----K----DSASWITLILGYGMLGELDVAINLFEAMRED----GV-EYYPVS   67 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~~-----~----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~-~p~~~~   67 (118)
                      ++.+-.+|...|++++|...|++...     +    ...++..+-..|...|++++|.+.|++..+.    +- +....+
T Consensus       187 ~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  266 (383)
T 3ulq_A          187 HSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQA  266 (383)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHH
Confidence            45567788899999999999886641     1    2247888999999999999999999998762    33 335677


Q ss_pred             HHHHHHHHhcCCChhhHHHHHHHHhh
Q 046694           68 HIGVLTACSLGGLVEKGKKFFDEMQA   93 (118)
Q Consensus        68 ~~~ll~~~~~~~~~~~a~~~~~~m~~   93 (118)
                      +..+-..+.+.|++++|.+.+++..+
T Consensus       267 ~~~l~~~~~~~g~~~~A~~~~~~al~  292 (383)
T 3ulq_A          267 YFLITQIHYKLGKIDKAHEYHSKGMA  292 (383)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            88899999999999999999998744

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.13  E-value=4.1e-05  Score=45.46  Aligned_cols=87  Identities=9%  Similarity=0.008  Sum_probs=74.1

Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHH
Q 046694           29 DSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVY  108 (118)
Q Consensus        29 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~  108 (118)
                      +...+..+-..+.+.|++++|...|++..... +-+...|..+-.++.+.|++++|...|++..+.. +.+...|..+-.
T Consensus        35 ~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~-P~~~~~~~~lg~  112 (151)
T 3gyz_A           35 MMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALG-KNDYTPVFHTGQ  112 (151)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SSCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-CCCcHHHHHHHH
Confidence            66678888889999999999999999998753 2368889999999999999999999999998754 235778889999


Q ss_pred             HHHHccccc
Q 046694          109 LLIKYNQKA  117 (118)
Q Consensus       109 ~~~~~g~~~  117 (118)
                      +|.+.|+.+
T Consensus       113 ~~~~lg~~~  121 (151)
T 3gyz_A          113 CQLRLKAPL  121 (151)
T ss_dssp             HHHHTTCHH
T ss_pred             HHHHcCCHH
Confidence            999999875

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.12  E-value=5.3e-05  Score=49.66  Aligned_cols=112  Identities=8%  Similarity=-0.001  Sum_probs=71.9

Q ss_pred             HHHHHHhcCCHHHHHHHhhhCC--CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcc--HHHHHHHHHHHhcCCC
Q 046694            5 RLDFYTRTGRIDLANKIFDRLP--VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYY--PVSHIGVLTACSLGGL   80 (118)
Q Consensus         5 ll~~~~~~~~~~~a~~~~~~m~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~--~~~~~~ll~~~~~~~~   80 (118)
                      +...+...|++++|.++|+...  .|+....-.+-..+.+.++|++|+..|++..... .|.  ...+..+-.++...|+
T Consensus       108 yA~~L~~~g~y~eA~~~l~~~~~~~p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~~~a~~~LG~al~~LG~  186 (282)
T 4f3v_A          108 FAACEAAQGNYADAMEALEAAPVAGSEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAGAAGVAHGVAAANLAL  186 (282)
T ss_dssp             HHHHHHHHTCHHHHHHHHTSSCCTTCHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHHHHHHHHHHHHHHCCC
Confidence            3456777888888888888876  3432244455557777888888888887443321 111  2356666777778888


Q ss_pred             hhhHHHHHHHHhhcCCCcc--HHHHHHHHHHHHHccccc
Q 046694           81 VEKGKKFFDEMQARNVKPT--ETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        81 ~~~a~~~~~~m~~~g~~~~--~~t~~~li~~~~~~g~~~  117 (118)
                      +++|...|++.......|.  .......-.++.+.|+.+
T Consensus       187 ~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~d  225 (282)
T 4f3v_A          187 FTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNES  225 (282)
T ss_dssp             HHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHH
Confidence            8888888888765443243  335555666666666654

>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=98.12  E-value=1.7e-05  Score=57.52  Aligned_cols=112  Identities=12%  Similarity=0.066  Sum_probs=87.4

Q ss_pred             hHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCC
Q 046694            3 EPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGG   79 (118)
Q Consensus         3 ~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~   79 (118)
                      ..+..+|.+.|++++|+..|++..   ..+...|..+-..+...|++++|...|++..+.. +-+...+..+-.++.+.|
T Consensus       437 ~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~~~~~lg~~~~~~g  515 (681)
T 2pzi_A          437 LMEVRALLDLGDVAKATRKLDDLAERVGWRWRLVWYRAVAELLTGDYDSATKHFTEVLDTF-PGELAPKLALAATAELAG  515 (681)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHhccCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcC
Confidence            345567888899999999998775   3477788888889999999999999999987652 225677788888888889


Q ss_pred             ChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           80 LVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        80 ~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      ++++ .+.|++..+.. +-+...|..+-.++.+.|+.+
T Consensus       516 ~~~~-~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~  551 (681)
T 2pzi_A          516 NTDE-HKFYQTVWSTN-DGVISAAFGLARARSAEGDRV  551 (681)
T ss_dssp             CCCT-TCHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             ChHH-HHHHHHHHHhC-CchHHHHHHHHHHHHHcCCHH
Confidence            9888 88888887643 225677888888888888764

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.12  E-value=6e-05  Score=50.02  Aligned_cols=110  Identities=9%  Similarity=-0.005  Sum_probs=79.4

Q ss_pred             HHHHHHHhcCCHHHHHHHhhhCC--C---CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc-----cHHHHHHHHH
Q 046694            4 PRLDFYTRTGRIDLANKIFDRLP--V---KDSASWITLILGYGMLGELDVAINLFEAMREDGVEY-----YPVSHIGVLT   73 (118)
Q Consensus         4 ~ll~~~~~~~~~~~a~~~~~~m~--~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-----~~~~~~~ll~   73 (118)
                      .+..++...|++++|.+++.+..  .   .+...+-..+..+.+.|+++.|.+.+++|.+.  .|     +..+..-+..
T Consensus       105 ~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~~--~~d~~~~~d~~l~~Lae  182 (310)
T 3mv2_B          105 LLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTNA--IEDTVSGDNEMILNLAE  182 (310)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CccccccchHHHHHHHH
Confidence            45667888899999999998762  1   36678888999999999999999999999775  56     2444455554


Q ss_pred             H----HhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           74 A----CSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        74 ~----~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      +    ....++.+.|..+|+++.+..  |+..+-..++.++.+.|+++
T Consensus       183 a~v~l~~g~~~~q~A~~~f~El~~~~--p~~~~~~lLln~~~~~g~~~  228 (310)
T 3mv2_B          183 SYIKFATNKETATSNFYYYEELSQTF--PTWKTQLGLLNLHLQQRNIA  228 (310)
T ss_dssp             HHHHHHHTCSTTTHHHHHHHHHHTTS--CSHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHhCCccHHHHHHHHHHHHHhC--CCcccHHHHHHHHHHcCCHH
Confidence            4    223348999999999986643  44333344444777777765

>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=98.11  E-value=0.00011  Score=41.78  Aligned_cols=89  Identities=3%  Similarity=-0.209  Sum_probs=75.1

Q ss_pred             CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHH
Q 046694           27 VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACM  106 (118)
Q Consensus        27 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~l  106 (118)
                      ..+...|..+-..+...|++++|...|++..+.. +.+...+..+-..+...|++++|...+++..+.. +.+...+..+
T Consensus         6 ~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l   83 (137)
T 3q49_B            6 SPSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFL   83 (137)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHH
Confidence            3467788889999999999999999999987753 3367889999999999999999999999997754 3367888899


Q ss_pred             HHHHHHccccc
Q 046694          107 VYLLIKYNQKA  117 (118)
Q Consensus       107 i~~~~~~g~~~  117 (118)
                      -.+|.+.|+++
T Consensus        84 ~~~~~~~~~~~   94 (137)
T 3q49_B           84 GQCQLEMESYD   94 (137)
T ss_dssp             HHHHHHTTCHH
T ss_pred             HHHHHHHhhHH
Confidence            99999888764

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.10  E-value=5.9e-05  Score=40.98  Aligned_cols=87  Identities=10%  Similarity=-0.058  Sum_probs=72.1

Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCc--cHHHHHHH
Q 046694           29 DSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKP--TETHYACM  106 (118)
Q Consensus        29 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~--~~~t~~~l  106 (118)
                      +...|..+-..+...|++++|...|++..+.. +.+...+..+-..+.+.|++++|.+.+++..+.. +.  +...+..+
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            55667778888999999999999999997753 3367788889999999999999999999997753 22  57888889


Q ss_pred             HHHHHHc-cccc
Q 046694          107 VYLLIKY-NQKA  117 (118)
Q Consensus       107 i~~~~~~-g~~~  117 (118)
                      ..++.+. |+.+
T Consensus        83 ~~~~~~~~~~~~   94 (112)
T 2kck_A           83 ADALRYIEGKEV   94 (112)
T ss_dssp             HHHHTTCSSCSH
T ss_pred             HHHHHHHhCCHH
Confidence            9999888 8764

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=98.10  E-value=7.8e-06  Score=54.38  Aligned_cols=116  Identities=12%  Similarity=-0.025  Sum_probs=85.7

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC-----CC----CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCc-cHHH
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP-----VK----DSASWITLILGYGMLGELDVAINLFEAMRED----GVEY-YPVS   67 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~-----~~----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~p-~~~~   67 (118)
                      |..+...|...|++++|...|++..     .+    ...+|..+-..|...|++++|...+++..+.    +-.+ ...+
T Consensus       190 ~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  269 (406)
T 3sf4_A          190 FGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQS  269 (406)
T ss_dssp             HHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHHHH
Confidence            4556778888999999999888664     11    2337888889999999999999999988542    2111 2567


Q ss_pred             HHHHHHHHhcCCChhhHHHHHHHHhhc----CCCc-cHHHHHHHHHHHHHccccc
Q 046694           68 HIGVLTACSLGGLVEKGKKFFDEMQAR----NVKP-TETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        68 ~~~ll~~~~~~~~~~~a~~~~~~m~~~----g~~~-~~~t~~~li~~~~~~g~~~  117 (118)
                      +..+-..+.+.|++++|.+.+++..+.    +-.+ ...++..+-.+|.+.|+.+
T Consensus       270 ~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  324 (406)
T 3sf4_A          270 CYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHD  324 (406)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHH
Confidence            888888999999999999999887442    2111 2567778888888888764

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=98.07  E-value=4.7e-05  Score=50.96  Aligned_cols=115  Identities=12%  Similarity=0.049  Sum_probs=69.0

Q ss_pred             hHHHHHHHhcCCHHHHHHHhhhCC-----CC-----CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCc-cHHH
Q 046694            3 EPRLDFYTRTGRIDLANKIFDRLP-----VK-----DSASWITLILGYGMLGELDVAINLFEAMRED----GVEY-YPVS   67 (118)
Q Consensus         3 ~~ll~~~~~~~~~~~a~~~~~~m~-----~~-----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~p-~~~~   67 (118)
                      ..+-.+|...|++++|...+++..     .+     ...+++.+-..|...|++++|.+.|++..+.    +-++ ...+
T Consensus       145 ~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~  224 (378)
T 3q15_A          145 FKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAIS  224 (378)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            345556667777777766665432     01     2345666667777777777777777776432    1111 2345


Q ss_pred             HHHHHHHHhcCCChhhHHHHHHHHhh----cCCCccHHHHHHHHHHHHHccccc
Q 046694           68 HIGVLTACSLGGLVEKGKKFFDEMQA----RNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        68 ~~~ll~~~~~~~~~~~a~~~~~~m~~----~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      +..+-..+...|++++|.+.+++..+    .+-+....++..+-.+|.+.|+.+
T Consensus       225 ~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~~  278 (378)
T 3q15_A          225 LLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFGLSWTLCKAGQTQ  278 (378)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHHHHHHHHHCCCHH
Confidence            66666777777777777777777644    122223566666777777666653

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.07  E-value=8.3e-05  Score=41.74  Aligned_cols=87  Identities=7%  Similarity=-0.182  Sum_probs=73.7

Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHH
Q 046694           29 DSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVY  108 (118)
Q Consensus        29 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~  108 (118)
                      +...|..+-..+...|++++|...|++..+.. +.+...+..+...+...|++++|.+.+++..+.. +.+...+..+-.
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~   92 (133)
T 2lni_A           15 LALMVKNKGNECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRKAA   92 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHHHH
Confidence            66788889999999999999999999987652 2367888999999999999999999999997753 336788888999


Q ss_pred             HHHHccccc
Q 046694          109 LLIKYNQKA  117 (118)
Q Consensus       109 ~~~~~g~~~  117 (118)
                      ++.+.|+++
T Consensus        93 ~~~~~~~~~  101 (133)
T 2lni_A           93 ALEAMKDYT  101 (133)
T ss_dssp             HHHHTTCHH
T ss_pred             HHHHHhhHH
Confidence            999888765

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=98.07  E-value=1.6e-05  Score=51.71  Aligned_cols=115  Identities=10%  Similarity=-0.018  Sum_probs=86.0

Q ss_pred             hHHHHHHHhcCCHHHHHHHhhhCC-------CC--CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCc-cHHHH
Q 046694            3 EPRLDFYTRTGRIDLANKIFDRLP-------VK--DSASWITLILGYGMLGELDVAINLFEAMRED----GVEY-YPVSH   68 (118)
Q Consensus         3 ~~ll~~~~~~~~~~~a~~~~~~m~-------~~--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~p-~~~~~   68 (118)
                      +.....|...|++++|...|++..       .+  ...+|+.+-..|.+.|++++|+..|++..+.    |-.+ -..++
T Consensus        41 ~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~  120 (292)
T 1qqe_A           41 VQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFK  120 (292)
T ss_dssp             HHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            444567788899999988887553       12  2568999999999999999999999988642    2111 14578


Q ss_pred             HHHHHHHhcC-CChhhHHHHHHHHhhcCC----Ccc-HHHHHHHHHHHHHccccc
Q 046694           69 IGVLTACSLG-GLVEKGKKFFDEMQARNV----KPT-ETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        69 ~~ll~~~~~~-~~~~~a~~~~~~m~~~g~----~~~-~~t~~~li~~~~~~g~~~  117 (118)
                      +.+-..|... |++++|...|++..+..-    .+. ..+++.+-..|.+.|+.+
T Consensus       121 ~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~  175 (292)
T 1qqe_A          121 FELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYI  175 (292)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHH
Confidence            8888999996 999999999999855321    111 457888888998888765

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.07  E-value=0.00021  Score=38.91  Aligned_cols=84  Identities=8%  Similarity=-0.121  Sum_probs=52.7

Q ss_pred             HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCcc-------HHH
Q 046694           30 SASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPT-------ETH  102 (118)
Q Consensus        30 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~-------~~t  102 (118)
                      ...|..+-..+...|++++|.+.|++..+.. +.+...+..+-.++.+.|++++|.+.+++..+..  |+       ...
T Consensus         4 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~   80 (111)
T 2l6j_A            4 FEKQKEQGNSLFKQGLYREAVHCYDQLITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYT--STAEHVAIRSKL   80 (111)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSC--SSTTSHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC--CCccHHHHHHHH
Confidence            3455666667777777777777777776542 2256667777777777777777777777776532  32       334


Q ss_pred             HHHHHHHHHHcccc
Q 046694          103 YACMVYLLIKYNQK  116 (118)
Q Consensus       103 ~~~li~~~~~~g~~  116 (118)
                      +..+-.++...|+.
T Consensus        81 ~~~~~~~~~~~~~~   94 (111)
T 2l6j_A           81 QYRLELAQGAVGSV   94 (111)
T ss_dssp             HHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHHhH
Confidence            44455555554443

>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=98.07  E-value=0.00017  Score=46.69  Aligned_cols=112  Identities=15%  Similarity=-0.008  Sum_probs=85.3

Q ss_pred             HHHHHHHhcCCHHHHHHHhhhCC-----CCC----HhhHHHHHHHHHhcCCHHHHHHHHHHHHH----c-CCCcc-HHHH
Q 046694            4 PRLDFYTRTGRIDLANKIFDRLP-----VKD----SASWITLILGYGMLGELDVAINLFEAMRE----D-GVEYY-PVSH   68 (118)
Q Consensus         4 ~ll~~~~~~~~~~~a~~~~~~m~-----~~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~----~-~~~p~-~~~~   68 (118)
                      .+...+...+++++|+..|++..     .++    ..+|+.+-..|...|++++|...|++..+    . +..+. ..++
T Consensus       120 ~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  199 (293)
T 3u3w_A          120 YVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVR  199 (293)
T ss_dssp             HHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHH
T ss_pred             HHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHH
Confidence            35556667789999999998653     223    33689999999999999999999999974    1 22232 3588


Q ss_pred             HHHHHHHhcCCChhhHHHHHHHHhh----cCCCcc-HHHHHHHHHHHHHccc
Q 046694           69 IGVLTACSLGGLVEKGKKFFDEMQA----RNVKPT-ETHYACMVYLLIKYNQ  115 (118)
Q Consensus        69 ~~ll~~~~~~~~~~~a~~~~~~m~~----~g~~~~-~~t~~~li~~~~~~g~  115 (118)
                      ..+...|.+.|++++|.+.+++..+    .+..+. ...|..+-.+|.+.|+
T Consensus       200 ~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~~~~~g~  251 (293)
T 3u3w_A          200 YNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQRGECLRKLEY  251 (293)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhCC
Confidence            8999999999999999999998743    333333 6778888888888873

>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=98.05  E-value=8.1e-05  Score=43.73  Aligned_cols=87  Identities=11%  Similarity=0.039  Sum_probs=72.6

Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHH
Q 046694           29 DSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVY  108 (118)
Q Consensus        29 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~  108 (118)
                      +...+..+-..+...|++++|...|++..... +.+...|..+-.++...|++++|...|++..+.. +.+...+..+-.
T Consensus        20 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~   97 (148)
T 2vgx_A           20 TLEQLYSLAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-IXEPRFPFHAAE   97 (148)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHH
Confidence            56677778889999999999999999987653 3377888888899999999999999999997754 235678888889


Q ss_pred             HHHHccccc
Q 046694          109 LLIKYNQKA  117 (118)
Q Consensus       109 ~~~~~g~~~  117 (118)
                      +|...|+.+
T Consensus        98 ~~~~~g~~~  106 (148)
T 2vgx_A           98 CLLQXGELA  106 (148)
T ss_dssp             HHHHTTCHH
T ss_pred             HHHHcCCHH
Confidence            999888865

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.05  E-value=0.00014  Score=41.58  Aligned_cols=86  Identities=7%  Similarity=-0.087  Sum_probs=72.3

Q ss_pred             HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHH
Q 046694           30 SASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYL  109 (118)
Q Consensus        30 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~  109 (118)
                      ...|...-..|.+.|++++|++.|++..+.. +-+...|..+-.++.+.|++++|...+++..+.. +.+...|..+-.+
T Consensus        13 a~~~~~~G~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~   90 (126)
T 4gco_A           13 AQEEKNKGNEYFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYIRKAAC   90 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHHHHHHH
Confidence            4467777888999999999999999987653 3378899999999999999999999999997753 3357788899999


Q ss_pred             HHHccccc
Q 046694          110 LIKYNQKA  117 (118)
Q Consensus       110 ~~~~g~~~  117 (118)
                      |.+.|+++
T Consensus        91 ~~~~~~~~   98 (126)
T 4gco_A           91 LVAMREWS   98 (126)
T ss_dssp             HHHTTCHH
T ss_pred             HHHCCCHH
Confidence            99988765

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=98.04  E-value=1.3e-05  Score=51.62  Aligned_cols=116  Identities=11%  Similarity=-0.026  Sum_probs=87.3

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCCC-----C----CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCc-cHHH
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLPV-----K----DSASWITLILGYGMLGELDVAINLFEAMRED----GVEY-YPVS   67 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~~-----~----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~p-~~~~   67 (118)
                      +..+...|...|++++|...|++...     +    ...++..+...+...|++++|...+++..+.    +-.+ ...+
T Consensus       186 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  265 (338)
T 3ro2_A          186 FGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQS  265 (338)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHH
Confidence            34566788899999999999987641     1    2337888889999999999999999998642    1111 2567


Q ss_pred             HHHHHHHHhcCCChhhHHHHHHHHhhc----CCC-ccHHHHHHHHHHHHHccccc
Q 046694           68 HIGVLTACSLGGLVEKGKKFFDEMQAR----NVK-PTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        68 ~~~ll~~~~~~~~~~~a~~~~~~m~~~----g~~-~~~~t~~~li~~~~~~g~~~  117 (118)
                      +..+-..+...|++++|...+++..+.    +-. ....++..+..+|.+.|+.+
T Consensus       266 ~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  320 (338)
T 3ro2_A          266 CYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHD  320 (338)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChH
Confidence            788889999999999999999987442    211 12557778888888888764

>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=98.04  E-value=0.00011  Score=40.11  Aligned_cols=86  Identities=12%  Similarity=-0.115  Sum_probs=71.3

Q ss_pred             HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHH
Q 046694           30 SASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYL  109 (118)
Q Consensus        30 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~  109 (118)
                      ...+..+...+...|++++|.+.|++..... +.+...+..+...+.+.|++++|...+++..+.. +.+...+..+..+
T Consensus         4 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~   81 (118)
T 1elw_A            4 VNELKEKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAA   81 (118)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHHH
Confidence            4567778888999999999999999997653 3367888888999999999999999999997753 3357788888899


Q ss_pred             HHHccccc
Q 046694          110 LIKYNQKA  117 (118)
Q Consensus       110 ~~~~g~~~  117 (118)
                      +.+.|+.+
T Consensus        82 ~~~~~~~~   89 (118)
T 1elw_A           82 LEFLNRFE   89 (118)
T ss_dssp             HHHTTCHH
T ss_pred             HHHHhhHH
Confidence            98888764

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=98.03  E-value=0.00014  Score=43.68  Aligned_cols=106  Identities=11%  Similarity=-0.043  Sum_probs=82.1

Q ss_pred             HHHHHHHhcCCHHHHHHHhhhCC--CCC--------H-----hhHHHHHHHHHhcCCHHHHHHHHHHHHHc-----CCCc
Q 046694            4 PRLDFYTRTGRIDLANKIFDRLP--VKD--------S-----ASWITLILGYGMLGELDVAINLFEAMRED-----GVEY   63 (118)
Q Consensus         4 ~ll~~~~~~~~~~~a~~~~~~m~--~~~--------~-----~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----~~~p   63 (118)
                      ..-..+.+.|++++|+..|++-.  .|+        .     ..|+.+-.++.+.|++++|+..+++..+.     .+.|
T Consensus        16 ~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~p   95 (159)
T 2hr2_A           16 SDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQ   95 (159)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTS
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCC
Confidence            34556778999999999998664  222        2     38999999999999999999999998763     2356


Q ss_pred             c-HHHH----HHHHHHHhcCCChhhHHHHHHHHh-----hcCCCccHHHHHHHHHH
Q 046694           64 Y-PVSH----IGVLTACSLGGLVEKGKKFFDEMQ-----ARNVKPTETHYACMVYL  109 (118)
Q Consensus        64 ~-~~~~----~~ll~~~~~~~~~~~a~~~~~~m~-----~~g~~~~~~t~~~li~~  109 (118)
                      + ...|    ...-.++...|++++|...|++..     +.|+.+........+..
T Consensus        96 d~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~p~d~~~~~~~~~~~~~~~~  151 (159)
T 2hr2_A           96 DEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGETPGKERMMEVAID  151 (159)
T ss_dssp             THHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCCSCCTTHHHHHHHHHH
T ss_pred             chHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHH
Confidence            4 5667    788889999999999999999973     35677666665555443

>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=98.03  E-value=5.8e-05  Score=44.11  Aligned_cols=89  Identities=13%  Similarity=-0.056  Sum_probs=70.0

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHH--HHHHHHHh
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSH--IGVLTACS   76 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~--~~ll~~~~   76 (118)
                      |..+..++.+.|++++|...|++..   ..+...|..+-..+...|++++|...|++..+..- .+...+  ......+.
T Consensus        50 ~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~p-~~~~~~~~~~~~~~~~  128 (166)
T 1a17_A           50 YGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKFRAALRDYETVVKVKP-HDKDAKMKYQECNKIV  128 (166)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHH
Confidence            4456778889999999999998764   44778899999999999999999999999986532 233444  34444577


Q ss_pred             cCCChhhHHHHHHHH
Q 046694           77 LGGLVEKGKKFFDEM   91 (118)
Q Consensus        77 ~~~~~~~a~~~~~~m   91 (118)
                      +.|++++|.+.+...
T Consensus       129 ~~~~~~~A~~~~~~~  143 (166)
T 1a17_A          129 KQKAFERAIAGDEHK  143 (166)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcccch
Confidence            889999999998876

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.02  E-value=0.00011  Score=42.58  Aligned_cols=87  Identities=13%  Similarity=0.030  Sum_probs=71.3

Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHH
Q 046694           29 DSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVY  108 (118)
Q Consensus        29 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~  108 (118)
                      +...+..+-..+.+.|++++|...|++..... +.+...|..+-.++.+.|++++|...|++..+.. +.+...+..+-.
T Consensus        17 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~   94 (142)
T 2xcb_A           17 TLEQLYALGFNQYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAAE   94 (142)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHH
Confidence            45566677788889999999999999998753 2367888888899999999999999999997754 335677888888


Q ss_pred             HHHHccccc
Q 046694          109 LLIKYNQKA  117 (118)
Q Consensus       109 ~~~~~g~~~  117 (118)
                      +|...|+.+
T Consensus        95 ~~~~~g~~~  103 (142)
T 2xcb_A           95 CHLQLGDLD  103 (142)
T ss_dssp             HHHHTTCHH
T ss_pred             HHHHcCCHH
Confidence            999888765

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=98.01  E-value=4.5e-05  Score=50.67  Aligned_cols=115  Identities=14%  Similarity=0.069  Sum_probs=87.7

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCCC-----C----CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCc-cHHH
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLPV-----K----DSASWITLILGYGMLGELDVAINLFEAMRED----GVEY-YPVS   67 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~~-----~----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~p-~~~~   67 (118)
                      |..+...|...|++++|...|++...     +    ...++..+-..|...|++++|.+.|++..+.    +-.+ ...+
T Consensus       230 ~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~  309 (406)
T 3sf4_A          230 YSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRA  309 (406)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHH
Confidence            45667788999999999999987641     1    2568888999999999999999999998643    2122 2567


Q ss_pred             HHHHHHHHhcCCChhhHHHHHHHHhh----cCCCc-cHHHHHHHHHHHHHcccc
Q 046694           68 HIGVLTACSLGGLVEKGKKFFDEMQA----RNVKP-TETHYACMVYLLIKYNQK  116 (118)
Q Consensus        68 ~~~ll~~~~~~~~~~~a~~~~~~m~~----~g~~~-~~~t~~~li~~~~~~g~~  116 (118)
                      +..+-..+.+.|++++|.+.+++..+    .+-.+ ...++..+...+...|+.
T Consensus       310 ~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  363 (406)
T 3sf4_A          310 CWSLGNAYTALGNHDQAMHFAEKHLEISREVGDKSGELTARLNLSDLQMVLGLS  363 (406)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHHhhHh
Confidence            88888999999999999999998743    23222 356677788888877764

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.00  E-value=0.00016  Score=40.18  Aligned_cols=87  Identities=13%  Similarity=0.012  Sum_probs=72.6

Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHH
Q 046694           29 DSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVY  108 (118)
Q Consensus        29 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~  108 (118)
                      +...+..+...+...|++++|...|++..+.. +.+...+..+...+...|++++|.+.+++..+.. +.+...+..+..
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            55678888899999999999999999997653 3367888899999999999999999999997753 335778888888


Q ss_pred             HHHHccccc
Q 046694          109 LLIKYNQKA  117 (118)
Q Consensus       109 ~~~~~g~~~  117 (118)
                      ++.+.|+.+
T Consensus        89 ~~~~~~~~~   97 (131)
T 2vyi_A           89 ALSSLNKHV   97 (131)
T ss_dssp             HHHHTTCHH
T ss_pred             HHHHhCCHH
Confidence            998888764

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=97.99  E-value=1.8e-05  Score=53.02  Aligned_cols=116  Identities=9%  Similarity=-0.048  Sum_probs=87.6

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCCC-----C----CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCC-ccHHH
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLPV-----K----DSASWITLILGYGMLGELDVAINLFEAMRED----GVE-YYPVS   67 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~~-----~----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~-p~~~~   67 (118)
                      |..+...|...|++++|...|++...     +    ....+..+...|...|++++|...|++..+.    +-. ....+
T Consensus       226 ~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  305 (411)
T 4a1s_A          226 CGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQS  305 (411)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            44567788899999999999987641     1    1237888899999999999999999988643    111 12577


Q ss_pred             HHHHHHHHhcCCChhhHHHHHHHHhhc----CCC-ccHHHHHHHHHHHHHccccc
Q 046694           68 HIGVLTACSLGGLVEKGKKFFDEMQAR----NVK-PTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        68 ~~~ll~~~~~~~~~~~a~~~~~~m~~~----g~~-~~~~t~~~li~~~~~~g~~~  117 (118)
                      +..+-..+...|++++|...+++..+.    +.. ....++..+..+|.+.|+.+
T Consensus       306 ~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  360 (411)
T 4a1s_A          306 CYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHE  360 (411)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHH
Confidence            888899999999999999999987442    211 12457778888888888764

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=97.99  E-value=8.2e-05  Score=47.20  Aligned_cols=109  Identities=11%  Similarity=0.044  Sum_probs=81.5

Q ss_pred             HHHHHHHhcCCHHHHHHHhhhCC--CC----CHhhHHHHHHHHHh--------cCCHHHHHHHHHHHHHcCCCcc-HHHH
Q 046694            4 PRLDFYTRTGRIDLANKIFDRLP--VK----DSASWITLILGYGM--------LGELDVAINLFEAMREDGVEYY-PVSH   68 (118)
Q Consensus         4 ~ll~~~~~~~~~~~a~~~~~~m~--~~----~~~~~~~li~~~~~--------~~~~~~a~~~~~~m~~~~~~p~-~~~~   68 (118)
                      .+..+|.+.|++++|+..|++..  .|    ....+..+-..+..        .|++++|...|++..+..  |+ ....
T Consensus        57 ~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~  134 (261)
T 3qky_A           57 YLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY--PNHELVD  134 (261)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC--TTCTTHH
T ss_pred             HHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHC--cCchhHH
Confidence            45677889999999999999775  22    23456667777777        999999999999998752  32 2222


Q ss_pred             -----------------HHHHHHHhcCCChhhHHHHHHHHhhcCCCc--cHHHHHHHHHHHHHcc
Q 046694           69 -----------------IGVLTACSLGGLVEKGKKFFDEMQARNVKP--TETHYACMVYLLIKYN  114 (118)
Q Consensus        69 -----------------~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~--~~~t~~~li~~~~~~g  114 (118)
                                       ..+-..+.+.|++++|...|++..+.....  ....+..+..+|.+.|
T Consensus       135 ~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g  199 (261)
T 3qky_A          135 DATQKIRELRAKLARKQYEAARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYA  199 (261)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhc
Confidence                             455778889999999999999997754321  3557777888887663

>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=97.99  E-value=1.7e-05  Score=51.93  Aligned_cols=89  Identities=7%  Similarity=-0.108  Sum_probs=47.1

Q ss_pred             hHHHHHHHhcCCHHHHHHHhhhCC-------CC--CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCc-cHHHH
Q 046694            3 EPRLDFYTRTGRIDLANKIFDRLP-------VK--DSASWITLILGYGMLGELDVAINLFEAMRED----GVEY-YPVSH   68 (118)
Q Consensus         3 ~~ll~~~~~~~~~~~a~~~~~~m~-------~~--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~p-~~~~~   68 (118)
                      +.+..+|.+.|++++|+..|++..       .+  -..+++.+-..|.. |++++|+..|++..+.    |-.+ ...++
T Consensus        80 ~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~  158 (307)
T 2ifu_A           80 EQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELI  158 (307)
T ss_dssp             HHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHH
Confidence            344455555566665555554321       11  12355555556655 6666666666665431    1111 13455


Q ss_pred             HHHHHHHhcCCChhhHHHHHHHHh
Q 046694           69 IGVLTACSLGGLVEKGKKFFDEMQ   92 (118)
Q Consensus        69 ~~ll~~~~~~~~~~~a~~~~~~m~   92 (118)
                      +.+-..+.+.|++++|...|++..
T Consensus       159 ~~lg~~~~~~g~~~~A~~~~~~al  182 (307)
T 2ifu_A          159 GKASRLLVRQQKFDEAAASLQKEK  182 (307)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHH
Confidence            566666666666666666666653

>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=97.99  E-value=6.8e-05  Score=54.40  Aligned_cols=107  Identities=10%  Similarity=-0.073  Sum_probs=89.5

Q ss_pred             HhcCCHHHHHHHhhhCC-----------CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcC
Q 046694           10 TRTGRIDLANKIFDRLP-----------VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLG   78 (118)
Q Consensus        10 ~~~~~~~~a~~~~~~m~-----------~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~   78 (118)
                      ...|++++|+..|++..           ..+...|..+-..+...|++++|.+.|++..+.. +-+...|..+-.++...
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            57899999999998764           3467788888999999999999999999998752 23678888888999999


Q ss_pred             CChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHcccccC
Q 046694           79 GLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQKAR  118 (118)
Q Consensus        79 ~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~~  118 (118)
                      |++++|.+.|++..+.. +-+...+..+-.+|.+.|++++
T Consensus       481 g~~~~A~~~~~~al~l~-P~~~~~~~~lg~~~~~~g~~~~  519 (681)
T 2pzi_A          481 GDYDSATKHFTEVLDTF-PGELAPKLALAATAELAGNTDE  519 (681)
T ss_dssp             TCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCCCT
T ss_pred             CCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCChHH
Confidence            99999999999997754 2257788899999999998764

>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=97.99  E-value=0.00018  Score=40.51  Aligned_cols=86  Identities=8%  Similarity=-0.115  Sum_probs=71.4

Q ss_pred             HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHH
Q 046694           30 SASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYL  109 (118)
Q Consensus        30 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~  109 (118)
                      ...|...-..+.+.|++++|...|++..+.. +.+...|..+-.++.+.|++++|...+++..+.. +.+...|..+-.+
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            3456777788899999999999999997753 3367889999999999999999999999997754 2357788888899


Q ss_pred             HHHccccc
Q 046694          110 LIKYNQKA  117 (118)
Q Consensus       110 ~~~~g~~~  117 (118)
                      +.+.|+.+
T Consensus        82 ~~~~~~~~   89 (126)
T 3upv_A           82 QIAVKEYA   89 (126)
T ss_dssp             HHHTTCHH
T ss_pred             HHHHhCHH
Confidence            98888765

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=97.98  E-value=0.00015  Score=42.90  Aligned_cols=87  Identities=13%  Similarity=-0.003  Sum_probs=73.9

Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHH
Q 046694           29 DSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVY  108 (118)
Q Consensus        29 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~  108 (118)
                      +...|..+-..+.+.|++++|+..|++..+.. +-+...|..+-.++.+.|++++|...|++..+.. +.+...|..+-.
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~   87 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWSRLGL   87 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            55678888899999999999999999998753 2378889999999999999999999999997754 335888889999


Q ss_pred             HHHHccccc
Q 046694          109 LLIKYNQKA  117 (118)
Q Consensus       109 ~~~~~g~~~  117 (118)
                      +|.+.|+++
T Consensus        88 ~~~~~g~~~   96 (164)
T 3sz7_A           88 ARFDMADYK   96 (164)
T ss_dssp             HHHHTTCHH
T ss_pred             HHHHccCHH
Confidence            999988765

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.97  E-value=0.00024  Score=40.56  Aligned_cols=87  Identities=8%  Similarity=-0.131  Sum_probs=72.9

Q ss_pred             CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcc----HHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHH
Q 046694           28 KDSASWITLILGYGMLGELDVAINLFEAMREDGVEYY----PVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHY  103 (118)
Q Consensus        28 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~  103 (118)
                      .+...+..+-..+...|++++|.+.|++..+.  .|+    ...+..+-..+.+.|++++|.+.+++..+.. +.+...+
T Consensus        26 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  102 (148)
T 2dba_A           26 SSVEQLRKEGNELFKCGDYGGALAAYTQALGL--DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKAL  102 (148)
T ss_dssp             CCHHHHHHHHHHHHTTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHHH
T ss_pred             HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH--cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHHH
Confidence            36778888999999999999999999998865  455    6788888899999999999999999987753 2357788


Q ss_pred             HHHHHHHHHccccc
Q 046694          104 ACMVYLLIKYNQKA  117 (118)
Q Consensus       104 ~~li~~~~~~g~~~  117 (118)
                      ..+-.+|.+.|+.+
T Consensus       103 ~~~a~~~~~~~~~~  116 (148)
T 2dba_A          103 YRRSQALEKLGRLD  116 (148)
T ss_dssp             HHHHHHHHHHTCHH
T ss_pred             HHHHHHHHHcCCHH
Confidence            88888888888764

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=97.93  E-value=8e-05  Score=49.82  Aligned_cols=93  Identities=15%  Similarity=0.133  Sum_probs=74.6

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCCC-----C----CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCccHHHH
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLPV-----K----DSASWITLILGYGMLGELDVAINLFEAMRED----GVEYYPVSH   68 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~~-----~----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~p~~~~~   68 (118)
                      ++.+-.+|...|++++|...|++...     +    ...+++.+-..|...|++++|.+.|++..+.    +-+....++
T Consensus       185 ~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~  264 (378)
T 3q15_A          185 LFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVL  264 (378)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHH
Confidence            45677788999999999998876541     1    3457888889999999999999999998761    233347788


Q ss_pred             HHHHHHHhcCCChhhHHHHHHHHhhc
Q 046694           69 IGVLTACSLGGLVEKGKKFFDEMQAR   94 (118)
Q Consensus        69 ~~ll~~~~~~~~~~~a~~~~~~m~~~   94 (118)
                      ..+-..+.+.|+.++|...+++..+.
T Consensus       265 ~~la~~~~~~g~~~~A~~~~~~al~~  290 (378)
T 3q15_A          265 FGLSWTLCKAGQTQKAFQFIEEGLDH  290 (378)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            88999999999999999999998553

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=97.93  E-value=7.7e-05  Score=48.44  Aligned_cols=77  Identities=5%  Similarity=-0.044  Sum_probs=61.6

Q ss_pred             HHHHHHHhhhCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc-cHHHHHHHHHHHhcCCChhhHHHHHHHHhh
Q 046694           15 IDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEY-YPVSHIGVLTACSLGGLVEKGKKFFDEMQA   93 (118)
Q Consensus        15 ~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~   93 (118)
                      .+.....+++....+...+..+-..+...|++++|...|++..+.  .| +...+..+...+.+.|++++|...+++..+
T Consensus       102 ~~~l~~~l~~~lp~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~  179 (287)
T 3qou_A          102 EEAIRALLDXVLPREEELXAQQAMQLMQESNYTDALPLLXDAWQL--SNQNGEIGLLLAETLIALNRSEDAEAVLXTIPL  179 (287)
T ss_dssp             HHHHHHHHHHHSCCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--TTSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCG
T ss_pred             HHHHHHHHHHHcCCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCcchhHHHHHHHHHHHCCCHHHHHHHHHhCch
Confidence            345555666555556667778888899999999999999999775  34 677888899999999999999999888744

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=97.93  E-value=0.0002  Score=50.04  Aligned_cols=115  Identities=15%  Similarity=0.161  Sum_probs=84.1

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCCC--C-CHhhHHHHH-HHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhc
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLPV--K-DSASWITLI-LGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSL   77 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~~--~-~~~~~~~li-~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~   77 (118)
                      |..++..+.+.|++++|+.+|++...  | +...|.... -.+...|++++|..+|++..+.. +-+...|..++..+.+
T Consensus       359 ~~~~~~~~~~~~~~~~A~~~~~~Al~~~~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~-p~~~~~~~~~~~~~~~  437 (530)
T 2ooe_A          359 YIQYMKFARRAEGIKSGRMIFKKAREDARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSH  437 (530)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHTCTTCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHhccCCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHC-CCCHHHHHHHHHHHHh
Confidence            55666777788999999999987642  2 222222221 12336899999999999987642 2367889999999999


Q ss_pred             CCChhhHHHHHHHHhhcC-CCcc--HHHHHHHHHHHHHccccc
Q 046694           78 GGLVEKGKKFFDEMQARN-VKPT--ETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        78 ~~~~~~a~~~~~~m~~~g-~~~~--~~t~~~li~~~~~~g~~~  117 (118)
                      .|+.++|..+|++....+ ..|+  ...|...+....+.|+.+
T Consensus       438 ~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~  480 (530)
T 2ooe_A          438 LNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLA  480 (530)
T ss_dssp             TTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHH
T ss_pred             CCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHH
Confidence            999999999999997764 2333  558888888888878653

>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=97.91  E-value=0.0002  Score=39.83  Aligned_cols=87  Identities=10%  Similarity=-0.016  Sum_probs=70.4

Q ss_pred             HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCC--Ccc----HHHH
Q 046694           30 SASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNV--KPT----ETHY  103 (118)
Q Consensus        30 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~--~~~----~~t~  103 (118)
                      ...|..+-..+...|++++|...|++..+.. +.+...+..+...+...|++++|...+++..+...  .++    ..++
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            3467778888999999999999999998753 34678888899999999999999999999866432  222    6778


Q ss_pred             HHHHHHHHHccccc
Q 046694          104 ACMVYLLIKYNQKA  117 (118)
Q Consensus       104 ~~li~~~~~~g~~~  117 (118)
                      ..+-.+|.+.|+++
T Consensus        83 ~~la~~~~~~~~~~   96 (131)
T 1elr_A           83 ARIGNSYFKEEKYK   96 (131)
T ss_dssp             HHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHhccHH
Confidence            88888888888764

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=97.91  E-value=0.00053  Score=44.94  Aligned_cols=99  Identities=11%  Similarity=-0.024  Sum_probs=74.9

Q ss_pred             HHHHHhcCCHHHHHHHhhhCCCC-C----HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcc--HHHHHHHHHHHhcC
Q 046694            6 LDFYTRTGRIDLANKIFDRLPVK-D----SASWITLILGYGMLGELDVAINLFEAMREDGVEYY--PVSHIGVLTACSLG   78 (118)
Q Consensus         6 l~~~~~~~~~~~a~~~~~~m~~~-~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~--~~~~~~ll~~~~~~   78 (118)
                      -..+.+.+++++|+..|++.... +    ...+..+=.++...|++++|++.|++.......|.  .......--++.+.
T Consensus       142 a~l~~~~~r~~dA~~~l~~a~~~~d~~~~~~a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~l  221 (282)
T 4f3v_A          142 AVVYGAAERWTDVIDQVKSAGKWPDKFLAGAAGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQ  221 (282)
T ss_dssp             HHHHHHTTCHHHHHHHHTTGGGCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHhhccCCcccHHHHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHc
Confidence            34778999999999999866532 1    23677778889999999999999999875444353  34566667778899


Q ss_pred             CChhhHHHHHHHHhhcCCCccHHHHHHH
Q 046694           79 GLVEKGKKFFDEMQARNVKPTETHYACM  106 (118)
Q Consensus        79 ~~~~~a~~~~~~m~~~g~~~~~~t~~~l  106 (118)
                      |+.++|..+|+++.+..  |+...+..|
T Consensus       222 Gr~deA~~~l~~a~a~~--P~~~~~~aL  247 (282)
T 4f3v_A          222 GNESAAVALLEWLQTTH--PEPKVAAAL  247 (282)
T ss_dssp             TCHHHHHHHHHHHHHHS--CCHHHHHHH
T ss_pred             CCHHHHHHHHHHHHhcC--CcHHHHHHH
Confidence            99999999999998754  444444444

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=97.91  E-value=3.9e-05  Score=51.42  Aligned_cols=111  Identities=10%  Similarity=-0.035  Sum_probs=85.4

Q ss_pred             HHHHHHhcCCHHHHHHHhhhCC--CC-CH----hhHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCC-ccHHHHHHHH
Q 046694            5 RLDFYTRTGRIDLANKIFDRLP--VK-DS----ASWITLILGYGMLGELDVAINLFEAMRED----GVE-YYPVSHIGVL   72 (118)
Q Consensus         5 ll~~~~~~~~~~~a~~~~~~m~--~~-~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~-p~~~~~~~ll   72 (118)
                      +-..+...|++++|+..|++..  .| +.    ..|..+-..|...|++++|...|++..+.    +-. .....+..+-
T Consensus        54 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~  133 (411)
T 4a1s_A           54 EGERLCNAGDCRAGVAFFQAAIQAGTEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGNLG  133 (411)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHhCcHHHHHHHHHHHHHhcccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHHHH
Confidence            4456788999999999998775  23 33    47888889999999999999999998643    222 3457788889


Q ss_pred             HHHhcCCChhhHHHHHHHHhhc----CC-CccHHHHHHHHHHHHHccc
Q 046694           73 TACSLGGLVEKGKKFFDEMQAR----NV-KPTETHYACMVYLLIKYNQ  115 (118)
Q Consensus        73 ~~~~~~~~~~~a~~~~~~m~~~----g~-~~~~~t~~~li~~~~~~g~  115 (118)
                      ..+...|++++|...+++..+.    +- .....++..+-.+|...|+
T Consensus       134 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~  181 (411)
T 4a1s_A          134 NTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGK  181 (411)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCc
Confidence            9999999999999999987443    21 2235577788888888776

>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=97.90  E-value=0.00013  Score=48.56  Aligned_cols=90  Identities=7%  Similarity=-0.107  Sum_probs=74.9

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcC
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLG   78 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~   78 (118)
                      |..+-.+|.+.|++++|+..|++..   ..+...|..+-.+|...|++++|...|++..+.. +-+...+..+-..+.+.
T Consensus       199 ~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~  277 (336)
T 1p5q_A          199 HLNLAMCHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQQRI  277 (336)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHH
Confidence            4567778899999999999999765   4588899999999999999999999999998752 23677888888999999


Q ss_pred             CChhhH-HHHHHHHh
Q 046694           79 GLVEKG-KKFFDEMQ   92 (118)
Q Consensus        79 ~~~~~a-~~~~~~m~   92 (118)
                      |+.+++ .++|+.|.
T Consensus       278 ~~~~~a~~~~~~~~~  292 (336)
T 1p5q_A          278 RRQLAREKKLYANMF  292 (336)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH
Confidence            999988 45666663

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.88  E-value=0.00048  Score=36.08  Aligned_cols=84  Identities=13%  Similarity=0.124  Sum_probs=64.7

Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHH
Q 046694           29 DSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVY  108 (118)
Q Consensus        29 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~  108 (118)
                      +...|..+-..+...|++++|...|++..+.. +.+...+..+-..+.+.|++++|.+.+++..+.. +.+...+..+-.
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            34567778888889999999999999987653 2367788888889999999999999999987653 234666777766


Q ss_pred             HHHHcc
Q 046694          109 LLIKYN  114 (118)
Q Consensus       109 ~~~~~g  114 (118)
                      ++.+.|
T Consensus        86 ~~~~~g   91 (91)
T 1na3_A           86 AKQKQG   91 (91)
T ss_dssp             HHHHHC
T ss_pred             HHHhcC
Confidence            665543

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=97.85  E-value=0.00091  Score=45.58  Aligned_cols=111  Identities=11%  Similarity=0.112  Sum_probs=78.2

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC------------CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc-----C-CCc
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP------------VKDSASWITLILGYGMLGELDVAINLFEAMRED-----G-VEY   63 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~------------~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----~-~~p   63 (118)
                      ||.|-..+...|++++|++.|++-.            .....+|+.+-..|...|++++|...+++..+-     + ..+
T Consensus        54 yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~~~~~  133 (472)
T 4g1t_A           54 CNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSSPYRI  133 (472)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCSSCC
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcccccch
Confidence            6778888999999999999987542            225678999999999999999999999988542     1 122


Q ss_pred             -cHHHHHHHHHHHhc--CCChhhHHHHHHHHhhcCCCc-cHHHHHHHHHHHHHcc
Q 046694           64 -YPVSHIGVLTACSL--GGLVEKGKKFFDEMQARNVKP-TETHYACMVYLLIKYN  114 (118)
Q Consensus        64 -~~~~~~~ll~~~~~--~~~~~~a~~~~~~m~~~g~~~-~~~t~~~li~~~~~~g  114 (118)
                       ...+++..-.++.+  .+++++|...|++..+..  | ++..+..+..++.+.+
T Consensus       134 ~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~--p~~~~~~~~~~~~~~~l~  186 (472)
T 4g1t_A          134 ESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKK--PKNPEFTSGLAIASYRLD  186 (472)
T ss_dssp             CCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHhc
Confidence             24455554444444  457999999999987643  4 3455555555544433

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.85  E-value=0.00029  Score=38.38  Aligned_cols=86  Identities=12%  Similarity=-0.006  Sum_probs=63.8

Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcC-CCccHHHHHHHH
Q 046694           29 DSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARN-VKPTETHYACMV  107 (118)
Q Consensus        29 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g-~~~~~~t~~~li  107 (118)
                      +...|..+-..|...|++++|...|++..+.. +-+...|..+-.++.+.|++++|.+.|++..+.. -.++......+.
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            56677888888888999999999999887653 2256678888888889999999999988875432 234566666666


Q ss_pred             HHHHHccc
Q 046694          108 YLLIKYNQ  115 (118)
Q Consensus       108 ~~~~~~g~  115 (118)
                      ..+.+.+.
T Consensus        85 ~~l~~~~~   92 (100)
T 3ma5_A           85 DAKLKAEG   92 (100)
T ss_dssp             HHHHHHHT
T ss_pred             HHHHHccc
Confidence            66665554

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=97.84  E-value=0.00015  Score=50.14  Aligned_cols=87  Identities=10%  Similarity=-0.093  Sum_probs=70.6

Q ss_pred             HHHHHhcCCHHHHHHHhhhCC-------CC----CHhhHHHHHHHHHhcCCHHHHHHHHHHHHH-----cC-CCc-cHHH
Q 046694            6 LDFYTRTGRIDLANKIFDRLP-------VK----DSASWITLILGYGMLGELDVAINLFEAMRE-----DG-VEY-YPVS   67 (118)
Q Consensus         6 l~~~~~~~~~~~a~~~~~~m~-------~~----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-----~~-~~p-~~~~   67 (118)
                      +..+.+.|++++|+.++++..       .+    -..+++.+...|...|++++|+.++++...     .| -.| ...+
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            455677899999999997553       11    456899999999999999999999998853     22 234 3578


Q ss_pred             HHHHHHHHhcCCChhhHHHHHHHHh
Q 046694           68 HIGVLTACSLGGLVEKGKKFFDEMQ   92 (118)
Q Consensus        68 ~~~ll~~~~~~~~~~~a~~~~~~m~   92 (118)
                      ++.+-..|...|++++|..++++..
T Consensus       374 l~nLa~~~~~~g~~~eA~~~~~~Al  398 (429)
T 3qwp_A          374 VMKVGKLQLHQGMFPQAMKNLRLAF  398 (429)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            9999999999999999999999863

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.84  E-value=0.00011  Score=40.77  Aligned_cols=96  Identities=11%  Similarity=0.053  Sum_probs=70.5

Q ss_pred             HHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhc
Q 046694           18 ANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQAR   94 (118)
Q Consensus        18 a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~   94 (118)
                      |+..|++..   ..+...|..+-..|...|++++|...|++..+.. +.+...|..+-.++...|+.++|...|++..+.
T Consensus         4 a~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~   82 (115)
T 2kat_A            4 ITERLEAMLAQGTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESGLAA   82 (115)
T ss_dssp             HHHHHHHHHTTTCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            445555432   3477889999999999999999999999998753 235778888999999999999999999998653


Q ss_pred             CC-CccHHHHHHHHHHHHHcc
Q 046694           95 NV-KPTETHYACMVYLLIKYN  114 (118)
Q Consensus        95 g~-~~~~~t~~~li~~~~~~g  114 (118)
                      .- ..+......+...+.+.|
T Consensus        83 ~~~~~~~~~~~~l~~~l~~l~  103 (115)
T 2kat_A           83 AQSRGDQQVVKELQVFLRRLA  103 (115)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHH
T ss_pred             ccccccHHHHHHHHHHHHHhc
Confidence            22 134455555555554443

>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=97.84  E-value=6.3e-05  Score=45.88  Aligned_cols=111  Identities=7%  Similarity=-0.109  Sum_probs=77.2

Q ss_pred             HHHHHhcCCHHHHHHHhhhCCC---CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-c---c-----------HHH
Q 046694            6 LDFYTRTGRIDLANKIFDRLPV---KDSASWITLILGYGMLGELDVAINLFEAMREDGVE-Y---Y-----------PVS   67 (118)
Q Consensus         6 l~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-p---~-----------~~~   67 (118)
                      +......|+++++...|+....   .....+..+-..+...|++++|...|++..+..-. |   .           ...
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~   90 (198)
T 2fbn_A           11 SSGRENLYFQGAKKSIYDYTDEEKVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISC   90 (198)
T ss_dssp             -----------CCCSGGGCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHH
T ss_pred             hhhhhhhhhccccCchhhCCHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHH
Confidence            4445556777777777764432   25557778888899999999999999999764211 1   1           278


Q ss_pred             HHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           68 HIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        68 ~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      +..+-.++.+.|++++|...+++..+.. +.+...+..+-.+|.+.|+++
T Consensus        91 ~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~  139 (198)
T 2fbn_A           91 NLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLE  139 (198)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcccHH
Confidence            8888899999999999999999997753 346778888888888888764

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.80  E-value=0.00012  Score=51.36  Aligned_cols=85  Identities=9%  Similarity=-0.078  Sum_probs=69.0

Q ss_pred             HHHhcCCHHHHHHHhhhCC-------CC----CHhhHHHHHHHHHhcCCHHHHHHHHHHHHH-----cCC-Cc-cHHHHH
Q 046694            8 FYTRTGRIDLANKIFDRLP-------VK----DSASWITLILGYGMLGELDVAINLFEAMRE-----DGV-EY-YPVSHI   69 (118)
Q Consensus         8 ~~~~~~~~~~a~~~~~~m~-------~~----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-----~~~-~p-~~~~~~   69 (118)
                      .+-..|++++|+.++++..       -+    -..+++.+...|...|++++|..++++..+     .|- .| ...+++
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            3557899999999887653       11    456899999999999999999999999853     222 24 457899


Q ss_pred             HHHHHHhcCCChhhHHHHHHHHh
Q 046694           70 GVLTACSLGGLVEKGKKFFDEMQ   92 (118)
Q Consensus        70 ~ll~~~~~~~~~~~a~~~~~~m~   92 (118)
                      .+-..|...|++++|..++++..
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al  420 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAY  420 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHH
Confidence            99999999999999999999873

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=97.80  E-value=0.00026  Score=43.67  Aligned_cols=69  Identities=13%  Similarity=0.015  Sum_probs=55.3

Q ss_pred             HHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc-cHHHHHHHHHHH
Q 046694            5 RLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEY-YPVSHIGVLTAC   75 (118)
Q Consensus         5 ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~   75 (118)
                      +-.+|.+.|++++|+..|++..   ..+...|..+-..+...|++++|...|++..+.  .| +...+..+-..+
T Consensus        60 lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~  132 (208)
T 3urz_A           60 LALAYKKNRNYDKAYLFYKELLQKAPNNVDCLEACAEMQVCRGQEKDALRMYEKILQL--EADNLAANIFLGNYY  132 (208)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHH
Confidence            6778899999999999998765   447889999999999999999999999999775  34 445555444443

>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=97.80  E-value=4.7e-05  Score=49.80  Aligned_cols=115  Identities=8%  Similarity=-0.011  Sum_probs=84.7

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC-------CC--CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCc-cHHH
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP-------VK--DSASWITLILGYGMLGELDVAINLFEAMRED----GVEY-YPVS   67 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~-------~~--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~p-~~~~   67 (118)
                      |+.....|...|++++|...|++..       .+  -..+|+.+-..|.+.|++++|...|++..+.    |-.. -..+
T Consensus        39 ~~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~  118 (307)
T 2ifu_A           39 YAKAAVAFKNAKQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMA  118 (307)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            3445667888899999988887653       11  2458888999999999999999999987542    2111 2467


Q ss_pred             HHHHHHHHhcCCChhhHHHHHHHHhhc----CCCc-cHHHHHHHHHHHHHccccc
Q 046694           68 HIGVLTACSLGGLVEKGKKFFDEMQAR----NVKP-TETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        68 ~~~ll~~~~~~~~~~~a~~~~~~m~~~----g~~~-~~~t~~~li~~~~~~g~~~  117 (118)
                      ++.+-..|.+ |++++|...|++..+.    |-.+ ...+++.+-.+|.+.|+.+
T Consensus       119 ~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~  172 (307)
T 2ifu_A          119 LDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFD  172 (307)
T ss_dssp             HHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHH
Confidence            8888888888 9999999999987542    2111 2567888888888888765

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=97.79  E-value=0.00012  Score=47.34  Aligned_cols=90  Identities=7%  Similarity=-0.013  Sum_probs=71.9

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC-----CC-----CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCc-cHH
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP-----VK-----DSASWITLILGYGMLGELDVAINLFEAMRED----GVEY-YPV   66 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~-----~~-----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~p-~~~   66 (118)
                      |+.+-..|...|++++|...|++..     .+     ...+|..+-..|.+.|++++|+..+++..+.    +..+ -..
T Consensus       158 ~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~~  237 (293)
T 2qfc_A          158 ENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQ  237 (293)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHHH
Confidence            5667788999999999999998754     22     2268899999999999999999999998542    2121 267


Q ss_pred             HHHHHHHHHhcCCChhhH-HHHHHHH
Q 046694           67 SHIGVLTACSLGGLVEKG-KKFFDEM   91 (118)
Q Consensus        67 ~~~~ll~~~~~~~~~~~a-~~~~~~m   91 (118)
                      +|..+-..+.+.|+.++| ...+++.
T Consensus       238 ~~~~lg~~y~~~g~~~~Ai~~~~~~A  263 (293)
T 2qfc_A          238 LYYQRGECLRKLEYEEAEIEDAYKKA  263 (293)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCcHHHHHHHHHHH
Confidence            888899999999999999 7767765

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=97.78  E-value=0.00012  Score=47.08  Aligned_cols=111  Identities=12%  Similarity=0.000  Sum_probs=84.3

Q ss_pred             HHHHHHhcCCHHHHHHHhhhCC--CC-C----HhhHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCc-cHHHHHHHH
Q 046694            5 RLDFYTRTGRIDLANKIFDRLP--VK-D----SASWITLILGYGMLGELDVAINLFEAMRED----GVEY-YPVSHIGVL   72 (118)
Q Consensus         5 ll~~~~~~~~~~~a~~~~~~m~--~~-~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~p-~~~~~~~ll   72 (118)
                      .-..+.+.|++++|..+|++..  .| +    ...|..+...+...|++++|.+.+++..+.    +-.| ....+..+-
T Consensus        11 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~   90 (338)
T 3ro2_A           11 EGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLG   90 (338)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHhccHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHHHH
Confidence            3456788999999999999774  23 3    467888999999999999999999987532    2222 356788888


Q ss_pred             HHHhcCCChhhHHHHHHHHhhc----CCCc-cHHHHHHHHHHHHHccc
Q 046694           73 TACSLGGLVEKGKKFFDEMQAR----NVKP-TETHYACMVYLLIKYNQ  115 (118)
Q Consensus        73 ~~~~~~~~~~~a~~~~~~m~~~----g~~~-~~~t~~~li~~~~~~g~  115 (118)
                      ..+...|++++|...+++..+.    +-.+ ...++..+-..|...|+
T Consensus        91 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~  138 (338)
T 3ro2_A           91 NTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGK  138 (338)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCc
Confidence            9999999999999999987442    1111 14477778888877776

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.78  E-value=0.00012  Score=39.90  Aligned_cols=85  Identities=14%  Similarity=0.036  Sum_probs=63.8

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcc-------HHHHHHH
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYY-------PVSHIGV   71 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-------~~~~~~l   71 (118)
                      |..+-..+.+.|++++|+..|++..   ..+...|..+-..+...|++++|.+.|++..+.  .|+       ...+..+
T Consensus         7 ~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~   84 (111)
T 2l6j_A            7 QKEQGNSLFKQGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRY--TSTAEHVAIRSKLQYRL   84 (111)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS--CSSTTSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCccHHHHHHHHHHHH
Confidence            4456678889999999999998764   447888999999999999999999999998865  344       4445555


Q ss_pred             HHHHhcCCChhhHHHHH
Q 046694           72 LTACSLGGLVEKGKKFF   88 (118)
Q Consensus        72 l~~~~~~~~~~~a~~~~   88 (118)
                      -.++...|+.+.+...+
T Consensus        85 ~~~~~~~~~~~~a~~~~  101 (111)
T 2l6j_A           85 ELAQGAVGSVQIPVVEV  101 (111)
T ss_dssp             HHHHHHHHCCCCCSSSS
T ss_pred             HHHHHHHHhHhhhHhHH
Confidence            55555556555554433

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=97.78  E-value=0.00058  Score=38.60  Aligned_cols=85  Identities=9%  Similarity=-0.105  Sum_probs=69.2

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHH
Q 046694           31 ASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLL  110 (118)
Q Consensus        31 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~  110 (118)
                      ..+-.+-..+.+.|++++|...|++..+.. +-+...+..+-.++.+.|++++|...|++..+... -+...+..+-.+|
T Consensus        18 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P-~~~~~~~~la~~~   95 (121)
T 1hxi_A           18 ENPMEEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDP-KDIAVHAALAVSH   95 (121)
T ss_dssp             SCHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHH
Confidence            345566678889999999999999998752 23678888889999999999999999999977542 2577888888899


Q ss_pred             HHccccc
Q 046694          111 IKYNQKA  117 (118)
Q Consensus       111 ~~~g~~~  117 (118)
                      .+.|+.+
T Consensus        96 ~~~g~~~  102 (121)
T 1hxi_A           96 TNEHNAN  102 (121)
T ss_dssp             HHHHHHH
T ss_pred             HHcCCHH
Confidence            8888765

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.76  E-value=6.6e-05  Score=52.73  Aligned_cols=93  Identities=8%  Similarity=0.001  Sum_probs=74.2

Q ss_pred             CchHHHHHHHhcCCHHHHHHHhhhCC-------C---C-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHH-----cCCC-c
Q 046694            1 MIEPRLDFYTRTGRIDLANKIFDRLP-------V---K-DSASWITLILGYGMLGELDVAINLFEAMRE-----DGVE-Y   63 (118)
Q Consensus         1 t~~~ll~~~~~~~~~~~a~~~~~~m~-------~---~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-----~~~~-p   63 (118)
                      |++.|..+|...|++++|+.++++..       -   | -..+++.|-..|...|++++|..++++..+     .|-. |
T Consensus       353 ~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp  432 (490)
T 3n71_A          353 LLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMRAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHP  432 (490)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCCh
Confidence            46788999999999999999998764       1   2 456899999999999999999999998853     2322 4


Q ss_pred             c-HHHHHHHHHHHhcCCChhhHHHHHHHHhh
Q 046694           64 Y-PVSHIGVLTACSLGGLVEKGKKFFDEMQA   93 (118)
Q Consensus        64 ~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~   93 (118)
                      + ..+.+.+-.++...+.++.|+.+|.++.+
T Consensus       433 ~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~  463 (490)
T 3n71_A          433 ITKDLEAMRMQTEMELRMFRQNEFMYHKMRE  463 (490)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3 44556666777788999999999999855

>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=97.76  E-value=0.00049  Score=53.94  Aligned_cols=56  Identities=11%  Similarity=0.207  Sum_probs=43.5

Q ss_pred             CchHHHHHHHhcCCHHHHHHHhhhCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 046694            1 MIEPRLDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMRE   58 (118)
Q Consensus         1 t~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   58 (118)
                      +|..+-.++.+.|++++|+..|.+  ..|...|..++..+.+.|++++|.+.+..-++
T Consensus      1107 vWsqLAKAql~~G~~kEAIdsYiK--AdD~say~eVa~~~~~lGkyEEAIeyL~mArk 1162 (1630)
T 1xi4_A         1107 VWSQLAKAQLQKGMVKEAIDSYIK--ADDPSSYMEVVQAANTSGNWEELVKYLQMARK 1162 (1630)
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHh--cCChHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            366677778888888888888865  36777788888888888888888888866543

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=97.73  E-value=0.00055  Score=38.34  Aligned_cols=82  Identities=10%  Similarity=-0.071  Sum_probs=62.8

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCccH---HHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCcc--HHHHHHHHHH
Q 046694           35 TLILGYGMLGELDVAINLFEAMREDGVEYYP---VSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPT--ETHYACMVYL  109 (118)
Q Consensus        35 ~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~---~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~--~~t~~~li~~  109 (118)
                      .+-..+...|++++|.+.|++..+..-. +.   ..+..+-..+.+.|++++|...|++..+......  ...+..+-.+
T Consensus         7 ~~a~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la~~   85 (129)
T 2xev_A            7 NVAFDALKNGKYDDASQLFLSFLELYPN-GVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGLS   85 (129)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCSS-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHCCC-CcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHHHH
Confidence            4456677899999999999999875311 22   4777788889999999999999999977542211  5667788888


Q ss_pred             HHHccccc
Q 046694          110 LIKYNQKA  117 (118)
Q Consensus       110 ~~~~g~~~  117 (118)
                      +.+.|+.+
T Consensus        86 ~~~~g~~~   93 (129)
T 2xev_A           86 QYGEGKNT   93 (129)
T ss_dssp             HHHTTCHH
T ss_pred             HHHcCCHH
Confidence            88888764

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=97.70  E-value=0.00015  Score=50.24  Aligned_cols=82  Identities=7%  Similarity=-0.147  Sum_probs=66.5

Q ss_pred             cCCHHHHHHHhhhCC-------CC----CHhhHHHHHHHHHhcCCHHHHHHHHHHHHH-----cCC-Ccc-HHHHHHHHH
Q 046694           12 TGRIDLANKIFDRLP-------VK----DSASWITLILGYGMLGELDVAINLFEAMRE-----DGV-EYY-PVSHIGVLT   73 (118)
Q Consensus        12 ~~~~~~a~~~~~~m~-------~~----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-----~~~-~p~-~~~~~~ll~   73 (118)
                      .|++++|+.++++..       -|    -..+++.+...|...|++++|..++++..+     .|- .|+ ..+++.+-.
T Consensus       311 ~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~  390 (433)
T 3qww_A          311 YKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGR  390 (433)
T ss_dssp             TSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHH
Confidence            478899998887653       12    346899999999999999999999999853     232 343 578999999


Q ss_pred             HHhcCCChhhHHHHHHHHhh
Q 046694           74 ACSLGGLVEKGKKFFDEMQA   93 (118)
Q Consensus        74 ~~~~~~~~~~a~~~~~~m~~   93 (118)
                      .|...|++++|..++++..+
T Consensus       391 ~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          391 LYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhccCHHHHHHHHHHHHH
Confidence            99999999999999998733

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=97.70  E-value=0.00047  Score=39.57  Aligned_cols=92  Identities=14%  Similarity=0.101  Sum_probs=71.7

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCCC-----C----CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCc-cHHH
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLPV-----K----DSASWITLILGYGMLGELDVAINLFEAMRED----GVEY-YPVS   67 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~~-----~----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~p-~~~~   67 (118)
                      +..+-..|...|++++|...|++...     +    ....+..+-..+...|++++|.+.+++..+.    +-++ ....
T Consensus        52 ~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~  131 (164)
T 3ro3_A           52 YSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRA  131 (164)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHH
Confidence            44567788899999999999987541     1    2457788888999999999999999998542    2222 2466


Q ss_pred             HHHHHHHHhcCCChhhHHHHHHHHhh
Q 046694           68 HIGVLTACSLGGLVEKGKKFFDEMQA   93 (118)
Q Consensus        68 ~~~ll~~~~~~~~~~~a~~~~~~m~~   93 (118)
                      +..+-..+...|++++|.+.+++..+
T Consensus       132 ~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A          132 CWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            77888889999999999999998744

>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=97.69  E-value=0.00048  Score=39.22  Aligned_cols=85  Identities=7%  Similarity=-0.145  Sum_probs=63.2

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCC--Ccc----HHHHH
Q 046694           31 ASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNV--KPT----ETHYA  104 (118)
Q Consensus        31 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~--~~~----~~t~~  104 (118)
                      ..+..+-..+.+.|++++|+..|++..+.. +-+...|+.+-.+|.+.|++++|.+.+++..+...  .++    ..+|.
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            456778888999999999999999988752 23678899999999999999999999999865321  111    12455


Q ss_pred             HHHHHHHHcccc
Q 046694          105 CMVYLLIKYNQK  116 (118)
Q Consensus       105 ~li~~~~~~g~~  116 (118)
                      .+-.++.+.|++
T Consensus        88 ~lg~~~~~~~~~   99 (127)
T 4gcn_A           88 RAGNAFQKQNDL   99 (127)
T ss_dssp             HHHHHHHHTTCH
T ss_pred             HHHHHHHHcCCH
Confidence            555555555554

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=97.69  E-value=0.00068  Score=44.96  Aligned_cols=114  Identities=8%  Similarity=-0.169  Sum_probs=68.2

Q ss_pred             HHHHHHHhcCCHHHHHHHhhhCCC-----CC----HhhHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCC--c-cHHH
Q 046694            4 PRLDFYTRTGRIDLANKIFDRLPV-----KD----SASWITLILGYGMLGELDVAINLFEAMRED----GVE--Y-YPVS   67 (118)
Q Consensus         4 ~ll~~~~~~~~~~~a~~~~~~m~~-----~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~--p-~~~~   67 (118)
                      .+-..+...|++++|...+++...     .+    ..++..+-..+...|++++|...+++..+.    +-.  | ....
T Consensus        58 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  137 (373)
T 1hz4_A           58 VLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFL  137 (373)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHH
T ss_pred             HHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHH
Confidence            344556677888888777765531     11    123455666677778888888887777432    221  2 2345


Q ss_pred             HHHHHHHHhcCCChhhHHHHHHHHhhcCCC----ccHHHHHHHHHHHHHccccc
Q 046694           68 HIGVLTACSLGGLVEKGKKFFDEMQARNVK----PTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        68 ~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~----~~~~t~~~li~~~~~~g~~~  117 (118)
                      +..+-..+...|++++|...+++..+..-.    ....++..+-..+...|+.+
T Consensus       138 ~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~~  191 (373)
T 1hz4_A          138 VRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLD  191 (373)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHHHHHHHHcCCHH
Confidence            555666777778888888888776442211    12345666666666666653

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=97.67  E-value=0.00045  Score=42.99  Aligned_cols=52  Identities=15%  Similarity=0.102  Sum_probs=26.3

Q ss_pred             HHHHhcCCHHHHHHHhhhCC--CCC----HhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 046694            7 DFYTRTGRIDLANKIFDRLP--VKD----SASWITLILGYGMLGELDVAINLFEAMRE   58 (118)
Q Consensus         7 ~~~~~~~~~~~a~~~~~~m~--~~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~   58 (118)
                      ..+.+.|++++|+..|+++.  .|+    ...+..+..+|.+.|++++|...|++..+
T Consensus        12 ~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~   69 (225)
T 2yhc_A           12 QQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIR   69 (225)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            34555555555555555543  121    23444455555555555555555555543

>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=97.66  E-value=0.0011  Score=40.93  Aligned_cols=105  Identities=11%  Similarity=0.009  Sum_probs=61.2

Q ss_pred             HHHHHHHhcCCHHHHHHHhhhCCC-CCHhhHHHHHHHHHhcC----CHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhc-
Q 046694            4 PRLDFYTRTGRIDLANKIFDRLPV-KDSASWITLILGYGMLG----ELDVAINLFEAMREDGVEYYPVSHIGVLTACSL-   77 (118)
Q Consensus         4 ~ll~~~~~~~~~~~a~~~~~~m~~-~~~~~~~~li~~~~~~~----~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~-   77 (118)
                      .|-..|...+++++|...|++... .+...+..+-..|.. +    ++++|.+.|++..+.|   +...+..+-..|.. 
T Consensus        23 ~lg~~~~~~~~~~~A~~~~~~a~~~g~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~~~g---~~~a~~~Lg~~y~~g   98 (212)
T 3rjv_A           23 YLADTWVSSGDYQKAEYWAQKAAAQGDGDALALLAQLKIR-NPQQADYPQARQLAEKAVEAG---SKSGEIVLARVLVNR   98 (212)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHTTCHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHTCG
T ss_pred             HHHHHHhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcC
Confidence            344556666777777777766542 355555555555655 5    6777777777765544   34445555555554 


Q ss_pred             ---CCChhhHHHHHHHHhhcCCC-ccHHHHHHHHHHHHH
Q 046694           78 ---GGLVEKGKKFFDEMQARNVK-PTETHYACMVYLLIK  112 (118)
Q Consensus        78 ---~~~~~~a~~~~~~m~~~g~~-~~~~t~~~li~~~~~  112 (118)
                         .+++++|.++|++..+.|.. .+...+..|-.+|..
T Consensus        99 ~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~  137 (212)
T 3rjv_A           99 QAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYAS  137 (212)
T ss_dssp             GGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHH
T ss_pred             CCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHc
Confidence               66777777777776665532 124445555555544

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.65  E-value=0.00074  Score=35.33  Aligned_cols=74  Identities=18%  Similarity=0.183  Sum_probs=56.0

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHh
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACS   76 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~   76 (118)
                      |..+-..+.+.|++++|+..|++..   ..+...|..+-..+.+.|++++|...|++..+.. +-+...+..+-..+.
T Consensus        12 ~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~~   88 (91)
T 1na3_A           12 WYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAKQNLGNAKQ   88 (91)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHH
Confidence            3456677889999999999998764   3477788999999999999999999999987652 224455554444443

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.64  E-value=0.00021  Score=47.58  Aligned_cols=91  Identities=13%  Similarity=0.084  Sum_probs=74.0

Q ss_pred             hHHHHHHHhcCCHHHHHHHhhhCC--CCCH------------------hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC
Q 046694            3 EPRLDFYTRTGRIDLANKIFDRLP--VKDS------------------ASWITLILGYGMLGELDVAINLFEAMREDGVE   62 (118)
Q Consensus         3 ~~ll~~~~~~~~~~~a~~~~~~m~--~~~~------------------~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~   62 (118)
                      ..+-..+.+.|++++|...|++..  .|+.                  ..|..+-..|.+.|++++|+..+++..+.. +
T Consensus       183 ~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~l~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p  261 (338)
T 2if4_A          183 KMDGNSLFKEEKLEEAMQQYEMAIAYMGDDFMFQLYGKYQDMALAVKNPCHLNIAACLIKLKRYDEAIGHCNIVLTEE-E  261 (338)
T ss_dssp             HHHHHHTCSSSCCHHHHHHHHHHHHHSCHHHHHTCCHHHHHHHHHHHTHHHHHHHHHHHTTTCCHHHHHHHHHHHHHC-T
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHHhccchhhhhcccHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-C
Confidence            344566778899999999998754  3332                  278888999999999999999999998753 2


Q ss_pred             ccHHHHHHHHHHHhcCCChhhHHHHHHHHhhc
Q 046694           63 YYPVSHIGVLTACSLGGLVEKGKKFFDEMQAR   94 (118)
Q Consensus        63 p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~   94 (118)
                      -+...|..+-.++...|++++|...|++..+.
T Consensus       262 ~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l  293 (338)
T 2if4_A          262 KNPKALFRRGKAKAELGQMDSARDDFRKAQKY  293 (338)
T ss_dssp             TCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC-
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            36788999999999999999999999998653

>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=97.64  E-value=0.0006  Score=53.50  Aligned_cols=97  Identities=22%  Similarity=0.258  Sum_probs=74.0

Q ss_pred             hcCCHHHHHHHhhhCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHH
Q 046694           11 RTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDE   90 (118)
Q Consensus        11 ~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~   90 (118)
                      ..+++++|.++.++.  .+..+|..+-.++...|++++|.+.|.+-      -|...|..+...|.+.|++++|.+++..
T Consensus      1088 ~i~nldrAiE~Aerv--n~p~vWsqLAKAql~~G~~kEAIdsYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~m 1159 (1630)
T 1xi4_A         1088 HIGNLDRAYEFAERC--NEPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQM 1159 (1630)
T ss_pred             HHhhHHHHHHHHHhc--CCHHHHHHHHHHHHhCCCHHHHHHHHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            455556666665544  35678889999999999999999999663      3788899999999999999999999998


Q ss_pred             HhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           91 MQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        91 m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      -.+..  ++....+.+..+|++.++++
T Consensus      1160 Ark~~--~e~~Idt~LafaYAKl~rle 1184 (1630)
T 1xi4_A         1160 ARKKA--RESYVETELIFALAKTNRLA 1184 (1630)
T ss_pred             HHhhc--ccccccHHHHHHHHhhcCHH
Confidence            76644  33333345888888877654

>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=97.64  E-value=0.0017  Score=38.72  Aligned_cols=65  Identities=11%  Similarity=-0.016  Sum_probs=53.0

Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc-cHHHHHHHHHHHhcCCChhhHHHHHHHHhh
Q 046694           29 DSASWITLILGYGMLGELDVAINLFEAMREDGVEY-YPVSHIGVLTACSLGGLVEKGKKFFDEMQA   93 (118)
Q Consensus        29 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~   93 (118)
                      +...+..+-..+...|++++|...|++..+..-.+ +...+..+...+...|+.++|...|++...
T Consensus       107 ~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~~y~~al~  172 (176)
T 2r5s_A          107 NFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIASKYRRQLY  172 (176)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHHHHHHHHH
Confidence            45667777788889999999999999998764332 356888999999999999999999987643

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=97.61  E-value=0.0018  Score=40.22  Aligned_cols=62  Identities=11%  Similarity=-0.056  Sum_probs=37.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-c-cHHHHHHHHHHHhcCCChhhHHHHHHHHhhc
Q 046694           33 WITLILGYGMLGELDVAINLFEAMREDGVE-Y-YPVSHIGVLTACSLGGLVEKGKKFFDEMQAR   94 (118)
Q Consensus        33 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-p-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~   94 (118)
                      +-.+...+.+.|++++|...|+++.+..-. | ....+..+..++.+.|++++|...|+++.+.
T Consensus         7 ~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~   70 (225)
T 2yhc_A            7 IYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRL   70 (225)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Confidence            334445566667777777777776653211 1 1345555666667777777777777776553

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=97.50  E-value=0.00091  Score=37.22  Aligned_cols=75  Identities=9%  Similarity=-0.006  Sum_probs=58.0

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc-CCCccHHHHHHHHHHHh
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMRED-GVEYYPVSHIGVLTACS   76 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~p~~~~~~~ll~~~~   76 (118)
                      |..+..+|.+.|++++|+..|++..   ..+...+..+-..+...|++++|...|++..+. .-.|+...|...+..+.
T Consensus        30 ~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~ai~~~~  108 (117)
T 3k9i_A           30 YLGLGSTFRTLGEYRKAEAVLANGVKQFPNHQALRVFYAMVLYNLGRYEQGVELLLKIIAETSDDETIQSYKQAILFYA  108 (117)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCCCHHHHHTHHHHHHHT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHH
Confidence            4567778999999999999999775   347788999999999999999999999998764 22344445555555544

>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=97.49  E-value=0.0027  Score=41.01  Aligned_cols=87  Identities=3%  Similarity=-0.208  Sum_probs=72.2

Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHH
Q 046694           29 DSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVY  108 (118)
Q Consensus        29 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~  108 (118)
                      +...+..+-..+.+.|++++|...|++..+.. +-+...|..+-.++.+.|++++|.+.+++..+.. +.+...+..+-.
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~   80 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQ   80 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            45567778888999999999999999998752 2278889999999999999999999999997753 335778888888


Q ss_pred             HHHHccccc
Q 046694          109 LLIKYNQKA  117 (118)
Q Consensus       109 ~~~~~g~~~  117 (118)
                      +|.+.|+++
T Consensus        81 ~~~~~g~~~   89 (281)
T 2c2l_A           81 CQLEMESYD   89 (281)
T ss_dssp             HHHHTTCHH
T ss_pred             HHHHcCCHH
Confidence            998888765

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.48  E-value=0.00044  Score=37.66  Aligned_cols=58  Identities=17%  Similarity=0.060  Sum_probs=49.6

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMRED   59 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~   59 (118)
                      |..+-.+|.+.|++++|+..|++..   ..+...|..+-..|...|++++|.+.|++..+.
T Consensus        10 ~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l   70 (100)
T 3ma5_A           10 RYALAQEHLKHDNASRALALFEELVETDPDYVGTYYHLGKLYERLDRTDDAIDTYAQGIEV   70 (100)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            4556778899999999999999775   346778999999999999999999999998643

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=97.37  E-value=0.0087  Score=41.37  Aligned_cols=47  Identities=11%  Similarity=-0.009  Sum_probs=19.3

Q ss_pred             cCCHHHHHHHhhhCC-CCCHhhHHHHHHHHHh----cCCHHHHHHHHHHHHH
Q 046694           12 TGRIDLANKIFDRLP-VKDSASWITLILGYGM----LGELDVAINLFEAMRE   58 (118)
Q Consensus        12 ~~~~~~a~~~~~~m~-~~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~   58 (118)
                      .++.++|...|++.. ..+...+..+-..|..    .+++++|.+.|++..+
T Consensus        92 ~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~  143 (490)
T 2xm6_A           92 PQDYAQAVIWYKKAALKGLPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAE  143 (490)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHH
Confidence            344444444444332 1133333333333433    3444444444444443

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=97.37  E-value=0.0023  Score=42.41  Aligned_cols=114  Identities=11%  Similarity=-0.009  Sum_probs=76.9

Q ss_pred             HHHHHHHhcCCHHHHHHHhhhCC----C---C-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcc-HHHHH-----
Q 046694            4 PRLDFYTRTGRIDLANKIFDRLP----V---K-DSASWITLILGYGMLGELDVAINLFEAMREDGVEYY-PVSHI-----   69 (118)
Q Consensus         4 ~ll~~~~~~~~~~~a~~~~~~m~----~---~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~-----   69 (118)
                      .+-..+...|++++|...+++..    .   + ....|..+-..+...|++++|...+++.....-.++ ...+.     
T Consensus       140 ~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~  219 (373)
T 1hz4_A          140 IRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANK  219 (373)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHH
Confidence            45567788999999999998653    1   1 235677788888999999999999999865311111 11111     


Q ss_pred             HHHHHHhcCCChhhHHHHHHHHhhcCCCc---cHHHHHHHHHHHHHccccc
Q 046694           70 GVLTACSLGGLVEKGKKFFDEMQARNVKP---TETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        70 ~ll~~~~~~~~~~~a~~~~~~m~~~g~~~---~~~t~~~li~~~~~~g~~~  117 (118)
                      .....+...|+++.|...+++..+....+   ....+..+...+...|+.+
T Consensus       220 ~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~  270 (373)
T 1hz4_A          220 VRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFE  270 (373)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHHHHHHHHHcCCHH
Confidence            23344778999999999999886543221   1234566777777777654

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=97.33  E-value=0.0021  Score=37.72  Aligned_cols=87  Identities=8%  Similarity=-0.120  Sum_probs=69.7

Q ss_pred             HhhHHHHHHHHHhcCCHHHHHHHHHHHHHc--------C---------CCccHHHHHHHHHHHhcCCChhhHHHHHHHHh
Q 046694           30 SASWITLILGYGMLGELDVAINLFEAMRED--------G---------VEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQ   92 (118)
Q Consensus        30 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~--------~---------~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~   92 (118)
                      ...+...-..+.+.|++++|+..|.+..+.        .         -+-+...|..+-.++.+.|++++|...+++..
T Consensus        11 a~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al   90 (162)
T 3rkv_A           11 VEALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVL   90 (162)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            345667778888999999999999998654        0         11234678889999999999999999999997


Q ss_pred             hcCCCccHHHHHHHHHHHHHccccc
Q 046694           93 ARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        93 ~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      +.. +.+...|..+-.+|...|+++
T Consensus        91 ~~~-p~~~~a~~~~g~~~~~~g~~~  114 (162)
T 3rkv_A           91 KRE-ETNEKALFRRAKARIAAWKLD  114 (162)
T ss_dssp             HHS-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             hcC-CcchHHHHHHHHHHHHHhcHH
Confidence            753 335788888999999988865

>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=97.32  E-value=0.00053  Score=47.81  Aligned_cols=86  Identities=14%  Similarity=-0.035  Sum_probs=65.1

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc-cHHHHHHHHHH--H
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEY-YPVSHIGVLTA--C   75 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~--~   75 (118)
                      |..+-.+|.+.|++++|+..|++..   ..+...|..+-..|...|++++|.+.|++..+..  | +...+..+-.+  +
T Consensus        43 ~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~--p~~~~~~~~l~~~~~~  120 (477)
T 1wao_1           43 YGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKFRAALRDYETVVKVK--PHDKDAKMKYQECNKI  120 (477)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS--TTCTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHH
Confidence            5567788999999999999998664   4478899999999999999999999999997652  3 33344444444  7


Q ss_pred             hcCCChhhHHHHHH
Q 046694           76 SLGGLVEKGKKFFD   89 (118)
Q Consensus        76 ~~~~~~~~a~~~~~   89 (118)
                      .+.|++++|.++++
T Consensus       121 ~~~g~~~~A~~~~~  134 (477)
T 1wao_1          121 VKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHCCC-----
T ss_pred             HHHHHHHHHhcccc
Confidence            88899999999988

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.26  E-value=0.0011  Score=35.50  Aligned_cols=53  Identities=17%  Similarity=0.217  Sum_probs=31.7

Q ss_pred             HHHHhcCCHHHHHHHhhhCC---CCCHh-hHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 046694            7 DFYTRTGRIDLANKIFDRLP---VKDSA-SWITLILGYGMLGELDVAINLFEAMRED   59 (118)
Q Consensus         7 ~~~~~~~~~~~a~~~~~~m~---~~~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~   59 (118)
                      ..+.+.|++++|+..|++..   ..+.. .|..+-..|...|++++|.+.|++..+.
T Consensus         8 ~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~   64 (99)
T 2kc7_A            8 KELINQGDIENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIEL   64 (99)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            44556666666666666543   22444 5666666666666666666666666543

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=97.26  E-value=0.014  Score=40.33  Aligned_cols=81  Identities=10%  Similarity=-0.052  Sum_probs=42.8

Q ss_pred             cCCHHHHHHHhhhCC-CCCHhhHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhc----CCChh
Q 046694           12 TGRIDLANKIFDRLP-VKDSASWITLILGYGM----LGELDVAINLFEAMREDGVEYYPVSHIGVLTACSL----GGLVE   82 (118)
Q Consensus        12 ~~~~~~a~~~~~~m~-~~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~----~~~~~   82 (118)
                      .+++++|...|++.. ..+...+..+-..|..    .+++++|.+.|++..+.|   +...+..+-..|.+    .++.+
T Consensus       128 ~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~  204 (490)
T 2xm6_A          128 KVDKAESVKWFRLAAEQGRDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWSCNQLGYMYSRGLGVERNDA  204 (490)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHH
T ss_pred             CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCCCcCHH
Confidence            456666666665543 2244445555555544    456666666666655543   34444444444444    55566


Q ss_pred             hHHHHHHHHhhcC
Q 046694           83 KGKKFFDEMQARN   95 (118)
Q Consensus        83 ~a~~~~~~m~~~g   95 (118)
                      +|.++|++..+.|
T Consensus       205 ~A~~~~~~a~~~~  217 (490)
T 2xm6_A          205 ISAQWYRKSATSG  217 (490)
T ss_dssp             HHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHCC
Confidence            6666665554443

>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=97.26  E-value=0.0092  Score=36.77  Aligned_cols=106  Identities=10%  Similarity=-0.028  Sum_probs=74.4

Q ss_pred             HHHHHHhcC----CHHHHHHHhhhCCC-CCHhhHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCC-ccHHHHHHHHHH
Q 046694            5 RLDFYTRTG----RIDLANKIFDRLPV-KDSASWITLILGYGM----LGELDVAINLFEAMREDGVE-YYPVSHIGVLTA   74 (118)
Q Consensus         5 ll~~~~~~~----~~~~a~~~~~~m~~-~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~-p~~~~~~~ll~~   74 (118)
                      |-..|.. +    ++++|...|++... .+...+..+-..|..    .+++++|.+.|++..+.|.. -+...+..+-..
T Consensus        56 lg~~y~~-~g~~~~~~~A~~~~~~A~~~g~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~  134 (212)
T 3rjv_A           56 LAQLKIR-NPQQADYPQARQLAEKAVEAGSKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLI  134 (212)
T ss_dssp             HHHHTTS-STTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHH
T ss_pred             HHHHHHc-CCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHH
Confidence            3344444 5    89999999987753 366777777777776    78999999999988766532 125666677777


Q ss_pred             Hhc----CCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHc
Q 046694           75 CSL----GGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKY  113 (118)
Q Consensus        75 ~~~----~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~  113 (118)
                      |..    .++.++|.++|++..+.  ..+...+..|-.+|.+.
T Consensus       135 y~~g~g~~~d~~~A~~~~~~A~~~--~~~~~a~~~Lg~~y~~g  175 (212)
T 3rjv_A          135 YASGVHGPEDDVKASEYFKGSSSL--SRTGYAEYWAGMMFQQG  175 (212)
T ss_dssp             HHHTSSSSCCHHHHHHHHHHHHHT--SCTTHHHHHHHHHHHHC
T ss_pred             HHcCCCCCCCHHHHHHHHHHHHHc--CCCHHHHHHHHHHHHcC
Confidence            776    77899999999998776  22344566666666543

>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=97.15  E-value=0.00095  Score=40.06  Aligned_cols=100  Identities=15%  Similarity=0.030  Sum_probs=76.3

Q ss_pred             HhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCC----------HHHHHHHHHHHHHcCCCc-cHHHHHHHHHHH
Q 046694           10 TRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGE----------LDVAINLFEAMREDGVEY-YPVSHIGVLTAC   75 (118)
Q Consensus        10 ~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~----------~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~   75 (118)
                      .+.+.+++|.+.+++..   ..+...|+.+-.++...++          +++|+..|++..+-  .| +...|..+-.+|
T Consensus        13 ~r~~~feeA~~~~~~Ai~l~P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~l--dP~~~~A~~~LG~ay   90 (158)
T 1zu2_A           13 DRILLFEQIRQDAENTYKSNPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLI--DPKKDEAVWCIGNAY   90 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHh--CcCcHHHHHHHHHHH
Confidence            45567888888888654   4477888878778887765          45999999998765  45 567888888888


Q ss_pred             hcCC-----------ChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHc
Q 046694           76 SLGG-----------LVEKGKKFFDEMQARNVKPTETHYACMVYLLIKY  113 (118)
Q Consensus        76 ~~~~-----------~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~  113 (118)
                      ...|           ++++|.+.|++..+  +.|+...|..-+...-+.
T Consensus        91 ~~lg~l~P~~~~a~g~~~eA~~~~~kAl~--l~P~~~~y~~al~~~~ka  137 (158)
T 1zu2_A           91 TSFAFLTPDETEAKHNFDLATQFFQQAVD--EQPDNTHYLKSLEMTAKA  137 (158)
T ss_dssp             HHHHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHTH
T ss_pred             HHhcccCcchhhhhccHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHhC
Confidence            8764           89999999999987  577777777766665443

>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=97.13  E-value=0.0021  Score=44.52  Aligned_cols=88  Identities=10%  Similarity=0.034  Sum_probs=70.4

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc-cHHHHHHHHHHHhc
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEY-YPVSHIGVLTACSL   77 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~   77 (118)
                      |..+-.+|.+.|++++|+..|++..   ..+...|..+-.+|...|++++|...|++..+.  .| +...+..+-..+.+
T Consensus       320 ~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l--~P~~~~a~~~l~~~~~~  397 (457)
T 1kt0_A          320 FLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEV--NPQNKAARLQISMCQKK  397 (457)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--C----CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHH
Confidence            4566778899999999999998765   457889999999999999999999999998765  44 56778888888888


Q ss_pred             CCChhhHH-HHHHHH
Q 046694           78 GGLVEKGK-KFFDEM   91 (118)
Q Consensus        78 ~~~~~~a~-~~~~~m   91 (118)
                      .++.+++. .++..|
T Consensus       398 ~~~~~~a~~~~~~~~  412 (457)
T 1kt0_A          398 AKEHNERDRRIYANM  412 (457)
T ss_dssp             HHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHH
Confidence            88888766 445555

>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=97.12  E-value=0.0039  Score=45.53  Aligned_cols=110  Identities=9%  Similarity=-0.055  Sum_probs=67.2

Q ss_pred             HHHHHHhcCCHHHHHHHhhhCCC-------------C------------CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 046694            5 RLDFYTRTGRIDLANKIFDRLPV-------------K------------DSASWITLILGYGMLGELDVAINLFEAMRED   59 (118)
Q Consensus         5 ll~~~~~~~~~~~a~~~~~~m~~-------------~------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~   59 (118)
                      .+...-+.|++++|..+|++...             |            ....|...+....+.|..+.|..+|.+..+.
T Consensus       384 ~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~  463 (679)
T 4e6h_A          384 LSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRL  463 (679)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            34445567888888888876642             2            1235777777777778888888888888765


Q ss_pred             -C-CCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHcccc
Q 046694           60 -G-VEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQK  116 (118)
Q Consensus        60 -~-~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~  116 (118)
                       + ..+......+.+.-.. .++.+.|.++|+...+. ++-+...|...++...+.|+.
T Consensus       464 ~~~~~~~lyi~~A~lE~~~-~~d~e~Ar~ife~~Lk~-~p~~~~~w~~y~~fe~~~~~~  520 (679)
T 4e6h_A          464 KKLVTPDIYLENAYIEYHI-SKDTKTACKVLELGLKY-FATDGEYINKYLDFLIYVNEE  520 (679)
T ss_dssp             GGGSCTHHHHHHHHHHHTT-TSCCHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHTCH
T ss_pred             cCCCChHHHHHHHHHHHHh-CCCHHHHHHHHHHHHHH-CCCchHHHHHHHHHHHhCCCH
Confidence             2 1223333333333222 24578888888887664 444566666666666655543

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.11  E-value=0.0043  Score=41.74  Aligned_cols=115  Identities=12%  Similarity=-0.003  Sum_probs=79.8

Q ss_pred             hHHHHHHHhcCCHHHHHHHhhhCCC-----CC---H-hhHHHHHHHHHhcCCHHHHHHHHHHHHH----cCCCc-cHHHH
Q 046694            3 EPRLDFYTRTGRIDLANKIFDRLPV-----KD---S-ASWITLILGYGMLGELDVAINLFEAMRE----DGVEY-YPVSH   68 (118)
Q Consensus         3 ~~ll~~~~~~~~~~~a~~~~~~m~~-----~~---~-~~~~~li~~~~~~~~~~~a~~~~~~m~~----~~~~p-~~~~~   68 (118)
                      ..|...|.+.|++++|..++.+...     ++   . .+.+.+-..+...|+.+++..++++...    .+..+ -..++
T Consensus        59 ~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  138 (434)
T 4b4t_Q           59 LELGQLYVTMGAKDKLREFIPHSTEYMMQFAKSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLS  138 (434)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHH
Confidence            4577889999999999999987751     11   1 1223333334445889999999888743    33333 35677


Q ss_pred             HHHHHHHhcCCChhhHHHHHHHHhhc--CC--Cc-cHHHHHHHHHHHHHccccc
Q 046694           69 IGVLTACSLGGLVEKGKKFFDEMQAR--NV--KP-TETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        69 ~~ll~~~~~~~~~~~a~~~~~~m~~~--g~--~~-~~~t~~~li~~~~~~g~~~  117 (118)
                      ..+...+...|++++|..++++....  +.  .| ....+..+.+.|...|+++
T Consensus       139 ~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  192 (434)
T 4b4t_Q          139 IKLATLHYQKKQYKDSLALINDLLREFKKLDDKPSLVDVHLLESKVYHKLRNLA  192 (434)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHccChHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHhCcHH
Confidence            88889999999999999999887331  11  22 2567888888888888764

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.10  E-value=0.0023  Score=35.26  Aligned_cols=58  Identities=16%  Similarity=-0.018  Sum_probs=49.5

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMRED   59 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~   59 (118)
                      |..+...|.+.|++++|+..|++..   ..+...|..+-..|...|++++|...|++..+.
T Consensus        22 ~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~   82 (115)
T 2kat_A           22 RFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAWESGLAA   82 (115)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            4556778899999999999998764   346778999999999999999999999998653

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=97.05  E-value=0.012  Score=40.04  Aligned_cols=105  Identities=10%  Similarity=-0.056  Sum_probs=71.4

Q ss_pred             CHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHH--HHHHHHH-HHhcCCChhhHHHH
Q 046694           14 RIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPV--SHIGVLT-ACSLGGLVEKGKKF   87 (118)
Q Consensus        14 ~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~--~~~~ll~-~~~~~~~~~~a~~~   87 (118)
                      .+++|...|++..   ..+..++..+-..|...|++++|.+.|++..+....|...  .+..+.. ...+.|+.++|...
T Consensus       315 ~~~~A~~~~~~a~~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~  394 (472)
T 4g1t_A          315 LIGHAVAHLKKADEANDNLFRVCSILASLHALADQYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHH  394 (472)
T ss_dssp             HHHHHHHHHHHHHHHCTTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHH
T ss_pred             hHHHHHHHHHHHhhcCCchhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHH
Confidence            3556677776543   3466788889999999999999999999988765443321  2222222 23467899999998


Q ss_pred             HHHHhhcCC-----------------------CccHHHHHHHHHHHHHcccccC
Q 046694           88 FDEMQARNV-----------------------KPTETHYACMVYLLIKYNQKAR  118 (118)
Q Consensus        88 ~~~m~~~g~-----------------------~~~~~t~~~li~~~~~~g~~~~  118 (118)
                      |++..+...                       +.+..+|..+-.+|.+.|+.++
T Consensus       395 y~kal~i~~~~~~~~~~~~~l~~~~~~~l~~~p~~~~~~~~LG~~~~~~g~~~~  448 (472)
T 4g1t_A          395 FIEGVKINQKSREKEKMKDKLQKIAKMRLSKNGADSEALHVLAFLQELNEKMQQ  448 (472)
T ss_dssp             HHHHHHSCCCCHHHHHHHHHHHHHHHHHHHHCC-CTTHHHHHHHHHHHHHHCC-
T ss_pred             HHHHHhcCcccHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHH
Confidence            888755321                       2346778888888888887653

>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=97.00  E-value=0.015  Score=34.89  Aligned_cols=86  Identities=13%  Similarity=-0.038  Sum_probs=63.9

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-c-----c-----HHHHHHHHHHHhcCCChhhHHHHHHHHhhc-----C
Q 046694           32 SWITLILGYGMLGELDVAINLFEAMREDGVE-Y-----Y-----PVSHIGVLTACSLGGLVEKGKKFFDEMQAR-----N   95 (118)
Q Consensus        32 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-p-----~-----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-----g   95 (118)
                      .+...-..+.+.|++++|+..|++..+..-. |     +     ...|+..-.++.+.|++++|...+++..+.     .
T Consensus        13 ~~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e   92 (159)
T 2hr2_A           13 LALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGE   92 (159)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhcccc
Confidence            3455566778899999999999998764211 0     2     338999999999999999999999998774     2


Q ss_pred             CCcc-HHHH----HHHHHHHHHccccc
Q 046694           96 VKPT-ETHY----ACMVYLLIKYNQKA  117 (118)
Q Consensus        96 ~~~~-~~t~----~~li~~~~~~g~~~  117 (118)
                      +.|+ ...|    ...=.++...|+++
T Consensus        93 ~~pd~~~A~~~~~~~rG~aL~~lgr~e  119 (159)
T 2hr2_A           93 LNQDEGKLWISAVYSRALALDGLGRGA  119 (159)
T ss_dssp             TTSTHHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             CCCchHHHHHHHHHhHHHHHHHCCCHH
Confidence            2554 5566    66777777777654

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=96.96  E-value=0.012  Score=31.22  Aligned_cols=59  Identities=14%  Similarity=-0.006  Sum_probs=48.7

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCccHH-HHHHHHHHHhcCCChhhHHHHHHHHhhcC
Q 046694           36 LILGYGMLGELDVAINLFEAMREDGVEYYPV-SHIGVLTACSLGGLVEKGKKFFDEMQARN   95 (118)
Q Consensus        36 li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~-~~~~ll~~~~~~~~~~~a~~~~~~m~~~g   95 (118)
                      ....+.+.|++++|.+.|++..+.. +-+.. .+..+-.++.+.|++++|.+.|++..+..
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~   65 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTE-PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELN   65 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            3456678899999999999998753 22556 88888899999999999999999997754

>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=96.90  E-value=0.0065  Score=40.98  Aligned_cols=83  Identities=11%  Similarity=-0.069  Sum_probs=65.5

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc-cHHHHHHHHHHHhc
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEY-YPVSHIGVLTACSL   77 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~   77 (118)
                      |..+-.+|.+.|++++|+..+++..   ..+...|..+-.+|...|++++|.+.|++..+.  .| +...+..+-..+.+
T Consensus       276 ~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l--~P~~~~~~~~l~~~~~~  353 (370)
T 1ihg_A          276 VLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEI--APEDKAIQAELLKVKQK  353 (370)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHH
Confidence            4566778899999999999998764   347788999999999999999999999998765  34 56666666667666


Q ss_pred             CCChhhHHH
Q 046694           78 GGLVEKGKK   86 (118)
Q Consensus        78 ~~~~~~a~~   86 (118)
                      .++.+++.+
T Consensus       354 ~~~~~~a~k  362 (370)
T 1ihg_A          354 IKAQKDKEK  362 (370)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            666665543

>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=96.88  E-value=0.018  Score=31.90  Aligned_cols=70  Identities=10%  Similarity=0.086  Sum_probs=56.7

Q ss_pred             HHhcC-CHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHH
Q 046694           40 YGMLG-ELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLL  110 (118)
Q Consensus        40 ~~~~~-~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~  110 (118)
                      +-+.. +.-++.+.++.+-...+.|++.+..+.|++|-+.+++..|.++++-.+.+ +.+...+|..+++-+
T Consensus        19 F~~~~iD~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K-~~~~~~iY~~~lqEl   89 (109)
T 1v54_E           19 FNKPDIDAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQEL   89 (109)
T ss_dssp             HTCTTCCHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHHHH
T ss_pred             cCCcCccHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCchhhHHHHHHHH
Confidence            33444 67788889999988899999999999999999999999999999999543 333456788877654

>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=96.75  E-value=0.0083  Score=43.87  Aligned_cols=115  Identities=9%  Similarity=-0.014  Sum_probs=75.6

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCCCC----CHhhHHHHHHHHHhc-CCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHh
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLPVK----DSASWITLILGYGML-GELDVAINLFEAMREDGVEYYPVSHIGVLTACS   76 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~~~----~~~~~~~li~~~~~~-~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~   76 (118)
                      |-..+...-+.|+++.|+.+|++....    ....|......--+. ++.+.|.++|+...+. .+-+...+...++-..
T Consensus       437 Wi~y~~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~-~p~~~~~w~~y~~fe~  515 (679)
T 4e6h_A          437 YCVYMNTMKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYHISKDTKTACKVLELGLKY-FATDGEYINKYLDFLI  515 (679)
T ss_dssp             HHHHHHHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHH-HTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCchHHHHHHHHHHH
Confidence            334455556678889999999876421    222333222222233 4589999999988765 3335566677777777


Q ss_pred             cCCChhhHHHHHHHHhhcCCCc--cHHHHHHHHHHHHHccccc
Q 046694           77 LGGLVEKGKKFFDEMQARNVKP--TETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        77 ~~~~~~~a~~~~~~m~~~g~~~--~~~t~~~li~~~~~~g~~~  117 (118)
                      ..|+.+.|..+|++.......+  ....|...++.-.+.|+.+
T Consensus       516 ~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~  558 (679)
T 4e6h_A          516 YVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLN  558 (679)
T ss_dssp             HHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSH
T ss_pred             hCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHH
Confidence            8899999999999887654322  4567888888777777653

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=96.75  E-value=0.033  Score=32.90  Aligned_cols=86  Identities=8%  Similarity=-0.090  Sum_probs=69.5

Q ss_pred             HhcCCHHHHHHHhhhCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHH
Q 046694           10 TRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFD   89 (118)
Q Consensus        10 ~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~   89 (118)
                      ..+|++.+....|-.+.. +..-.+..++.....|.-++..++..++.. +-+|++...-.+-.+|.+.|+..++.+++.
T Consensus        72 s~C~NlKrVi~C~~~~n~-~se~vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~  149 (172)
T 1wy6_A           72 DKCQNLKSVVECGVINNT-LNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLI  149 (172)
T ss_dssp             GGCSCTHHHHHHHHHTTC-CCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HhhhcHHHHHHHHHHhcc-hHHHHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHHHHH
Confidence            356777777777766653 334577888999999999999999999644 347888889999999999999999999999


Q ss_pred             HHhhcCCC
Q 046694           90 EMQARNVK   97 (118)
Q Consensus        90 ~m~~~g~~   97 (118)
                      +.-+.|++
T Consensus       150 ~AC~kG~k  157 (172)
T 1wy6_A          150 EACKKGEK  157 (172)
T ss_dssp             HHHHTTCH
T ss_pred             HHHHhhhH
Confidence            99998974

>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=96.70  E-value=0.002  Score=44.57  Aligned_cols=58  Identities=12%  Similarity=0.016  Sum_probs=49.8

Q ss_pred             CchHHHHHHHhcCCHHHHHHHhhhCC----------CC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 046694            1 MIEPRLDFYTRTGRIDLANKIFDRLP----------VK-DSASWITLILGYGMLGELDVAINLFEAMRE   58 (118)
Q Consensus         1 t~~~ll~~~~~~~~~~~a~~~~~~m~----------~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   58 (118)
                      |++.|..+|...|++++|+.++++..          -| -..+++.+-..|...|++++|+.++++..+
T Consensus       342 ~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          342 MMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGRLYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHhccCHHHHHHHHHHHHH
Confidence            46889999999999999999998764          12 456899999999999999999999999753

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=96.66  E-value=0.011  Score=39.18  Aligned_cols=86  Identities=6%  Similarity=-0.137  Sum_probs=69.4

Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHH------------------HHHHHHHHHhcCCChhhHHHHHHH
Q 046694           29 DSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPV------------------SHIGVLTACSLGGLVEKGKKFFDE   90 (118)
Q Consensus        29 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~------------------~~~~ll~~~~~~~~~~~a~~~~~~   90 (118)
                      ....+..+-..+.+.|++++|...|++..+.  .|+..                  .|..+-.++.+.|++++|...+++
T Consensus       178 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~~~~~~~~~~~~~~l~~~~~~nla~~~~~~g~~~~A~~~~~~  255 (338)
T 2if4_A          178 AADRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFMFQLYGKYQDMALAVKNPCHLNIAACLIKLKRYDEAIGHCNI  255 (338)
T ss_dssp             HHHHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHHHTCCHHHHHHHHHHHTHHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchhhhhcccHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            3445677778888899999999999997654  34432                  788889999999999999999999


Q ss_pred             HhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           91 MQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        91 m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      ..+.. +.+...|..+-.+|...|+++
T Consensus       256 al~~~-p~~~~a~~~lg~a~~~~g~~~  281 (338)
T 2if4_A          256 VLTEE-EKNPKALFRRGKAKAELGQMD  281 (338)
T ss_dssp             HHHHC-TTCHHHHHHHHHHHHTTTCHH
T ss_pred             HHHhC-CCCHHHHHHHHHHHHHcCCHH
Confidence            97753 336788889999999888765

>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=96.56  E-value=0.041  Score=31.59  Aligned_cols=84  Identities=7%  Similarity=-0.142  Sum_probs=50.8

Q ss_pred             HhcCCHHHHHHHhhhCC-CCCHhhHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhc----CCC
Q 046694           10 TRTGRIDLANKIFDRLP-VKDSASWITLILGYGM----LGELDVAINLFEAMREDGVEYYPVSHIGVLTACSL----GGL   80 (118)
Q Consensus        10 ~~~~~~~~a~~~~~~m~-~~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~----~~~   80 (118)
                      ...+.+++|.+.|++-- ..+...+..+-..|..    .+++++|.+.|++..+.|   +...+..+-..|..    .++
T Consensus        36 ~~g~~~~~A~~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d  112 (138)
T 1klx_A           36 NSQINKQKLFQYLSKACELNSGNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGLN---DQDGCLILGYKQYAGKGVVKN  112 (138)
T ss_dssp             CTTSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCC
T ss_pred             HcCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcC
Confidence            33445666666666543 3355566666666665    567777777777766654   34445555555555    667


Q ss_pred             hhhHHHHHHHHhhcCC
Q 046694           81 VEKGKKFFDEMQARNV   96 (118)
Q Consensus        81 ~~~a~~~~~~m~~~g~   96 (118)
                      .++|.++|++..+.|.
T Consensus       113 ~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A          113 EKQAVKTFEKACRLGS  128 (138)
T ss_dssp             HHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHCCC
Confidence            7777777777666653

>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=96.44  E-value=0.051  Score=31.80  Aligned_cols=65  Identities=11%  Similarity=0.083  Sum_probs=54.7

Q ss_pred             CHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHH
Q 046694           45 ELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLL  110 (118)
Q Consensus        45 ~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~  110 (118)
                      |.-+..+-++.+-...+.|++.+..+.|++|-+.+++..|.++++-.+.+ +.+...+|..+++-+
T Consensus        68 D~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K-~~~~~~iY~y~lqEl  132 (152)
T 2y69_E           68 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQEL  132 (152)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHh-cCCchhhHHHHHHHH
Confidence            67778888888888889999999999999999999999999999999553 344466788887654

>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=96.36  E-value=0.0041  Score=42.93  Aligned_cols=58  Identities=10%  Similarity=-0.045  Sum_probs=49.3

Q ss_pred             CchHHHHHHHhcCCHHHHHHHhhhCC-------C---C-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 046694            1 MIEPRLDFYTRTGRIDLANKIFDRLP-------V---K-DSASWITLILGYGMLGELDVAINLFEAMRE   58 (118)
Q Consensus         1 t~~~ll~~~~~~~~~~~a~~~~~~m~-------~---~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   58 (118)
                      +++.|..+|...|++++|+.++++..       -   | -..+++.+-..|...|++++|+.++++..+
T Consensus       331 ~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l~nLa~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          331 VLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQVMKVGKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            46788999999999999999998664       1   2 456899999999999999999999998853

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=96.33  E-value=0.05  Score=37.00  Aligned_cols=73  Identities=15%  Similarity=0.068  Sum_probs=59.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHH-----hhcCCCccHHHHHHH
Q 046694           33 WITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEM-----QARNVKPTETHYACM  106 (118)
Q Consensus        33 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m-----~~~g~~~~~~t~~~l  106 (118)
                      ...++..+...|+++++...+..+... -+.+...+..++.++.+.|+..+|.+.|+..     .+.|+.|...+-...
T Consensus       174 ~~~~~~~~l~~g~~~~a~~~l~~~~~~-~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~l~  251 (388)
T 2ff4_A          174 HTAKAEAEIACGRASAVIAELEALTFE-HPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRALN  251 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH-STTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHH
Confidence            345667777889999999999988654 2458889999999999999999999999986     457999987765443

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.26  E-value=0.057  Score=39.26  Aligned_cols=81  Identities=14%  Similarity=0.102  Sum_probs=53.3

Q ss_pred             HHhcCCHHHHHHHhhhCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-------CccH-------------HHH
Q 046694            9 YTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGV-------EYYP-------------VSH   68 (118)
Q Consensus         9 ~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-------~p~~-------------~~~   68 (118)
                      ....|++++|.++.+.+.  +...|..+-..+.+.++++.|.++|.++.+..-       .-+.             .-+
T Consensus       662 ~l~~~~~~~A~~~~~~~~--~~~~W~~la~~al~~~~~~~A~~~y~~~~d~~~l~~l~~~~~~~~~~~~~~~~a~~~~~~  739 (814)
T 3mkq_A          662 ALKVGQLTLARDLLTDES--AEMKWRALGDASLQRFNFKLAIEAFTNAHDLESLFLLHSSFNNKEGLVTLAKDAETTGKF  739 (814)
T ss_dssp             HHHHTCHHHHHHHHTTCC--CHHHHHHHHHHHHHTTCHHHHHHHHHHHTCHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             hhhcCCHHHHHHHHHhhC--cHhHHHHHHHHHHHcCCHHHHHHHHHHccChhhhHHHHHHcCCHHHHHHHHHHHHHcCch
Confidence            345677777777776654  557888999999999999999999988742110       0011             123


Q ss_pred             HHHHHHHhcCCChhhHHHHHHHH
Q 046694           69 IGVLTACSLGGLVEKGKKFFDEM   91 (118)
Q Consensus        69 ~~ll~~~~~~~~~~~a~~~~~~m   91 (118)
                      +.....|.+.|++++|.+++.++
T Consensus       740 ~~A~~~~~~~g~~~~a~~~~~~~  762 (814)
T 3mkq_A          740 NLAFNAYWIAGDIQGAKDLLIKS  762 (814)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHc
Confidence            33455566677777777777665

>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=96.25  E-value=0.061  Score=36.59  Aligned_cols=74  Identities=7%  Similarity=-0.027  Sum_probs=60.0

Q ss_pred             CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHH
Q 046694           28 KDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYAC  105 (118)
Q Consensus        28 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~  105 (118)
                      .+...|..+-..+...|++++|...+++....+  |+...|..+-..+.-.|++++|.+.|++....  .|...||..
T Consensus       275 ~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL--~P~~~t~~~  348 (372)
T 3ly7_A          275 NLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNL--RPGANTLYW  348 (372)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCSHHHHHH
T ss_pred             cCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCcChHHH
Confidence            466777777777777899999999999998875  78888888888888999999999999988774  455556543

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=96.25  E-value=0.099  Score=35.98  Aligned_cols=100  Identities=17%  Similarity=0.121  Sum_probs=50.1

Q ss_pred             HHHHHHhcC---CHHHHHHHhhhCC---CCCHhhHHHHHHHHHhc----CCHHHHHHHHHHHHHcCCCccHHHHHHHHHH
Q 046694            5 RLDFYTRTG---RIDLANKIFDRLP---VKDSASWITLILGYGML----GELDVAINLFEAMREDGVEYYPVSHIGVLTA   74 (118)
Q Consensus         5 ll~~~~~~~---~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~----~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~   74 (118)
                      |-..|.+.|   +.++|...|++..   .++...+..+-..|...    +++++|.+.|++.. .|   +...+..+-..
T Consensus       182 Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa-~g---~~~a~~~Lg~~  257 (452)
T 3e4b_A          182 LATVYQKKQQPEQQAELLKQMEAGVSRGTVTAQRVDSVARVLGDATLGTPDEKTAQALLEKIA-PG---YPASWVSLAQL  257 (452)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHTTCSCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG-GG---STHHHHHHHHH
T ss_pred             HHHHHHHcCCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc-CC---CHHHHHHHHHH
Confidence            344455555   6666666665443   22333334444444333    46666666666655 22   22223333222


Q ss_pred             -H--hcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHH
Q 046694           75 -C--SLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLI  111 (118)
Q Consensus        75 -~--~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~  111 (118)
                       +  ...++.++|.++|++..+.|   +...+..|-.+|.
T Consensus       258 ~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~  294 (452)
T 3e4b_A          258 LYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY  294 (452)
T ss_dssp             HHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH
T ss_pred             HHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH
Confidence             2  34666777777777666655   4444444444444

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.24  E-value=0.044  Score=36.78  Aligned_cols=90  Identities=9%  Similarity=-0.116  Sum_probs=68.8

Q ss_pred             hHHHHHHHhcCCHHHHHHHhhhCC--------CC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCcc--HHH
Q 046694            3 EPRLDFYTRTGRIDLANKIFDRLP--------VK-DSASWITLILGYGMLGELDVAINLFEAMRED----GVEYY--PVS   67 (118)
Q Consensus         3 ~~ll~~~~~~~~~~~a~~~~~~m~--------~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~p~--~~~   67 (118)
                      ..|...|...|++++|..++++..        .+ ....|..++..|...|++++|..++++....    +.+|.  ...
T Consensus       139 ~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~  218 (434)
T 4b4t_Q          139 IKLATLHYQKKQYKDSLALINDLLREFKKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAEL  218 (434)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHH
T ss_pred             HHHHHHHHHccChHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHH
Confidence            457788889999999998887653        11 4558889999999999999999999987532    22222  356


Q ss_pred             HHHHHHHHhcCCChhhHHHHHHHHh
Q 046694           68 HIGVLTACSLGGLVEKGKKFFDEMQ   92 (118)
Q Consensus        68 ~~~ll~~~~~~~~~~~a~~~~~~m~   92 (118)
                      +..+...+...+++++|...|.+..
T Consensus       219 ~~~~g~~~~~~~~y~~A~~~~~~a~  243 (434)
T 4b4t_Q          219 DLMSGILHCEDKDYKTAFSYFFESF  243 (434)
T ss_dssp             HHHHHHHTTSSSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            6777778888999999988877763

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=95.95  E-value=0.19  Score=34.62  Aligned_cols=99  Identities=11%  Similarity=0.118  Sum_probs=69.3

Q ss_pred             HHHHHhcC----CHHHHHHHhhhCCCCCHhhHHHHHHHHHhcC---CHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcC
Q 046694            6 LDFYTRTG----RIDLANKIFDRLPVKDSASWITLILGYGMLG---ELDVAINLFEAMREDGVEYYPVSHIGVLTACSLG   78 (118)
Q Consensus         6 l~~~~~~~----~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~---~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~   78 (118)
                      -..|...+    +.+.+..++......+...+..+-..|.+.|   +.++|++.|++..+.|- ++...+..+-..|...
T Consensus       148 g~~y~~~~~~~~~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~-~~a~~~~~Lg~~y~~g  226 (452)
T 3e4b_A          148 VLLYRTQGTYDQHLDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRGT-VTAQRVDSVARVLGDA  226 (452)
T ss_dssp             HHHHHHHTCGGGGHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTC-SCHHHHHHHHHHHTCG
T ss_pred             HHHHHcCCCcccCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCC-HHHHHHHHHHHHHhCC
Confidence            34444444    4556666776666666668888889999999   89999999999988773 4455445555555544


Q ss_pred             ----CChhhHHHHHHHHhhcCCCccHHHHHHHHHH
Q 046694           79 ----GLVEKGKKFFDEMQARNVKPTETHYACMVYL  109 (118)
Q Consensus        79 ----~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~  109 (118)
                          ++.++|.++|++.. .|   +...+..|-..
T Consensus       227 ~~~~~d~~~A~~~~~~aa-~g---~~~a~~~Lg~~  257 (452)
T 3e4b_A          227 TLGTPDEKTAQALLEKIA-PG---YPASWVSLAQL  257 (452)
T ss_dssp             GGSSCCHHHHHHHHHHHG-GG---STHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHc-CC---CHHHHHHHHHH
Confidence                78999999999987 33   45555555555

>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=95.94  E-value=0.099  Score=29.92  Aligned_cols=93  Identities=8%  Similarity=-0.073  Sum_probs=67.9

Q ss_pred             cCCHHHHHHHhhhCCC-CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhc----CCChhhHHH
Q 046694           12 TGRIDLANKIFDRLPV-KDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSL----GGLVEKGKK   86 (118)
Q Consensus        12 ~~~~~~a~~~~~~m~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~----~~~~~~a~~   86 (118)
                      .+++++|...|++.-. .+....  +-..|...+.+++|.+.|++..+.|   +...+..+-..|..    .++.++|.+
T Consensus         8 ~~d~~~A~~~~~~aa~~g~~~a~--lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~   82 (138)
T 1klx_A            8 KKDLKKAIQYYVKACELNEMFGC--LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAAQ   82 (138)
T ss_dssp             HHHHHHHHHHHHHHHHTTCTTHH--HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHH
T ss_pred             ccCHHHHHHHHHHHHcCCCHhhh--HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHHHH
Confidence            3578899999986642 233344  5566666678999999999998875   55666666666766    789999999


Q ss_pred             HHHHHhhcCCCccHHHHHHHHHHHHH
Q 046694           87 FFDEMQARNVKPTETHYACMVYLLIK  112 (118)
Q Consensus        87 ~~~~m~~~g~~~~~~t~~~li~~~~~  112 (118)
                      +|++..+.|   +...+..|-..|..
T Consensus        83 ~~~~Aa~~g---~~~a~~~Lg~~y~~  105 (138)
T 1klx_A           83 YYSKACGLN---DQDGCLILGYKQYA  105 (138)
T ss_dssp             HHHHHHHTT---CHHHHHHHHHHHHH
T ss_pred             HHHHHHcCC---CHHHHHHHHHHHHC
Confidence            999998876   45566666666655

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=95.67  E-value=0.087  Score=38.32  Aligned_cols=80  Identities=13%  Similarity=0.003  Sum_probs=50.5

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCCCC-----------CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHH
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLPVK-----------DSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIG   70 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~~~-----------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~   70 (118)
                      |..|-..+.+.|+++.|++.|.++...           +......+.......|++..|..+|-+.         --+..
T Consensus       684 W~~la~~al~~~~~~~A~~~y~~~~d~~~l~~l~~~~~~~~~~~~~~~~a~~~~~~~~A~~~~~~~---------g~~~~  754 (814)
T 3mkq_A          684 WRALGDASLQRFNFKLAIEAFTNAHDLESLFLLHSSFNNKEGLVTLAKDAETTGKFNLAFNAYWIA---------GDIQG  754 (814)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHTCHHHHHHHHHHTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH---------TCHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHccChhhhHHHHHHcCCHHHHHHHHHHHHHcCchHHHHHHHHHc---------CCHHH
Confidence            677888888999999999999877632           2222223333334444444444444332         12445


Q ss_pred             HHHHHhcCCChhhHHHHHHH
Q 046694           71 VLTACSLGGLVEKGKKFFDE   90 (118)
Q Consensus        71 ll~~~~~~~~~~~a~~~~~~   90 (118)
                      .++.|.+.+++++|..+-+.
T Consensus       755 a~~~~~~~~~~~~A~~lA~~  774 (814)
T 3mkq_A          755 AKDLLIKSQRFSEAAFLGST  774 (814)
T ss_dssp             HHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHcCChHHHHHHHHH
Confidence            67888888898888887665

>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=95.57  E-value=0.28  Score=32.42  Aligned_cols=94  Identities=18%  Similarity=0.175  Sum_probs=71.5

Q ss_pred             HHHHHHHhhhCC--CC---CHhhHHHHHHHHHhc-----CCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcC-CChhh
Q 046694           15 IDLANKIFDRLP--VK---DSASWITLILGYGML-----GELDVAINLFEAMREDGVEYYPVSHIGVLTACSLG-GLVEK   83 (118)
Q Consensus        15 ~~~a~~~~~~m~--~~---~~~~~~~li~~~~~~-----~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~-~~~~~   83 (118)
                      ..+|...+++..  .|   +-..|..+-..|.+.     |+.++|.+.|++-.+-+-.-+..++...-+.+++. |+.+.
T Consensus       179 l~~A~a~lerAleLDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~~  258 (301)
T 3u64_A          179 VHAAVMMLERACDLWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRAG  258 (301)
T ss_dssp             HHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHHH
T ss_pred             HHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHHH
Confidence            345555565543  34   466899999999995     99999999999998753211477777888888885 99999


Q ss_pred             HHHHHHHHhhcCCC--ccHHHHHHHHH
Q 046694           84 GKKFFDEMQARNVK--PTETHYACMVY  108 (118)
Q Consensus        84 a~~~~~~m~~~g~~--~~~~t~~~li~  108 (118)
                      +.+.+++.......  |+....|.+-+
T Consensus       259 a~~~L~kAL~a~p~~~P~~~lan~~~q  285 (301)
T 3u64_A          259 FDEALDRALAIDPESVPHNKLLVILSQ  285 (301)
T ss_dssp             HHHHHHHHHHCCGGGCSSCHHHHHHHH
T ss_pred             HHHHHHHHHcCCCCCCCChhHHHHHHH
Confidence            99999999888777  77766665543

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=95.54  E-value=0.068  Score=36.37  Aligned_cols=68  Identities=15%  Similarity=0.202  Sum_probs=54.8

Q ss_pred             HHHHHHHhcCCHHHHHHHhhhCC--CC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHH-----cCCCccHHHHHHH
Q 046694            4 PRLDFYTRTGRIDLANKIFDRLP--VK-DSASWITLILGYGMLGELDVAINLFEAMRE-----DGVEYYPVSHIGV   71 (118)
Q Consensus         4 ~ll~~~~~~~~~~~a~~~~~~m~--~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-----~~~~p~~~~~~~l   71 (118)
                      .++..+...|+.++|........  .| +-..|..+|.++...|+..+|++.|++.++     -|+.|+..+-...
T Consensus       176 ~~~~~~l~~g~~~~a~~~l~~~~~~~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~l~  251 (388)
T 2ff4_A          176 AKAEAEIACGRASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRALN  251 (388)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHH
Confidence            35667778899999988777664  33 777999999999999999999999999854     4999987664443

>2ion_A PDCD4, programmed cell death 4, PDCD4; alpha-helical, antitumor protein; 1.57A {Mus musculus} SCOP: a.118.1.14 PDB: 2ios_A 2iol_A

Probab=95.47  E-value=0.19  Score=29.80  Aligned_cols=89  Identities=12%  Similarity=0.154  Sum_probs=60.9

Q ss_pred             hHHHHHHHhcCCHHHHHHHhhhCCCC---CHhhHHHHHHHHHhcC--CHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhc
Q 046694            3 EPRLDFYTRTGRIDLANKIFDRLPVK---DSASWITLILGYGMLG--ELDVAINLFEAMREDGVEYYPVSHIGVLTACSL   77 (118)
Q Consensus         3 ~~ll~~~~~~~~~~~a~~~~~~m~~~---~~~~~~~li~~~~~~~--~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~   77 (118)
                      +.+|.-|...|+.++|.+.++++..|   ...++..+..++-+.+  ..+.+..++..+...|+-+.......+-+.+..
T Consensus        13 ~~lL~EY~~~~D~~EA~~cl~EL~~p~f~~e~V~~~i~~alE~~~~~~re~~~~LL~~L~~~~~is~~q~~~Gf~~vl~~   92 (152)
T 2ion_A           13 DMLLKEYLLSGDISEAEHCLKELEVPHFHHELVYEAIVMVLESTGESAFKMILDLLKSLWKSSTITIDQMKRGYERIYNE   92 (152)
T ss_dssp             HHHHHHHHHHCCHHHHHHHHHHHTCGGGHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHTTCSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHCCCcCHHHHHHHHHHHHHh
Confidence            56889999999999999999999866   3445666666776643  367888999999888876655554443333333


Q ss_pred             CC----ChhhHHHHHHHH
Q 046694           78 GG----LVEKGKKFFDEM   91 (118)
Q Consensus        78 ~~----~~~~a~~~~~~m   91 (118)
                      ..    ++..|..++.++
T Consensus        93 ldDl~lDiP~A~~~la~~  110 (152)
T 2ion_A           93 IPDINLDVPHSYSVLERF  110 (152)
T ss_dssp             HHHHHHHSTTHHHHHHHH
T ss_pred             ChHhccCccchHHHHHHH
Confidence            22    344566655555

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=95.19  E-value=0.3  Score=34.21  Aligned_cols=105  Identities=15%  Similarity=0.182  Sum_probs=64.1

Q ss_pred             HHHHHHHhcCCHHHHHHHhhhCCCCC--HhhHH--HHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCC
Q 046694            4 PRLDFYTRTGRIDLANKIFDRLPVKD--SASWI--TLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGG   79 (118)
Q Consensus         4 ~ll~~~~~~~~~~~a~~~~~~m~~~~--~~~~~--~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~   79 (118)
                      ..+...-+.+.++.|+.+|++...|+  ...|.  +.+... ..++++.|..+|+...+.- +-+...+...++-..+.|
T Consensus       291 ~y~~~~~r~~~~~~AR~i~~~A~~~~~~~~v~i~~A~lE~~-~~~d~~~ar~ife~al~~~-~~~~~~~~~yid~e~~~~  368 (493)
T 2uy1_A          291 NHLNYVLKKRGLELFRKLFIELGNEGVGPHVFIYCAFIEYY-ATGSRATPYNIFSSGLLKH-PDSTLLKEEFFLFLLRIG  368 (493)
T ss_dssp             HHHHHHHHHHCHHHHHHHHHHHTTSCCCHHHHHHHHHHHHH-HHCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHhhCCCCChHHHHHHHHHHHH-HCCChHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcC
Confidence            34445556778999999998774343  22332  222211 2246899999999887642 112334555666667788


Q ss_pred             ChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccc
Q 046694           80 LVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQ  115 (118)
Q Consensus        80 ~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~  115 (118)
                      +.+.|..+|+...     .....|...++.=.+.|+
T Consensus       369 ~~~~aR~l~er~~-----k~~~lw~~~~~fE~~~G~  399 (493)
T 2uy1_A          369 DEENARALFKRLE-----KTSRMWDSMIEYEFMVGS  399 (493)
T ss_dssp             CHHHHHHHHHHSC-----CBHHHHHHHHHHHHHHSC
T ss_pred             CHHHHHHHHHHHH-----HHHHHHHHHHHHHHHCCC
Confidence            9999988888862     145556666655555454

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=95.11  E-value=0.18  Score=27.37  Aligned_cols=62  Identities=8%  Similarity=-0.198  Sum_probs=43.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHc------CCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhc
Q 046694           33 WITLILGYGMLGELDVAINLFEAMRED------GVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQAR   94 (118)
Q Consensus        33 ~~~li~~~~~~~~~~~a~~~~~~m~~~------~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~   94 (118)
                      +-.+-..+.+.++++.|...|++..+.      .-.+....+..+-.++.+.|+++.|..++++..+.
T Consensus         8 c~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l   75 (104)
T 2v5f_A            8 CFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (104)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence            445566667778888888888776542      11235667777888888888888888888887663

>2nsz_A Programmed cell death protein 4; PDCD4, tumor suppressor, translation, antitumor protein; 1.15A {Mus musculus} SCOP: a.118.1.14 PDB: 2kzt_B 2hm8_A 2ggf_A

Probab=95.03  E-value=0.24  Score=28.47  Aligned_cols=89  Identities=12%  Similarity=0.154  Sum_probs=59.2

Q ss_pred             hHHHHHHHhcCCHHHHHHHhhhCCCC---CHhhHHHHHHHHHhcC--CHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhc
Q 046694            3 EPRLDFYTRTGRIDLANKIFDRLPVK---DSASWITLILGYGMLG--ELDVAINLFEAMREDGVEYYPVSHIGVLTACSL   77 (118)
Q Consensus         3 ~~ll~~~~~~~~~~~a~~~~~~m~~~---~~~~~~~li~~~~~~~--~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~   77 (118)
                      +.+|.-|...|+.++|.+.++++..|   ...+...+..++-+.+  ..+.+..++..+...|+-+.......+-+.+..
T Consensus        11 ~~ll~EY~~~~D~~Ea~~cl~eL~~p~f~~e~V~~~i~~alE~~~~~~~e~~~~LL~~L~~~~~is~~q~~~Gf~~v~~~   90 (129)
T 2nsz_A           11 DMLLKEYLLSGDISEAEHCLKELEVPHFHHELVYEAIVMVLESTGESAFKMILDLLKSLWKSSTITIDQMKRGYERIYNE   90 (129)
T ss_dssp             HHHHHHHHHHCCHHHHHHHHHHHTCGGGHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHTTCSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCCHHHHHHHHHHhCCCccHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHCCCcCHHHHHHHHHHHHhh
Confidence            56888999999999999999999866   3345566666666654  357888899999888776655543333333332


Q ss_pred             CC----ChhhHHHHHHHH
Q 046694           78 GG----LVEKGKKFFDEM   91 (118)
Q Consensus        78 ~~----~~~~a~~~~~~m   91 (118)
                      ..    +...|..++.++
T Consensus        91 l~Dl~lDiP~a~~~l~~~  108 (129)
T 2nsz_A           91 IPDINLDVPHSYSVLERF  108 (129)
T ss_dssp             HHHHHHHSTTHHHHHHHH
T ss_pred             ChHhhcCccchHHHHHHH
Confidence            22    334455555554

>1ug3_A EIF4GI, eukaryotic protein synthesis initiation factor 4G; heat repeat, translation; 2.24A {Homo sapiens} SCOP: a.118.1.14 a.118.1.14

Probab=94.70  E-value=0.39  Score=32.12  Aligned_cols=91  Identities=8%  Similarity=-0.076  Sum_probs=62.1

Q ss_pred             hHHHHHHHhcCCHHHHHHHhhhCCCCC---HhhHHHHHHHHHhc-CCHHHHHHHHHHHHHcCCCccHHH---HHHHHHHH
Q 046694            3 EPRLDFYTRTGRIDLANKIFDRLPVKD---SASWITLILGYGML-GELDVAINLFEAMREDGVEYYPVS---HIGVLTAC   75 (118)
Q Consensus         3 ~~ll~~~~~~~~~~~a~~~~~~m~~~~---~~~~~~li~~~~~~-~~~~~a~~~~~~m~~~~~~p~~~~---~~~ll~~~   75 (118)
                      +.++.-|...|+.++|.+.++++..|.   ..+...+..+.-+. ...+.+.+++..+.+.|+-+....   |..++..+
T Consensus        15 ~~ll~Ey~~~~d~~Ea~~ci~el~~p~~~~~~v~~~i~~~le~~~~~re~~~~Ll~~L~~~~~is~~~~~~Gf~~~~~~l   94 (339)
T 1ug3_A           15 KAIIEEYLHLNDMKEAVQCVQELASPSLLFIFVRHGVESTLERSAIAREHMGQLLHQLLCAGHLSTAQYYQGLYEILELA   94 (339)
T ss_dssp             HHHHHHHHHHCCHHHHHHHHHTTCCGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHcCCcccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHhhC
Confidence            568899999999999999999998773   33444444444332 246788888999988776654444   44444444


Q ss_pred             hcCC-ChhhHHHHHHHHhh
Q 046694           76 SLGG-LVEKGKKFFDEMQA   93 (118)
Q Consensus        76 ~~~~-~~~~a~~~~~~m~~   93 (118)
                      -... ++..|...+.++..
T Consensus        95 ~Dl~lDiP~a~~~La~~v~  113 (339)
T 1ug3_A           95 EDMEIDIPHVWLYLAELVT  113 (339)
T ss_dssp             HHHTTTCTTHHHHHHHHHG
T ss_pred             hHhhcCccchHHHHHHHHH
Confidence            4444 67778888888733

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=94.51  E-value=0.21  Score=26.73  Aligned_cols=65  Identities=9%  Similarity=-0.080  Sum_probs=41.1

Q ss_pred             CHhhHHHHHHHHHhcCC---HHHHHHHHHHHHHcCCCc-cHHHHHHHHHHHhcCCChhhHHHHHHHHhhcC
Q 046694           29 DSASWITLILGYGMLGE---LDVAINLFEAMREDGVEY-YPVSHIGVLTACSLGGLVEKGKKFFDEMQARN   95 (118)
Q Consensus        29 ~~~~~~~li~~~~~~~~---~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g   95 (118)
                      |...+..+-.++...++   .++|..+|++..+.  .| +......+-..+.+.|++++|...|+++.+..
T Consensus         5 ~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~--dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~   73 (93)
T 3bee_A            5 TATQLAAKATTLYYLHKQAMTDEVSLLLEQALQL--EPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSN   73 (93)
T ss_dssp             CHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCC
T ss_pred             CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHH--CcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            44445555555543433   67778888777664  34 45555556666777788888888888876643

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=94.42  E-value=0.31  Score=26.99  Aligned_cols=60  Identities=13%  Similarity=0.057  Sum_probs=35.2

Q ss_pred             HHHHhcCCHHHHHHHhhhCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHH
Q 046694            7 DFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHI   69 (118)
Q Consensus         7 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~   69 (118)
                      ..+...|++++|..+.+.+..||+..|-++-.  .+.|..+++..-+.++..+| .|....|.
T Consensus        47 sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce--~rlGl~s~le~rL~~la~sg-~p~~q~Fa  106 (115)
T 2uwj_G           47 SSLANQGRYQEALAFAHGNPWPALEPWFALCE--WHLGLGAALDRRLAGLGGSS-DPALADFA  106 (115)
T ss_dssp             HHHHHTTCHHHHHGGGTTCCCGGGHHHHHHHH--HHTTCHHHHHHHHHHHHTCS-SHHHHHHH
T ss_pred             HHHHcchhHHHHHHhcCCCCCchHHHHHHHHH--HhcccHHHHHHHHHHHHhCC-CHHHHHHH
Confidence            44556666666666666666666666655543  35666666666666665554 33333333

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=94.41  E-value=0.69  Score=31.85  Aligned_cols=91  Identities=13%  Similarity=0.050  Sum_probs=63.7

Q ss_pred             hHHHHHHHhcCCHHHHHHHhhhCC------CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHH---cCCCccHHHHH--HH
Q 046694            3 EPRLDFYTRTGRIDLANKIFDRLP------VKDSASWITLILGYGMLGELDVAINLFEAMRE---DGVEYYPVSHI--GV   71 (118)
Q Consensus         3 ~~ll~~~~~~~~~~~a~~~~~~m~------~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~p~~~~~~--~l   71 (118)
                      ..+...|.+.|+++.|.+.|.++.      ..-+..+-..|+.+...+++..+....++...   .+-.|+...--  .-
T Consensus       135 ~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~~~~~~~~d~~~~~~lk~~~  214 (429)
T 4b4t_R          135 INLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAVNSMIEKGGDWERRNRYKTYY  214 (429)
T ss_dssp             HHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTCCCTHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhhhcCCCHHHHHHHHHHH
Confidence            356778899999999999999886      22455778888999999999999999999854   23233322111  11


Q ss_pred             HHHHhcCCChhhHHHHHHHHhh
Q 046694           72 LTACSLGGLVEKGKKFFDEMQA   93 (118)
Q Consensus        72 l~~~~~~~~~~~a~~~~~~m~~   93 (118)
                      .-.+...+++..|.+.|-+...
T Consensus       215 gl~~l~~r~f~~Aa~~f~e~~~  236 (429)
T 4b4t_R          215 GIHCLAVRNFKEAAKLLVDSLA  236 (429)
T ss_dssp             HHGGGGTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHhChHHHHHHHHHHHhc
Confidence            1223466888888888877643

>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=94.24  E-value=0.35  Score=26.84  Aligned_cols=52  Identities=15%  Similarity=0.130  Sum_probs=28.2

Q ss_pred             HHHHhcCCHHHHHHHhhhCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 046694            7 DFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDG   60 (118)
Q Consensus         7 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~   60 (118)
                      ..+...|++++|..+.+.+..||+..|-++-.  .+.|..+++..-+.++..+|
T Consensus        48 sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce--~rlGl~s~le~rL~~la~sg   99 (116)
T 2p58_C           48 SSLMNRGDYASALQQGNKLAYPDLEPWLALCE--YRLGLGSALESRLNRLARSQ   99 (116)
T ss_dssp             HHHHHTTCHHHHHHHHTTSCCGGGHHHHHHHH--HHHTCHHHHHHHHHHHTTCC
T ss_pred             HHHHcchhHHHHHHhcCCCCCchHHHHHHHHH--HhcccHHHHHHHHHHHHhCC
Confidence            34445566666666666555566555555433  34555555555555554444

>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=94.22  E-value=0.053  Score=32.45  Aligned_cols=71  Identities=15%  Similarity=0.173  Sum_probs=52.3

Q ss_pred             HHHHHHHhhhCC---CCCHhhHHHHHHHHHhcC-----------CHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCC
Q 046694           15 IDLANKIFDRLP---VKDSASWITLILGYGMLG-----------ELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGL   80 (118)
Q Consensus        15 ~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~-----------~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~   80 (118)
                      +++|+..|++-.   ..+...|..+-.+|...|           ++++|.+.|++..+.  .|+-..|...+...     
T Consensus        62 ~~eAi~~le~AL~ldP~~~~A~~~LG~ay~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l--~P~~~~y~~al~~~-----  134 (158)
T 1zu2_A           62 IQEAITKFEEALLIDPKKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVDE--QPDNTHYLKSLEMT-----  134 (158)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHH-----
T ss_pred             HHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhcccCcchhhhhccHHHHHHHHHHHHHh--CCCCHHHHHHHHHH-----
Confidence            569999998764   347778999999998774           899999999998874  68877776666653     


Q ss_pred             hhhHHHHHHHHhh
Q 046694           81 VEKGKKFFDEMQA   93 (118)
Q Consensus        81 ~~~a~~~~~~m~~   93 (118)
                       +++.+++-++..
T Consensus       135 -~ka~el~~~~~~  146 (158)
T 1zu2_A          135 -AKAPQLHAEAYK  146 (158)
T ss_dssp             -HTHHHHHHHHHH
T ss_pred             -HhCHhccCcccc
Confidence             344555544433

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=93.87  E-value=0.86  Score=30.02  Aligned_cols=101  Identities=3%  Similarity=0.031  Sum_probs=66.0

Q ss_pred             CCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHH--HHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCC------h
Q 046694           13 GRIDLANKIFDRLP---VKDSASWITLILGYGMLGELD--VAINLFEAMREDGVEYYPVSHIGVLTACSLGGL------V   81 (118)
Q Consensus        13 ~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~--~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~------~   81 (118)
                      ++++++..+++++.   ..|...|+----...+.|.++  ++++.++++.+.... |...|+----.+.+.+.      +
T Consensus       124 ~~~~~EL~~~~~~l~~~pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~~-N~sAW~~R~~ll~~l~~~~~~~~~  202 (306)
T 3dra_A          124 FDPYREFDILEAMLSSDPKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDLK-NNSAWSHRFFLLFSKKHLATDNTI  202 (306)
T ss_dssp             CCTHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHSSGGGCCHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccccchhhhH
Confidence            67788888887775   446677776666667777777  888888888765322 55555554444555554      6


Q ss_pred             hhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccc
Q 046694           82 EKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQ  115 (118)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~  115 (118)
                      +++.+.++++..... -|...|+-+-..+.+.|+
T Consensus       203 ~eEl~~~~~aI~~~p-~n~SaW~y~~~ll~~~~~  235 (306)
T 3dra_A          203 DEELNYVKDKIVKCP-QNPSTWNYLLGIHERFDR  235 (306)
T ss_dssp             HHHHHHHHHHHHHCS-SCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHhCC-CCccHHHHHHHHHHhcCC
Confidence            777777777766443 366777666666665554

>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=93.86  E-value=0.61  Score=33.34  Aligned_cols=106  Identities=7%  Similarity=-0.023  Sum_probs=63.1

Q ss_pred             HHHhcC--CHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcC-CHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcC---
Q 046694            8 FYTRTG--RIDLANKIFDRLP---VKDSASWITLILGYGMLG-ELDVAINLFEAMREDGVEYYPVSHIGVLTACSLG---   78 (118)
Q Consensus         8 ~~~~~~--~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~-~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~---   78 (118)
                      ++.+.+  +++++..+++++.   ..|...|+-.--...+.| .++++++.++++.+... -|...|+-.-..+.+.   
T Consensus       116 ~l~~l~~~~~~~el~~~~k~l~~d~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p-~n~saW~~r~~ll~~l~~~  194 (567)
T 1dce_A          116 LLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNF-SNYSSWHYRSCLLPQLHPQ  194 (567)
T ss_dssp             HHHTCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTC-CCHHHHHHHHHHHHHHSCC
T ss_pred             HHHHcccccHHHHHHHHHHHHhhccccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCC-CCccHHHHHHHHHHhhccc
Confidence            344455  5677777777664   446667776666666667 67777777777765432 2555555554444442   


Q ss_pred             -----------CChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccc
Q 046694           79 -----------GLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQ  115 (118)
Q Consensus        79 -----------~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~  115 (118)
                                 +.++++.+.+++..... +-|...|+-+--.+.+.++
T Consensus       195 ~~~~~~~~~~~~~~~eel~~~~~ai~~~-P~~~saW~y~~~ll~~~~~  241 (567)
T 1dce_A          195 PDSGPQGRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGRAEP  241 (567)
T ss_dssp             CCSSSCCSSCHHHHHHHHHHHHHHHHHC-SSCSHHHHHHHHHHSCCCC
T ss_pred             ccccccccccHHHHHHHHHHHHHHHhhC-CCCccHHHHHHHHHhcCCC
Confidence                       44566777776665533 2256666666555555443

>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=93.74  E-value=1.3  Score=31.66  Aligned_cols=96  Identities=11%  Similarity=0.042  Sum_probs=76.2

Q ss_pred             HHHHHHHhhhCC---CCCHhhHHHHHHHHHhcC--CHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCC-ChhhHHHHH
Q 046694           15 IDLANKIFDRLP---VKDSASWITLILGYGMLG--ELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGG-LVEKGKKFF   88 (118)
Q Consensus        15 ~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~--~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~-~~~~a~~~~   88 (118)
                      ++++..+++++.   ..+..+|+.---.+.+.+  +++++++.++++.+...+ +...|+----++.+.| ..+++.+.+
T Consensus        89 ~~~eL~~~~~~l~~~pK~y~aW~hR~w~l~~l~~~~~~~el~~~~k~l~~d~~-N~~aW~~R~~~l~~l~~~~~~el~~~  167 (567)
T 1dce_A           89 VKAELGFLESCLRVNPKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFT  167 (567)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcccccHHHHHHHHHHHHhhccc-cccHHHHHHHHHHHcCCChHHHHHHH
Confidence            889999998775   457788888888888888  789999999999876432 6777777777777888 889999999


Q ss_pred             HHHhhcCCCccHHHHHHHHHHHHH
Q 046694           89 DEMQARNVKPTETHYACMVYLLIK  112 (118)
Q Consensus        89 ~~m~~~g~~~~~~t~~~li~~~~~  112 (118)
                      +++.+.... |...|+..-..+.+
T Consensus       168 ~~~I~~~p~-n~saW~~r~~ll~~  190 (567)
T 1dce_A          168 DSLITRNFS-NYSSWHYRSCLLPQ  190 (567)
T ss_dssp             HTTTTTTCC-CHHHHHHHHHHHHH
T ss_pred             HHHHHHCCC-CccHHHHHHHHHHh
Confidence            999776543 67888877776665

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=93.69  E-value=0.42  Score=25.82  Aligned_cols=60  Identities=12%  Similarity=-0.038  Sum_probs=48.0

Q ss_pred             HHHHHHHhcCCHHHHHHHhhhCC----------CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccH
Q 046694            4 PRLDFYTRTGRIDLANKIFDRLP----------VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYP   65 (118)
Q Consensus         4 ~ll~~~~~~~~~~~a~~~~~~m~----------~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~   65 (118)
                      .|-..+.+.|+++.|..-|++..          .+....+..+-.++.+.|+++.|...+++..+.  .|+-
T Consensus        10 ~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l--~P~~   79 (104)
T 2v5f_A           10 ELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL--DPEH   79 (104)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTC
T ss_pred             HHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhc--CCCC
Confidence            46677889999999998887543          124667889999999999999999999999764  4543

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=93.51  E-value=0.66  Score=27.51  Aligned_cols=83  Identities=12%  Similarity=0.040  Sum_probs=56.7

Q ss_pred             HHHHHHHhhhCC---CCCHhhHHHHHHHHHhcC---CHHHHHHHHHHHHHcCCCc---cHHHHHHHHHHHhcCCChhhHH
Q 046694           15 IDLANKIFDRLP---VKDSASWITLILGYGMLG---ELDVAINLFEAMREDGVEY---YPVSHIGVLTACSLGGLVEKGK   85 (118)
Q Consensus        15 ~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~---~~~~a~~~~~~m~~~~~~p---~~~~~~~ll~~~~~~~~~~~a~   85 (118)
                      +..+++-|++-.   .++..+.-.+--++++++   +.+++..+|++..+.. .|   ....|+.-+ ++.+.|++++|.
T Consensus        14 l~~~~~~y~~e~~~~~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv-~~~kl~~Y~~A~   91 (152)
T 1pc2_A           14 LLKFEKKFQSEKAAGSVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAV-GNYRLKEYEKAL   91 (152)
T ss_dssp             HHHHHHHHHHHHHTTCCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHH-HHHHTSCHHHHH
T ss_pred             HHHHHHHHHHHHccCCCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHH-HHHHccCHHHHH
Confidence            445555555431   345666666666778887   6779999999998764 24   223444444 459999999999


Q ss_pred             HHHHHHhhcCCCccHH
Q 046694           86 KFFDEMQARNVKPTET  101 (118)
Q Consensus        86 ~~~~~m~~~g~~~~~~  101 (118)
                      ++++.+.+  ++|+..
T Consensus        92 ~y~~~lL~--ieP~n~  105 (152)
T 1pc2_A           92 KYVRGLLQ--TEPQNN  105 (152)
T ss_dssp             HHHHHHHH--HCTTCH
T ss_pred             HHHHHHHh--cCCCCH
Confidence            99999988  456433

>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=93.35  E-value=0.86  Score=30.86  Aligned_cols=75  Identities=13%  Similarity=0.188  Sum_probs=45.9

Q ss_pred             hHHHHHHHhcCCHHHHHHHhhhCCCC---CHhhHHHHHHHHHhcC--CHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhc
Q 046694            3 EPRLDFYTRTGRIDLANKIFDRLPVK---DSASWITLILGYGMLG--ELDVAINLFEAMREDGVEYYPVSHIGVLTACSL   77 (118)
Q Consensus         3 ~~ll~~~~~~~~~~~a~~~~~~m~~~---~~~~~~~li~~~~~~~--~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~   77 (118)
                      +.+|.-|...|+.++|.+.++++..|   ...+...+..+.-+.+  ..+.+.+++.++...|+-+.......+.+.+..
T Consensus       221 ~~lL~EY~~s~D~~EA~~ci~EL~~p~fhhe~V~~av~~aLE~~~~~~re~~~~LL~~L~~~glls~~q~~~Gf~~vl~~  300 (358)
T 3eiq_C          221 DMLLKEYLLSGDISEAEHCLKELEVPHFHHELVYEAIVMVLESTGESAFKMILDLLKSLWKSSTITIDQMKRGYERIYNE  300 (358)
T ss_dssp             HHHHHHHHHHCCHHHHHHHHHHHCCTTCHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHTTCSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhccCCCHHHHHHHHHHccCCcchHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHh
Confidence            45677777777777777777777755   2334445555555443  245677777777777666555554444444443

>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=93.08  E-value=1.1  Score=29.70  Aligned_cols=89  Identities=15%  Similarity=0.169  Sum_probs=58.4

Q ss_pred             hHHHHHHHhcCCHHHHHHHhhhCCCC---CHhhHHHHHHHHHhcCC--HHHHHHHHHHHHHcCCCccHHHHHHHHHHHhc
Q 046694            3 EPRLDFYTRTGRIDLANKIFDRLPVK---DSASWITLILGYGMLGE--LDVAINLFEAMREDGVEYYPVSHIGVLTACSL   77 (118)
Q Consensus         3 ~~ll~~~~~~~~~~~a~~~~~~m~~~---~~~~~~~li~~~~~~~~--~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~   77 (118)
                      +.+|.-|...|+.++|.+.++++..|   ...++..+..+.-+.++  .+.+.+++.++.+.|+-+.......+-+.+..
T Consensus       170 ~~lL~EY~~~~D~~EA~~ci~EL~~p~f~~e~V~~ai~~alE~~~~~~re~~~~LL~~L~~~~~ls~~q~~~Gf~~vl~~  249 (307)
T 2zu6_B          170 DMLLKEYLLSGDISEAEHCLKELEVPHFHHELVYEAIIMVLESTGESTFKMILDLLKSLWKSSTITVDQMKRGYERIYNE  249 (307)
T ss_dssp             HHHHHHHHHHCCHHHHHHHHHHHCCGGGHHHHHHHHHHHHHTCCSSHHHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCCHHHHHHHHHHcCCCcchHHHHHHHHHHHHccCChHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHh
Confidence            46788888889999999999998866   33455566666666543  57788888888877776655554444444433


Q ss_pred             CC----ChhhHHHHHHHH
Q 046694           78 GG----LVEKGKKFFDEM   91 (118)
Q Consensus        78 ~~----~~~~a~~~~~~m   91 (118)
                      ..    ++..|..++.++
T Consensus       250 l~Dl~lDiP~A~~~la~~  267 (307)
T 2zu6_B          250 IPDINLDVPHSYSVLERF  267 (307)
T ss_dssp             HHHHHHHCTTHHHHHHHH
T ss_pred             ccHhhcccccHHHHHHHH
Confidence            33    233455555554

>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=93.07  E-value=0.53  Score=32.07  Aligned_cols=64  Identities=11%  Similarity=-0.079  Sum_probs=49.9

Q ss_pred             HHHHHHhcCCHHHHHHHhhhCC--CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHH
Q 046694            5 RLDFYTRTGRIDLANKIFDRLP--VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIG   70 (118)
Q Consensus         5 ll~~~~~~~~~~~a~~~~~~m~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~   70 (118)
                      +-..+...|++++|...+++..  .|+...|..+-..+.-.|++++|.+.|++....  .|...+|..
T Consensus       283 lal~~l~~gd~d~A~~~l~rAl~Ln~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL--~P~~~t~~~  348 (372)
T 3ly7_A          283 KAVSALVKGKTDESYQAINTGIDLEMSWLNYVLLGKVYEMKGMNREAADAYLTAFNL--RPGANTLYW  348 (372)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCSHHHHHH
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCcChHHH
Confidence            3334455799999999999775  577777777778888899999999999998765  566666544

>2nsz_A Programmed cell death protein 4; PDCD4, tumor suppressor, translation, antitumor protein; 1.15A {Mus musculus} SCOP: a.118.1.14 PDB: 2kzt_B 2hm8_A 2ggf_A

Probab=92.76  E-value=0.78  Score=26.29  Aligned_cols=70  Identities=7%  Similarity=0.038  Sum_probs=49.5

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCC--hhhHHHHHHHHhhcCCCccHHH
Q 046694           32 SWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGL--VEKGKKFFDEMQARNVKPTETH  102 (118)
Q Consensus        32 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~--~~~a~~~~~~m~~~g~~~~~~t  102 (118)
                      ..+.++.-|...|+.++|.+.++++..-.. -...+..++..++-+.+.  .+...+++..+.+.|+.+....
T Consensus         9 ki~~ll~EY~~~~D~~Ea~~cl~eL~~p~f-~~e~V~~~i~~alE~~~~~~~e~~~~LL~~L~~~~~is~~q~   80 (129)
T 2nsz_A            9 EIDMLLKEYLLSGDISEAEHCLKELEVPHF-HHELVYEAIVMVLESTGESAFKMILDLLKSLWKSSTITIDQM   80 (129)
T ss_dssp             HHHHHHHHHHHHCCHHHHHHHHHHHTCGGG-HHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHTTCSCHHHH
T ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHhCCCcc-HHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHCCCcCHHHH
Confidence            456789999999999999999999863211 234556666667666542  4667888888877776554443

>2fu4_A Ferric uptake regulation protein; DNA binding domain, helix-turn-helix, DNA binding protein; 1.80A {Escherichia coli}

Probab=92.21  E-value=0.64  Score=24.04  Aligned_cols=63  Identities=5%  Similarity=0.002  Sum_probs=47.6

Q ss_pred             HHHHHcCCCccHHHHHHHHHHHhcCC-ChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           54 EAMREDGVEYYPVSHIGVLTACSLGG-LVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        54 ~~m~~~~~~p~~~~~~~ll~~~~~~~-~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      +.|++.|++++..- ..+++.+...+ ..-.+.++++.+.+.+...+..|.--.++.+.+.|-+.
T Consensus         6 ~~l~~~g~~~t~~r-~~IL~~l~~~~~~~~s~~el~~~l~~~~~~is~~TVyR~L~~L~~~Glv~   69 (83)
T 2fu4_A            6 TALKKAGLKVTLPR-LKILEVLQEPDNHHVSAEDLYKRLIDMGEEIGLATVYRVLNQFDDAGIVT   69 (83)
T ss_dssp             HHHHHTTCCCCHHH-HHHHHHHTSGGGSSBCHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTSEE
T ss_pred             HHHHHcCCCcCHHH-HHHHHHHHhCCCCCCCHHHHHHHHHHhCCCCCHhhHHHHHHHHHHCCCeE
Confidence            45677888877655 45667777665 56678899999988877778888888888888888653

>2ion_A PDCD4, programmed cell death 4, PDCD4; alpha-helical, antitumor protein; 1.57A {Mus musculus} SCOP: a.118.1.14 PDB: 2ios_A 2iol_A

Probab=92.11  E-value=1.1  Score=26.48  Aligned_cols=70  Identities=7%  Similarity=0.038  Sum_probs=49.1

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCC--hhhHHHHHHHHhhcCCCccHHH
Q 046694           32 SWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGL--VEKGKKFFDEMQARNVKPTETH  102 (118)
Q Consensus        32 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~--~~~a~~~~~~m~~~g~~~~~~t  102 (118)
                      ..+.++.-|...|+.++|.+.++++..-.. -...+..++..++-+.++  .+.+.+++..+.+.|+.+....
T Consensus        11 ki~~lL~EY~~~~D~~EA~~cl~EL~~p~f-~~e~V~~~i~~alE~~~~~~re~~~~LL~~L~~~~~is~~q~   82 (152)
T 2ion_A           11 EIDMLLKEYLLSGDISEAEHCLKELEVPHF-HHELVYEAIVMVLESTGESAFKMILDLLKSLWKSSTITIDQM   82 (152)
T ss_dssp             HHHHHHHHHHHHCCHHHHHHHHHHHTCGGG-HHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHTTCSCHHHH
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHhCCCcc-hHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHCCCcCHHHH
Confidence            456789999999999999999999863211 234556666667666432  4567788888877776554443

>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=92.09  E-value=0.79  Score=30.29  Aligned_cols=70  Identities=14%  Similarity=0.083  Sum_probs=55.6

Q ss_pred             chHHHHHHHhc-----CCHHHHHHHhhhCC--CC--CHhhHHHHHHHHHhc-CCHHHHHHHHHHHHHcCCC--ccHHHHH
Q 046694            2 IEPRLDFYTRT-----GRIDLANKIFDRLP--VK--DSASWITLILGYGML-GELDVAINLFEAMREDGVE--YYPVSHI   69 (118)
Q Consensus         2 ~~~ll~~~~~~-----~~~~~a~~~~~~m~--~~--~~~~~~~li~~~~~~-~~~~~a~~~~~~m~~~~~~--p~~~~~~   69 (118)
                      |..|...|.+.     |+.++|++.|++-.  .|  ++.++...-..++.. |+.+++.+.+++..+....  |+....+
T Consensus       202 ~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~~a~~~L~kAL~a~p~~~P~~~lan  281 (301)
T 3u64_A          202 WNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRAGFDEALDRALAIDPESVPHNKLLV  281 (301)
T ss_dssp             HHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHHHHHHHHHHHHHCCGGGCSSCHHHH
T ss_pred             HHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHHHHHHHHHHHHcCCCCCCCChhHHH
Confidence            56777788884     99999999999775  45  477888888888885 9999999999999988766  6654444


Q ss_pred             HH
Q 046694           70 GV   71 (118)
Q Consensus        70 ~l   71 (118)
                      ..
T Consensus       282 ~~  283 (301)
T 3u64_A          282 IL  283 (301)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=91.87  E-value=1.3  Score=26.91  Aligned_cols=50  Identities=24%  Similarity=0.331  Sum_probs=40.9

Q ss_pred             HHHHhcCCHHHHHHHhhhCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 046694            7 DFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMRE   58 (118)
Q Consensus         7 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   58 (118)
                      ..-...|+++.|.++.+++  .+...|..+-......|+++-|.++|.+..+
T Consensus        13 ~LAL~lg~l~~A~e~a~~l--~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D   62 (177)
T 3mkq_B           13 DLALEYGNLDAALDEAKKL--NDSITWERLIQEALAQGNASLAEMIYQTQHS   62 (177)
T ss_dssp             HHHHHTTCHHHHHHHHHHH--CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC
T ss_pred             HHHHhcCCHHHHHHHHHHh--CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC
Confidence            3446789999999998876  4667899999999999999999999988753

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=91.79  E-value=0.82  Score=24.36  Aligned_cols=56  Identities=7%  Similarity=0.001  Sum_probs=43.7

Q ss_pred             HHHHHHhcCC---HHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 046694            5 RLDFYTRTGR---IDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDG   60 (118)
Q Consensus         5 ll~~~~~~~~---~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~   60 (118)
                      +-.++...++   .++|..+|++..   ..++.....+-..+.+.|++++|...|+++.+..
T Consensus        12 ~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~   73 (93)
T 3bee_A           12 KATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSN   73 (93)
T ss_dssp             HHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            3344443443   789999998775   4477788888899999999999999999998763

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=91.25  E-value=1.6  Score=26.58  Aligned_cols=25  Identities=20%  Similarity=0.189  Sum_probs=20.7

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP   26 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~   26 (118)
                      |..|-....+.|+++-|++.|.+..
T Consensus        37 Wk~Lg~~AL~~gn~~lAe~cy~~~~   61 (177)
T 3mkq_B           37 WERLIQEALAQGNASLAEMIYQTQH   61 (177)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHhC
Confidence            6777888888888888888888776

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=91.07  E-value=2.2  Score=28.02  Aligned_cols=43  Identities=16%  Similarity=0.044  Sum_probs=18.6

Q ss_pred             HHHHHHhhhCC---CCCHhhHHHHHHHHHhcC--CHHHHHHHHHHHHH
Q 046694           16 DLANKIFDRLP---VKDSASWITLILGYGMLG--ELDVAINLFEAMRE   58 (118)
Q Consensus        16 ~~a~~~~~~m~---~~~~~~~~~li~~~~~~~--~~~~a~~~~~~m~~   58 (118)
                      ++|..+++++.   ..+...|+.--..+...+  +++++++.++.+..
T Consensus        50 ~~aL~~t~~~L~~nP~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~   97 (306)
T 3dra_A           50 ERALHITELGINELASHYTIWIYRFNILKNLPNRNLYDELDWCEEIAL   97 (306)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCcHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHH
Confidence            34444444432   123334444444444444  44444444444443

>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=90.67  E-value=2.7  Score=28.31  Aligned_cols=99  Identities=7%  Similarity=-0.054  Sum_probs=48.6

Q ss_pred             CHHHHHHHhhhCCC---CCHhhHHHHHHHHHhcCCHH--------HHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCC--
Q 046694           14 RIDLANKIFDRLPV---KDSASWITLILGYGMLGELD--------VAINLFEAMREDGVEYYPVSHIGVLTACSLGGL--   80 (118)
Q Consensus        14 ~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~~~~~--------~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~--   80 (118)
                      +.+++..+++++..   .|...|+--.-...+.|.++        ++++.++++.+... -|...|+-.-..+.+.+.  
T Consensus       140 ~~~~EL~~~~k~L~~dpkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp-~N~SAW~~R~~lL~~l~~~~  218 (349)
T 3q7a_A          140 DPVSEIEYIHGSLLPDPKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDG-RNNSAWGWRWYLRVSRPGAE  218 (349)
T ss_dssp             CCHHHHHHHHHHTSSCTTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHTTSTTCC
T ss_pred             ChHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhccccc
Confidence            45566666655542   24444443333333333333        66666666655422 255555555555555544  


Q ss_pred             -----hhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHcc
Q 046694           81 -----VEKGKKFFDEMQARNVKPTETHYACMVYLLIKYN  114 (118)
Q Consensus        81 -----~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g  114 (118)
                           ++++.+.+++..... +-|...|+-+-..+.+.|
T Consensus       219 ~~~~~~~eELe~~~~aI~~~-P~n~SaW~Ylr~Ll~~~~  256 (349)
T 3q7a_A          219 TSSRSLQDELIYILKSIHLI-PHNVSAWNYLRGFLKHFS  256 (349)
T ss_dssp             CCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             cchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcC
Confidence                 455556665555432 225566665555554444

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=90.51  E-value=1.7  Score=25.73  Aligned_cols=58  Identities=16%  Similarity=0.178  Sum_probs=48.1

Q ss_pred             HHHHHHhcCCHHHHHHHhhhC-C--CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC
Q 046694            5 RLDFYTRTGRIDLANKIFDRL-P--VKDSASWITLILGYGMLGELDVAINLFEAMREDGVE   62 (118)
Q Consensus         5 ll~~~~~~~~~~~a~~~~~~m-~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~   62 (118)
                      -|......|+-|+..++..++ .  .+++...-.+-.+|.+.|+..++.+++.+.=+.|++
T Consensus        97 ALd~lv~~~KkDqLdki~~~~l~n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~k  157 (172)
T 1wy6_A           97 ALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  157 (172)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHhccHhHHHHHHHHHhccCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhhH
Confidence            466777788888888998884 3  557777788889999999999999999999888865

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=89.49  E-value=2.4  Score=29.64  Aligned_cols=75  Identities=15%  Similarity=0.068  Sum_probs=58.7

Q ss_pred             CCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHH
Q 046694           13 GRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFD   89 (118)
Q Consensus        13 ~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~   89 (118)
                      ++.+.|..+|+...   ..+...|...++-..+.|+.+.|..+|++..     -....|...++-=...|+.+.+.++++
T Consensus       334 ~d~~~ar~ife~al~~~~~~~~~~~~yid~e~~~~~~~~aR~l~er~~-----k~~~lw~~~~~fE~~~G~~~~~r~v~~  408 (493)
T 2uy1_A          334 GSRATPYNIFSSGLLKHPDSTLLKEEFFLFLLRIGDEENARALFKRLE-----KTSRMWDSMIEYEFMVGSMELFRELVD  408 (493)
T ss_dssp             CCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHSC-----CBHHHHHHHHHHHHHHSCHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH-----HHHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            36999999998653   1234456667777788899999999999972     257778888887778899999999888


Q ss_pred             HHh
Q 046694           90 EMQ   92 (118)
Q Consensus        90 ~m~   92 (118)
                      +..
T Consensus       409 ~~~  411 (493)
T 2uy1_A          409 QKM  411 (493)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            874

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=89.34  E-value=6.4  Score=30.63  Aligned_cols=109  Identities=11%  Similarity=0.007  Sum_probs=79.2

Q ss_pred             HHHHhcCCHHHHHHHhhhCCCC--------------------------CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 046694            7 DFYTRTGRIDLANKIFDRLPVK--------------------------DSASWITLILGYGMLGELDVAINLFEAMREDG   60 (118)
Q Consensus         7 ~~~~~~~~~~~a~~~~~~m~~~--------------------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~   60 (118)
                      .+|..+|++++|..+|++-...                          -..-|..++..+-+.+.++.+.++-..-.+..
T Consensus       850 ~~~L~~ge~~~A~~~F~kaa~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~  929 (1139)
T 4fhn_B          850 LIYLKSKEAVKAVRCFKTTSLVLYSHTSQFAVLREFQEIAEKYHHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASK  929 (1139)
T ss_dssp             HHHHHTTCHHHHHHHHHTCCCSCTTCCCSCSSHHHHHHHHHTTTSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHC
T ss_pred             HHHHhcCCHHHHHHHHHHHhhhhcccchhhhhhcccccccccccccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhc
Confidence            4566899999999999876310                          11236778889999999998888877665432


Q ss_pred             -CC-cc--HHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           61 -VE-YY--PVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        61 -~~-p~--~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                       -. ++  ...|..+++.+.+.|++++|...+-.+.+...+  ......||...|+.|+++
T Consensus       930 ~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~r--~~cLr~LV~~lce~~~~~  988 (1139)
T 4fhn_B          930 ETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPLK--KSCLLDFVNQLTKQGKIN  988 (1139)
T ss_dssp             CSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSSC--HHHHHHHHHHHHHHCCHH
T ss_pred             cCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHHH--HHHHHHHHHHHHhCCChh
Confidence             12 22  236889999999999999999999888665443  456667777777777653

>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=88.92  E-value=1.9  Score=23.94  Aligned_cols=47  Identities=11%  Similarity=0.088  Sum_probs=37.1

Q ss_pred             CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHH
Q 046694           27 VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTA   74 (118)
Q Consensus        27 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~   74 (118)
                      .|++....+.+++|-+.+++..|.++|+-.+.. +.+...+|..+++-
T Consensus        42 VP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K-~~~~~~iY~~~lqE   88 (109)
T 1v54_E           42 VPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQE   88 (109)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCchhhHHHHHHH
Confidence            688999999999999999999999999998754 23334456665543

>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=88.48  E-value=4.2  Score=27.39  Aligned_cols=105  Identities=8%  Similarity=0.024  Sum_probs=75.2

Q ss_pred             HHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcC-CHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcC-C-Ch
Q 046694            8 FYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLG-ELDVAINLFEAMREDGVEYYPVSHIGVLTACSLG-G-LV   81 (118)
Q Consensus         8 ~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~-~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~-~-~~   81 (118)
                      ...+.+.-++|.++++++.   ..+...|+.-=..+...| .+++++++++.+....- -+...|+----.+.+. + ++
T Consensus        63 ~~~~~e~se~AL~lt~~~L~~nP~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nP-Kny~aW~hR~wlL~~l~~~~~  141 (349)
T 3q7a_A           63 IAAKEEKSERALELTEIIVRMNPAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNL-KSYQVWHHRLLLLDRISPQDP  141 (349)
T ss_dssp             HHHTTCCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTC-CCHHHHHHHHHHHHHHCCSCC
T ss_pred             HHHhCCCCHHHHHHHHHHHHhCchhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHhcCCCh
Confidence            3344556678999998875   347777887777777788 59999999999987642 2667777766666655 6 88


Q ss_pred             hhHHHHHHHHhhcCCCccHHHHHHHHHHHHHcc
Q 046694           82 EKGKKFFDEMQARNVKPTETHYACMVYLLIKYN  114 (118)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g  114 (118)
                      +++.++++++.+.. +-|...|+.---++.+.|
T Consensus       142 ~~EL~~~~k~L~~d-pkNy~AW~~R~wvl~~l~  173 (349)
T 3q7a_A          142 VSEIEYIHGSLLPD-PKNYHTWAYLHWLYSHFS  173 (349)
T ss_dssp             HHHHHHHHHHTSSC-TTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhc
Confidence            99999999998754 336777775544444444

>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=88.40  E-value=2.7  Score=25.10  Aligned_cols=97  Identities=16%  Similarity=0.188  Sum_probs=63.6

Q ss_pred             HHHHHHHhcCCH------HHHHHHhhhCC---CC----CHhhHHHHHHHH---HhcCCHHHHHHHHHHHHHcCCCccHHH
Q 046694            4 PRLDFYTRTGRI------DLANKIFDRLP---VK----DSASWITLILGY---GMLGELDVAINLFEAMREDGVEYYPVS   67 (118)
Q Consensus         4 ~ll~~~~~~~~~------~~a~~~~~~m~---~~----~~~~~~~li~~~---~~~~~~~~a~~~~~~m~~~~~~p~~~~   67 (118)
                      ..+...-+.|+.      ++.+++|++-.   .|    ....|--+.--|   ...+++++|.++|+.+++..-+. ...
T Consensus        18 ~yl~llE~~g~p~~d~~l~rlrd~YerAia~~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~~hKkF-AKi   96 (161)
T 4h7y_A           18 SLLLKLEKNSVPLSDALLNKLIGRYSQAIEALPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARANCKKF-AFV   96 (161)
T ss_dssp             HHHHHHHHHTCSCCHHHHHHHHHHHHHHHHHSCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHHHCTTB-HHH
T ss_pred             HHHHHHHHcCCCchhhHHHHHHHHHHHHHHcCCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhHHH-HHH
Confidence            345555566887      88888887543   22    111222222111   22378999999999997764445 566


Q ss_pred             HHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHH
Q 046694           68 HIGVLTACSLGGLVEKGKKFFDEMQARNVKPTET  101 (118)
Q Consensus        68 ~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~  101 (118)
                      |...-.-=.+.|++..|.+++.+-...+..|...
T Consensus        97 wi~~AqFEiRqgnl~kARkILg~AiG~~~k~~~~  130 (161)
T 4h7y_A           97 HISFAQFELSQGNVKKSKQLLQKAVERGAVPLEM  130 (161)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTTCBCHHH
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHhccCCCcHHH
Confidence            6666666668999999999999998888765543

>3eyy_A Putative iron uptake regulatory protein; NUR, nickel-uptake regulator, D-domain, dimerization domain, DB-domain, DNA-binding domain; 2.40A {Streptomyces coelicolor}

Probab=87.83  E-value=2.4  Score=24.61  Aligned_cols=61  Identities=15%  Similarity=0.076  Sum_probs=36.8

Q ss_pred             HHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHcccc
Q 046694           54 EAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQK  116 (118)
Q Consensus        54 ~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~  116 (118)
                      +.+++.|++++..= ..+++.+...+ .-.|.++++.+.+.+...+..|.---++.+.+.|-+
T Consensus         8 ~~L~~~g~r~T~qR-~~Il~~l~~~~-h~ta~ei~~~l~~~~~~is~~TVYR~L~~L~e~Glv   68 (145)
T 3eyy_A            8 SDLRQRGYRLTPQR-QLVLEAVDTLE-HATPDDILGEVRKTASGINISTVYRTLELLEELGLV   68 (145)
T ss_dssp             HHHHTTTCCCCHHH-HHHHHHHHHHS-SBCHHHHHHHHHTTCTTCCHHHHHHHHHHHHHHTSE
T ss_pred             HHHHHcCCCcCHHH-HHHHHHHHhcC-CCCHHHHHHHHHhhCCCCCHhHHHHHHHHHHHCCcE
Confidence            34556677765432 22233333444 557788888887777666766666666777666644

>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=86.35  E-value=4.7  Score=27.30  Aligned_cols=79  Identities=6%  Similarity=0.019  Sum_probs=54.8

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCC--hhhHHHHHHHHhhcCCCccHHHHHHHHH
Q 046694           31 ASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGL--VEKGKKFFDEMQARNVKPTETHYACMVY  108 (118)
Q Consensus        31 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~--~~~a~~~~~~m~~~g~~~~~~t~~~li~  108 (118)
                      ...+.++.-|...++.++|.++++++..-.+. ...+..++..++-+.++  .+...+++..+.+.|+.+.......+.+
T Consensus       218 kki~~lL~EY~~s~D~~EA~~ci~EL~~p~fh-he~V~~av~~aLE~~~~~~re~~~~LL~~L~~~glls~~q~~~Gf~~  296 (358)
T 3eiq_C          218 KEIDMLLKEYLLSGDISEAEHCLKELEVPHFH-HELVYEAIVMVLESTGESAFKMILDLLKSLWKSSTITIDQMKRGYER  296 (358)
T ss_dssp             HHHHHHHHHHHHHCCHHHHHHHHHHHCCTTCH-HHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHTTCSCHHHHHHHHHH
T ss_pred             HHHHHHHHHhccCCCHHHHHHHHHHccCCcch-HHHHHHHHHHHHccCchHHHHHHHHHHHHHHHCCCCCHHHHHHHHHH
Confidence            35688999999999999999999999743222 34556666666666543  4567888888888777655554444444


Q ss_pred             HH
Q 046694          109 LL  110 (118)
Q Consensus       109 ~~  110 (118)
                      .+
T Consensus       297 vl  298 (358)
T 3eiq_C          297 IY  298 (358)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>3l6a_A Eukaryotic translation initiation factor 4 gamma; C-terminal region, MA2 domain, W2 domain, EIF4G2, EIF family translation; HET: MES PG4; 2.00A {Homo sapiens}

Probab=85.93  E-value=6.2  Score=26.71  Aligned_cols=77  Identities=13%  Similarity=0.109  Sum_probs=53.6

Q ss_pred             hHHHHHHHhcCCHHHHHHHhhhCCCCC----HhhHHHHHHHHHhcC-CHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhc
Q 046694            3 EPRLDFYTRTGRIDLANKIFDRLPVKD----SASWITLILGYGMLG-ELDVAINLFEAMREDGVEYYPVSHIGVLTACSL   77 (118)
Q Consensus         3 ~~ll~~~~~~~~~~~a~~~~~~m~~~~----~~~~~~li~~~~~~~-~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~   77 (118)
                      .++|.-|...|++++|...++++..|+    ...+..+..++-+.. ..+.+-.++..+...|+-+.......+...+..
T Consensus        16 ~~ii~EY~~~~D~~Ea~~~l~eL~~p~~~~~~~v~~~i~~aLer~~~~re~~~~LL~~L~~~~~ls~~~~~~Gf~~lle~   95 (364)
T 3l6a_A           16 ETVVTEYLNSGNANEAVNGVREMRAPKHFLPEMLSKVIILSLDRSDEDKEKASSLISLLKQEGIATSDNFMQAFLNVLDQ   95 (364)
T ss_dssp             HHHHHHHHHHCCHHHHHHHHHHHTCCGGGHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHhCCchhhHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHhh
Confidence            578999999999999999999998774    335555555554432 257778888888887776555555555554444


Q ss_pred             CC
Q 046694           78 GG   79 (118)
Q Consensus        78 ~~   79 (118)
                      ..
T Consensus        96 l~   97 (364)
T 3l6a_A           96 CP   97 (364)
T ss_dssp             HH
T ss_pred             Ch
Confidence            43

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=85.71  E-value=0.061  Score=38.39  Aligned_cols=78  Identities=10%  Similarity=0.129  Sum_probs=52.1

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCCh
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLV   81 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~   81 (118)
                      |+.|-.+..+.+++.+|++.|=  +..|...|..+|.+..+.|.+++.++.+...++..-+|  ..=+.++-+|++.+++
T Consensus        57 Ws~LgkAqL~~~~v~eAIdsyI--kA~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~ke~--~IDteLi~ayAk~~rL  132 (624)
T 3lvg_A           57 WSQLAKAQLQKGMVKEAIDSYI--KADDPSSYMEVVQAANTSGNWEELVKYLQMARKKARES--YVETELIFALAKTNRL  132 (624)
T ss_dssp             SSSHHHHTTTSSSCTTTTTSSC--CCSCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTCCST--TTTHHHHHHHHTSCSS
T ss_pred             HHHHHHHHHccCchHHHHHHHH--hCCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhccc--ccHHHHHHHHHhhCcH
Confidence            5666666666676666666552  34566778888888888888888888777666543333  3345677777777666


Q ss_pred             hh
Q 046694           82 EK   83 (118)
Q Consensus        82 ~~   83 (118)
                      .+
T Consensus       133 ~e  134 (624)
T 3lvg_A          133 AE  134 (624)
T ss_dssp             ST
T ss_pred             HH
Confidence            54

>2fe3_A Peroxide operon regulator; oxidative stress regulator, DNA binding protein; 1.75A {Bacillus subtilis} PDB: 3f8n_A 2rgv_A*

Probab=85.46  E-value=2.2  Score=24.77  Aligned_cols=62  Identities=11%  Similarity=0.141  Sum_probs=36.1

Q ss_pred             HHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHcccc
Q 046694           54 EAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQK  116 (118)
Q Consensus        54 ~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~  116 (118)
                      +.|++.|++++..=. .+++.+...+..-.|.++++.+.+.+...+..|.---++.+.+.|-+
T Consensus        11 ~~l~~~g~r~T~qR~-~Il~~L~~~~~~~sa~ei~~~l~~~~~~is~aTVYR~L~~L~e~Glv   72 (145)
T 2fe3_A           11 ETLKETGVRITPQRH-AILEYLVNSMAHPTADDIYKALEGKFPNMSVATVYNNLRVFRESGLV   72 (145)
T ss_dssp             HHHHHTTCCCCHHHH-HHHHHHHHCSSCCCHHHHHHHHGGGCTTCCHHHHHHHHHHHHHTTSE
T ss_pred             HHHHHcCCCCCHHHH-HHHHHHHhCCCCCCHHHHHHHHHHhCCCCChhhHHHHHHHHHHCCCE
Confidence            345566666554322 23334444455566777777776666666666666666666666644

>2rg8_A Programmed cell death protein 4; MA3 domain, heat repeats, anti-oncogene, apoptosis, cell cycle, cytoplasm, nucleus, phosphorylation, polymorphism; 1.80A {Homo sapiens} PDB: 2kzt_A

Probab=85.29  E-value=3.6  Score=24.56  Aligned_cols=26  Identities=15%  Similarity=0.314  Sum_probs=19.2

Q ss_pred             hHHHHHHHhcCCHHHHHHHhhhCCCC
Q 046694            3 EPRLDFYTRTGRIDLANKIFDRLPVK   28 (118)
Q Consensus         3 ~~ll~~~~~~~~~~~a~~~~~~m~~~   28 (118)
                      ..+|.-|...++.++|...++++..|
T Consensus        14 ~~ii~EYf~~~D~~Ea~~~l~eL~~p   39 (165)
T 2rg8_A           14 TPIIQEYFEHGDTNEVAEMLRDLNLG   39 (165)
T ss_dssp             HHHHHHHHHHCCHHHHHHHHHHHTCS
T ss_pred             HHHHHHHHcCCCHHHHHHHHHHhCCc
Confidence            35677777778888888888777755

>1mzb_A Ferric uptake regulation protein; ferric uptake regulator, iron, DTXR, gene regulation; 1.80A {Pseudomonas aeruginosa} SCOP: a.4.5.42

Probab=85.08  E-value=3.7  Score=23.41  Aligned_cols=61  Identities=5%  Similarity=-0.023  Sum_probs=38.0

Q ss_pred             HHHHcCCCccHHHHHHHHHHHhcCC-ChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHcccc
Q 046694           55 AMREDGVEYYPVSHIGVLTACSLGG-LVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQK  116 (118)
Q Consensus        55 ~m~~~~~~p~~~~~~~ll~~~~~~~-~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~  116 (118)
                      .|++.|++++..=. .+++.+...+ ..-.|.++++.+.+.+...+..|.---++.+.+.|-+
T Consensus         8 ~l~~~g~r~T~qR~-~Il~~L~~~~~~~~sa~ei~~~l~~~~~~is~aTVYR~L~~L~e~Glv   69 (136)
T 1mzb_A            8 ELRKAGLKVTLPRV-KILQMLDSAEQRHMSAEDVYKALMEAGEDVGLATVYRVLTQFEAAGLV   69 (136)
T ss_dssp             HHHHTTCCCCHHHH-HHHHHHHCC-CCSBCHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTSE
T ss_pred             HHHHCCCCCCHHHH-HHHHHHHhCCCCCCCHHHHHHHHHhhCCCCCHHHHHHHHHHHHHCCcE
Confidence            35667776654332 3344445555 5667888888887777666777766667777766644

>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=84.90  E-value=6.5  Score=26.00  Aligned_cols=73  Identities=7%  Similarity=0.034  Sum_probs=50.4

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCC--hhhHHHHHHHHhhcCCCccHHHHHH
Q 046694           32 SWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGL--VEKGKKFFDEMQARNVKPTETHYAC  105 (118)
Q Consensus        32 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~--~~~a~~~~~~m~~~g~~~~~~t~~~  105 (118)
                      ..+.++.-|...|+.++|.+.++++..-... ...+..++..++-+.++  .+...+++..+.+.|+.+.......
T Consensus       168 ki~~lL~EY~~~~D~~EA~~ci~EL~~p~f~-~e~V~~ai~~alE~~~~~~re~~~~LL~~L~~~~~ls~~q~~~G  242 (307)
T 2zu6_B          168 EIDMLLKEYLLSGDISEAEHCLKELEVPHFH-HELVYEAIIMVLESTGESTFKMILDLLKSLWKSSTITVDQMKRG  242 (307)
T ss_dssp             HHHHHHHHHHHHCCHHHHHHHHHHHCCGGGH-HHHHHHHHHHHHTCCSSHHHHHHHHHHHHHHHHCSSCHHHHHHH
T ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHcCCCcch-HHHHHHHHHHHHccCChHHHHHHHHHHHHHHHCCCCCHHHHHHH
Confidence            4568899999999999999999999632222 34556666667666543  4567788888877776554444333

>3ygs_P Procaspase 9; apoptosis, caspase activation, caspase recruitment, recognition complex; 2.50A {Homo sapiens} SCOP: a.77.1.3

Probab=84.66  E-value=2.3  Score=22.99  Aligned_cols=37  Identities=22%  Similarity=0.134  Sum_probs=20.9

Q ss_pred             CHHHHHHHhhhCCCCCHhhHHHHHHHHHhcCCHHHHH
Q 046694           14 RIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAI   50 (118)
Q Consensus        14 ~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~   50 (118)
                      ..++|.++++.++.++...|..++.++...|...-|.
T Consensus        52 ~~~~ar~Lld~L~~rG~~Af~~F~~aL~et~~~~La~   88 (97)
T 3ygs_P           52 RRDQARQLIIDLETRGSQALPLFISCLEDTGQDMLAS   88 (97)
T ss_dssp             HHHHHHHHHHHHTTSCTTHHHHHHHHHHTTTCHHHHH
T ss_pred             hHHHHHHHHHHHHHcChHHHHHHHHHHHHcCcHHHHH
Confidence            4555666666666555556666666665555544443

>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=84.35  E-value=4.5  Score=23.72  Aligned_cols=46  Identities=11%  Similarity=0.090  Sum_probs=36.8

Q ss_pred             CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHH
Q 046694           27 VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLT   73 (118)
Q Consensus        27 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~   73 (118)
                      .|+.....+.+++|-+.+++..|.++|+-.+.. ..+...+|-.+++
T Consensus        85 VPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K-~~~~~~iY~y~lq  130 (152)
T 2y69_E           85 VPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQ  130 (152)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHh-cCCchhhHHHHHH
Confidence            578899999999999999999999999998754 3334555666554

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=84.07  E-value=9.1  Score=28.65  Aligned_cols=111  Identities=9%  Similarity=-0.073  Sum_probs=63.4

Q ss_pred             HHHHHHhcCC-HHHHHHHhhhCCC--CCHh--hHHHHHHHHHhcC-CHHHHHHHHHHHHH------cCCCccH-------
Q 046694            5 RLDFYTRTGR-IDLANKIFDRLPV--KDSA--SWITLILGYGMLG-ELDVAINLFEAMRE------DGVEYYP-------   65 (118)
Q Consensus         5 ll~~~~~~~~-~~~a~~~~~~m~~--~~~~--~~~~li~~~~~~~-~~~~a~~~~~~m~~------~~~~p~~-------   65 (118)
                      |+..+...++ ++.|..+|+++..  |...  ....+|..+.+.+ +=-+|.++..+..+      ...++..       
T Consensus       254 Ll~~~~~t~~~~~~a~~~le~L~~~~p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~~~~~~  333 (754)
T 4gns_B          254 LKSFIAITPSLVDFTIDYLKGLTKKDPIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDADSARLM  333 (754)
T ss_dssp             HHHHHHTCGGGHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHHHHHHH
T ss_pred             HHHHHcccccHHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhccccccccccc
Confidence            4445555666 5889999988763  3222  2233344333333 22233333333321      1122111       


Q ss_pred             ----HHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCc-cHHHHHHHHHHHHHccccc
Q 046694           66 ----VSHIGVLTACSLGGLVEKGKKFFDEMQARNVKP-TETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        66 ----~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~-~~~t~~~li~~~~~~g~~~  117 (118)
                          .....-.+-|...|+++.|.++-++-..  +.| +..||-.|..+|.+.|+++
T Consensus       334 ~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~--~aPseF~tW~~La~vYi~l~d~e  388 (754)
T 4gns_B          334 NCMSDLLNIQTNFLLNRGDYELALGVSNTSTE--LALDSFESWYNLARCHIKKEEYE  388 (754)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCSSCHHHHHHHHHHHHHTTCHH
T ss_pred             CcchHHHHHHHHHHhccCcHHHHHHHHHHHHh--cCchhhHHHHHHHHHHHHhccHH
Confidence                1222224445578999999999888755  345 5899999999999999876

>2w57_A Ferric uptake regulation protein; gene regulation, transcription regulation, transport, iron, repressor, DNA-binding, transcription; 2.60A {Vibrio cholerae}

Probab=84.07  E-value=4.5  Score=23.55  Aligned_cols=62  Identities=5%  Similarity=-0.004  Sum_probs=40.2

Q ss_pred             HHHHHcCCCccHHHHHHHHHHHhcCC-ChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHcccc
Q 046694           54 EAMREDGVEYYPVSHIGVLTACSLGG-LVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQK  116 (118)
Q Consensus        54 ~~m~~~~~~p~~~~~~~ll~~~~~~~-~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~  116 (118)
                      +.|++.|++++..=. .+++.+...+ ..-.|.++++.+.+.+...+..|.---++.+.+.|-+
T Consensus         6 ~~l~~~g~r~T~qR~-~Il~~L~~~~~~h~sa~ei~~~l~~~~~~is~aTVYR~L~~L~e~Glv   68 (150)
T 2w57_A            6 QALKDAGLKVTLPRL-KILEVLQQPECQHISAEELYKKLIDLGEEIGLATVYRVLNQFDDAGIV   68 (150)
T ss_dssp             HHHHHTTCCCCHHHH-HHHHHHTSGGGSSEEHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTSE
T ss_pred             HHHHHcCCCCCHHHH-HHHHHHHhCCCCCCCHHHHHHHHHHhCCCCCHHHHHHHHHHHHHCCcE
Confidence            346667777654332 3344555555 5667888888887777677777776777777777654

>4ets_A Ferric uptake regulation protein; metal binding protein, transcription factor; 2.10A {Campylobacter jejuni subsp}

Probab=83.87  E-value=4.9  Score=23.79  Aligned_cols=70  Identities=14%  Similarity=0.174  Sum_probs=46.6

Q ss_pred             HHHHHHHHHH-HHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhc--CCCccHHHHHHHHHHHHHcccc
Q 046694           46 LDVAINLFEA-MREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQAR--NVKPTETHYACMVYLLIKYNQK  116 (118)
Q Consensus        46 ~~~a~~~~~~-m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~--g~~~~~~t~~~li~~~~~~g~~  116 (118)
                      .+.+++-+.+ +++.|++++.. =..+++.+...+..-.|.++++.+.+.  +...+..|.---++.+.+.|-+
T Consensus        13 ~~~~~~~~~~~L~~~g~r~T~q-R~~IL~~L~~~~~h~sA~eI~~~l~~~~~~~~is~aTVYRtL~~L~e~Glv   85 (162)
T 4ets_A           13 YDVLLERFKKILRQGGLKYTKQ-REVLLKTLYHSDTHYTPESLYMEIKQAEPDLNVGIATVYRTLNLLEEAEMV   85 (162)
T ss_dssp             HHHHHHHHHHHHHHHTCCCCHH-HHHHHHHHHSCCSCBCHHHHHHHHHHHCGGGCCCHHHHHHHHHHHHHTTSE
T ss_pred             HHHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHhCCCCCCHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHHCCCE
Confidence            3444544444 45678877543 244566667777777888888888777  6666777766667777777754

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=83.84  E-value=3.3  Score=28.47  Aligned_cols=61  Identities=13%  Similarity=0.041  Sum_probs=51.6

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHc--CCCccHHHHHHHHHHHhcCCChhhHHHHHHHHh
Q 046694           32 SWITLILGYGMLGELDVAINLFEAMRED--GVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQ   92 (118)
Q Consensus        32 ~~~~li~~~~~~~~~~~a~~~~~~m~~~--~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~   92 (118)
                      +...+-.-|.+.|+.++|.++|.+++..  +..--...+...++.+...+++..+.....+..
T Consensus       133 ~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~  195 (429)
T 4b4t_R          133 AWINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAVN  195 (429)
T ss_dssp             CCHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            5667888899999999999999999865  333456788889999999999999999998873

>3mwm_A ZUR, putative metal uptake regulation protein; FUR, regulatory metal, graded transcription regulation, transcription; 2.40A {Streptomyces coelicolor}

Probab=83.32  E-value=3.2  Score=23.90  Aligned_cols=43  Identities=9%  Similarity=-0.060  Sum_probs=21.0

Q ss_pred             HHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHcc
Q 046694           72 LTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYN  114 (118)
Q Consensus        72 l~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g  114 (118)
                      ++.+...+..-.|.++++.+.+.+...+..|.---++.+.+.|
T Consensus        20 l~~L~~~~~h~sa~eI~~~l~~~~~~is~aTVYR~L~~L~e~G   62 (139)
T 3mwm_A           20 SAALQEVEEFRSAQELHDMLKHKGDAVGLTTVYRTLQSLADAG   62 (139)
T ss_dssp             HHHHTTCSSCEEHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHhCCCCCCHHHHHHHHHHhCCCCCHHHHHHHHHHHHHCC
Confidence            3444444444455555555555444445444444445554444

>3l6a_A Eukaryotic translation initiation factor 4 gamma; C-terminal region, MA2 domain, W2 domain, EIF4G2, EIF family translation; HET: MES PG4; 2.00A {Homo sapiens}

Probab=83.06  E-value=6.2  Score=26.73  Aligned_cols=79  Identities=11%  Similarity=0.091  Sum_probs=47.7

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCC-ChhhHHHHHHHHhhcCCCccHHHHHHHHHH
Q 046694           31 ASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGG-LVEKGKKFFDEMQARNVKPTETHYACMVYL  109 (118)
Q Consensus        31 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~-~~~~a~~~~~~m~~~g~~~~~~t~~~li~~  109 (118)
                      ..-..+|.-|...|++++|.+.++++..-..--...++..+..++-+.. .-+.+-.++..+...|+.+.......+...
T Consensus        13 k~~~~ii~EY~~~~D~~Ea~~~l~eL~~p~~~~~~~v~~~i~~aLer~~~~re~~~~LL~~L~~~~~ls~~~~~~Gf~~l   92 (364)
T 3l6a_A           13 KLTETVVTEYLNSGNANEAVNGVREMRAPKHFLPEMLSKVIILSLDRSDEDKEKASSLISLLKQEGIATSDNFMQAFLNV   92 (364)
T ss_dssp             HHHHHHHHHHHHHCCHHHHHHHHHHHTCCGGGHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHhCCchhhHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHH
Confidence            3567899999999999999999999863110001344444444444332 134566777777766665444444443333

>2yru_A Steroid receptor RNA activator 1; SRAP, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus}

Probab=82.49  E-value=3.4  Score=23.37  Aligned_cols=64  Identities=8%  Similarity=-0.057  Sum_probs=42.2

Q ss_pred             hHHHHHHHHHhcCC---HHHH----HHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcC
Q 046694           32 SWITLILGYGMLGE---LDVA----INLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARN   95 (118)
Q Consensus        32 ~~~~li~~~~~~~~---~~~a----~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g   95 (118)
                      ++..++..|...-.   .+++    .-+|+++.+..+.|++..--.-|-.+...++++.|.+++-.+....
T Consensus        21 ~l~~~l~~~~~~~~k~~~~D~~KRL~~LfdkLn~~~Ls~~v~~~L~~l~~al~~~dy~~A~~ih~~l~t~~   91 (118)
T 2yru_A           21 PLEQALEDCHGHTKKQVCDDISRRLALLREQWAGGKLSIPVKKRMALLVQELLHHQWDAADDIHRSLMVDH   91 (118)
T ss_dssp             HHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHTCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCc
Confidence            45555555433321   2333    3456666777787777666666777788899999999998885533

>2fe3_A Peroxide operon regulator; oxidative stress regulator, DNA binding protein; 1.75A {Bacillus subtilis} PDB: 3f8n_A 2rgv_A*

Probab=82.40  E-value=5.3  Score=23.08  Aligned_cols=69  Identities=12%  Similarity=0.027  Sum_probs=48.7

Q ss_pred             CHHHHHHHhhhCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChh
Q 046694           14 RIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVE   82 (118)
Q Consensus        14 ~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~   82 (118)
                      ..+.+.+.+.+-..+....=..++..+...+.+-.|.++++.+++.+...+..|.-.-|+.+.+.|-+.
T Consensus         5 ~~~~~~~~l~~~g~r~T~qR~~Il~~L~~~~~~~sa~ei~~~l~~~~~~is~aTVYR~L~~L~e~Glv~   73 (145)
T 2fe3_A            5 ELKEALETLKETGVRITPQRHAILEYLVNSMAHPTADDIYKALEGKFPNMSVATVYNNLRVFRESGLVK   73 (145)
T ss_dssp             HHHHHHHHHHHTTCCCCHHHHHHHHHHHHCSSCCCHHHHHHHHGGGCTTCCHHHHHHHHHHHHHTTSEE
T ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHhCCCCCCHHHHHHHHHHhCCCCChhhHHHHHHHHHHCCCEE
Confidence            345555556554433444455667777777778889999999988877778888877888888877664

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=82.02  E-value=5  Score=26.13  Aligned_cols=68  Identities=12%  Similarity=-0.021  Sum_probs=47.7

Q ss_pred             HHHHhcCCHHHHHHHhhh-CC-C-CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCccHHHHHHHHHH
Q 046694            7 DFYTRTGRIDLANKIFDR-LP-V-KDSASWITLILGYGMLGELDVAINLFEAMREDG--VEYYPVSHIGVLTA   74 (118)
Q Consensus         7 ~~~~~~~~~~~a~~~~~~-m~-~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~--~~p~~~~~~~ll~~   74 (118)
                      ....+.|++++|+.-... ++ . .|...-..++..+|-.|+|+.|.+-++-..+..  ..|....|..+|++
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 KNALSEGQLQQALELLIEAIKASPKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRHLVKA   77 (273)
T ss_dssp             HHHTTTTCHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHH
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCchhhHHHHHHHHHHHH
Confidence            456678888888776653 33 3 388888889999999999999998888876542  22334456555554

>2xig_A Ferric uptake regulation protein; hpfur, transcription, homeostasis; HET: CIT; 1.85A {Helicobacter pylori}

Probab=82.02  E-value=4.7  Score=23.48  Aligned_cols=62  Identities=10%  Similarity=0.120  Sum_probs=36.3

Q ss_pred             HHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHcccc
Q 046694           54 EAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQK  116 (118)
Q Consensus        54 ~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~  116 (118)
                      +.+++.|++++..=- .+++.+...+..-.|.++++.+.+.+...+..|.---++.+.+.|-+
T Consensus        16 ~~l~~~g~r~T~qR~-~IL~~l~~~~~~~sa~ei~~~l~~~~~~is~aTVYR~L~~L~e~Glv   77 (150)
T 2xig_A           16 MSIKKNGLKNSKQRE-EVVSVLYRSGTHLSPEEITHSIRQKDKNTSISSVYRILNFLEKENFI   77 (150)
T ss_dssp             HHHHHCC--CHHHHH-HHHHHHHHCSSCBCHHHHHHHHHHHSTTCCHHHHHHHHHHHHHTTSE
T ss_pred             HHHHHcCCCCCHHHH-HHHHHHHhCCCCCCHHHHHHHHHHhCCCCCHhhHHHHHHHHHHCCcE
Confidence            345666766543322 33444445555667777777777666666666666666666666644

>2o03_A Probable zinc uptake regulation protein FURB; DNA-binding, helix-turn-helix, zinc binding, GE regulation; 2.70A {Mycobacterium tuberculosis}

Probab=81.17  E-value=3.7  Score=23.28  Aligned_cols=46  Identities=20%  Similarity=0.226  Sum_probs=22.4

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCCh
Q 046694           36 LILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLV   81 (118)
Q Consensus        36 li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~   81 (118)
                      ++..+...+.+-.|.++++.+++.+...+..|.-..|+.+.+.|-+
T Consensus        16 Il~~l~~~~~~~sa~ei~~~l~~~~~~is~~TVYR~L~~L~e~Glv   61 (131)
T 2o03_A           16 ISTLLETLDDFRSAQELHDELRRRGENIGLTTVYRTLQSMASSGLV   61 (131)
T ss_dssp             HHHHHHHCCSCEEHHHHHHHHHHTTCCCCHHHHHHHHHHHHTTTSE
T ss_pred             HHHHHHhCCCCCCHHHHHHHHHHhCCCCCHhhHHHHHHHHHHCCCE
Confidence            3444444444555555555555554444444444444554444443

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=80.76  E-value=6.7  Score=23.16  Aligned_cols=71  Identities=8%  Similarity=0.045  Sum_probs=48.5

Q ss_pred             CHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCC---ChhhHHHHHHHHhhcCCCc--cHHHHHHHHHHHHHccccc
Q 046694           45 ELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGG---LVEKGKKFFDEMQARNVKP--TETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        45 ~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~---~~~~a~~~~~~m~~~g~~~--~~~t~~~li~~~~~~g~~~  117 (118)
                      ....+.+-|.+-.+.|. ++..+-...--++++.+   +++++..++++..+.. .|  ....+-.|--+|.+.|+.+
T Consensus        13 ~l~~~~~~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~   88 (152)
T 1pc2_A           13 DLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYE   88 (152)
T ss_dssp             HHHHHHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHH
T ss_pred             HHHHHHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHH
Confidence            35566666776666554 67777777777788888   6779999999997765 34  3444445556667777654

>3esl_A Checkpoint serine/threonine-protein kinase BUB1; mitotic spindle checkpoint, TPR motif, all-alpha domain, MAD3-like domain; HET: NHE; 1.74A {Saccharomyces cerevisiae}

Probab=80.65  E-value=8  Score=24.02  Aligned_cols=58  Identities=12%  Similarity=0.106  Sum_probs=48.5

Q ss_pred             cCCHHHHHHHHHHHHHcCCCc-cHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccH
Q 046694           43 LGELDVAINLFEAMREDGVEY-YPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTE  100 (118)
Q Consensus        43 ~~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~  100 (118)
                      .+...++.++|..|...|+-- -..-|-..-..+...|++++|.++|+.=.+.+-+|-.
T Consensus        92 ~~~~~~p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~GI~~~A~P~~  150 (202)
T 3esl_A           92 SNNFHESENTFKYMFNKGIGTKLSLFYEEFSKLLENAQFFLEAKVLLELGAENNCRPYN  150 (202)
T ss_dssp             TTCHHHHHHHHHHHHHHTSSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBSHH
T ss_pred             ccccCCHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCccHH
Confidence            455889999999999988765 4667888888889999999999999998888877743

>1ug3_A EIF4GI, eukaryotic protein synthesis initiation factor 4G; heat repeat, translation; 2.24A {Homo sapiens} SCOP: a.118.1.14 a.118.1.14

Probab=80.61  E-value=2.6  Score=28.15  Aligned_cols=69  Identities=12%  Similarity=0.136  Sum_probs=43.3

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCC-ChhhHHHHHHHHhhcCCCccHH
Q 046694           32 SWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGG-LVEKGKKFFDEMQARNVKPTET  101 (118)
Q Consensus        32 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~-~~~~a~~~~~~m~~~g~~~~~~  101 (118)
                      ....++.-|...|+.++|.+.++++..-... ...+..++..++-+.. .-+.+-+++..+.+.|+.+...
T Consensus        13 ~~~~ll~Ey~~~~d~~Ea~~ci~el~~p~~~-~~~v~~~i~~~le~~~~~re~~~~Ll~~L~~~~~is~~~   82 (339)
T 1ug3_A           13 KSKAIIEEYLHLNDMKEAVQCVQELASPSLL-FIFVRHGVESTLERSAIAREHMGQLLHQLLCAGHLSTAQ   82 (339)
T ss_dssp             HHHHHHHHHHHHCCHHHHHHHHHTTCCGGGH-HHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHTTSSCHHH
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHcCCcccH-HHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHCCCCCHHH
Confidence            3567899999999999999999998632221 2334444444444322 2345667777776666544433

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=80.44  E-value=6.1  Score=22.55  Aligned_cols=85  Identities=13%  Similarity=-0.012  Sum_probs=52.8

Q ss_pred             cCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHH---HHHHHHHHHHcCCCc--cHHHHHHHHHHHhcCCChhh
Q 046694           12 TGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDV---AINLFEAMREDGVEY--YPVSHIGVLTACSLGGLVEK   83 (118)
Q Consensus        12 ~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~---a~~~~~~m~~~~~~p--~~~~~~~ll~~~~~~~~~~~   83 (118)
                      ...+..+++-|++-.   .++..+--.+--++.++.....   ++.++.++.+.+ .|  .....--+--++.+.|++++
T Consensus        14 ~~~l~~~~~~y~~e~~~~~~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~-~p~~~Rd~lY~LAvg~yklg~Y~~   92 (126)
T 1nzn_A           14 VEDLLKFEKKFQSEKAAGSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEK   92 (126)
T ss_dssp             HHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS-CHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHHhccCCCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHHhhhHHH
Confidence            334445555554332   2444444445556777776555   888888887764 23  22223334456789999999


Q ss_pred             HHHHHHHHhhcCCCcc
Q 046694           84 GKKFFDEMQARNVKPT   99 (118)
Q Consensus        84 a~~~~~~m~~~g~~~~   99 (118)
                      |.+.++.+.+.  +|+
T Consensus        93 A~~~~~~lL~~--eP~  106 (126)
T 1nzn_A           93 ALKYVRGLLQT--EPQ  106 (126)
T ss_dssp             HHHHHHHHHHH--CTT
T ss_pred             HHHHHHHHHHh--CCC
Confidence            99999999874  454

>4ets_A Ferric uptake regulation protein; metal binding protein, transcription factor; 2.10A {Campylobacter jejuni subsp}

Probab=80.40  E-value=3.1  Score=24.67  Aligned_cols=67  Identities=10%  Similarity=0.011  Sum_probs=47.2

Q ss_pred             HHHHHhhhCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc--CCCccHHHHHHHHHHHhcCCChhh
Q 046694           17 LANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMRED--GVEYYPVSHIGVLTACSLGGLVEK   83 (118)
Q Consensus        17 ~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~--~~~p~~~~~~~ll~~~~~~~~~~~   83 (118)
                      ++.+.+.+-..+....=..++..+...+.+-.|.++++.+++.  +...+..|.-.-|+.+.+.|-+.+
T Consensus        19 ~~~~~L~~~g~r~T~qR~~IL~~L~~~~~h~sA~eI~~~l~~~~~~~~is~aTVYRtL~~L~e~Glv~~   87 (162)
T 4ets_A           19 RFKKILRQGGLKYTKQREVLLKTLYHSDTHYTPESLYMEIKQAEPDLNVGIATVYRTLNLLEEAEMVTS   87 (162)
T ss_dssp             HHHHHHHHHTCCCCHHHHHHHHHHHSCCSCBCHHHHHHHHHHHCGGGCCCHHHHHHHHHHHHHTTSEEE
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHhCCCCCCHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHHCCCEEE
Confidence            3344444333334445566777777888889999999999887  767787777777888888876643

---

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	118
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	98.72
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.67
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	98.67
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.63
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.63
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.52
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.49
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.43
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.43
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.4
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.3
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.27
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.18
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	98.16
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.14
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.13
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.1
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.07
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.01
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.01
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	97.99
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.97
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.93
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	97.91
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.87
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.8
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	97.74
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	97.72
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.65
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	97.56
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	97.54
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.5
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.48
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.21
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	97.12
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	97.06
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.06
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.06
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	97.04
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	96.98
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	96.9
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	96.73
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	96.69
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	96.42
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	96.26
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	96.17
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	95.97
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	95.88
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	95.61
d2nsza1	129	Programmed cell death 4, PDCD4 {Mouse (Mus musculu	95.42
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	95.13
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	94.15
d2nsza1	129	Programmed cell death 4, PDCD4 {Mouse (Mus musculu	94.02
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	93.38
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	92.72
d1ug3a1	193	Eukaryotic initiation factor eIF4G {Human (Homo sa	92.38
d1mzba_	134	Ferric uptake regulation protein, FUR {Pseudomonas	92.35
d1ug3a1	193	Eukaryotic initiation factor eIF4G {Human (Homo sa	89.81
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	89.14
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	88.71
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	88.5
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	88.1
d1u9pa1	36	Arc repressor {Salmonella bacteriophage P22 [TaxId	83.05
d2fnaa1	73	Hypothetical protein SSO1545, C-terminal domain {S	80.46

>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=98.72  E-value=2.2e-07  Score=59.57  Aligned_cols=110  Identities=13%  Similarity=0.061  Sum_probs=51.7

Q ss_pred             HHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCCh
Q 046694            5 RLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLV   81 (118)
Q Consensus         5 ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~   81 (118)
                      +...+.+.|++++|+..|++..   ..+..+|..+...+...|++++|.+.++..... .+.+...+..+...+.+.|++
T Consensus       243 l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~  321 (388)
T d1w3ba_         243 LACVYYEQGLIDLAIDTYRRAIELQPHFPDAYCNLANALKEKGSVAEAEDCYNTALRL-CPTHADSLNNLANIKREQGNI  321 (388)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTCSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTTTCH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhcc-CCccchhhhHHHHHHHHCCCH
Confidence            3444555555555555555432   224444555555555555555555555544332 122344444444555555555


Q ss_pred             hhHHHHHHHHhhcCCCccHHHHHHHHHHHHHcccc
Q 046694           82 EKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQK  116 (118)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~  116 (118)
                      ++|.+.|++..+.. +-+..++..+-.+|.+.|++
T Consensus       322 ~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~  355 (388)
T d1w3ba_         322 EEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKL  355 (388)
T ss_dssp             HHHHHHHHHHTTSC-TTCHHHHHHHHHHHHTTTCC
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCH
Confidence            55555555543321 11234444444555444443

>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=98.67  E-value=9.3e-07  Score=53.12  Aligned_cols=110  Identities=11%  Similarity=-0.030  Sum_probs=88.9

Q ss_pred             HHHHhcCCHHHHHHHhhhCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHH
Q 046694            7 DFYTRTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKK   86 (118)
Q Consensus         7 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~   86 (118)
                      ..+...|++++|.+.|+++..++..+|..+-..|...|++++|++.|++..+.. +-+...|..+-.++.+.|+.++|.+
T Consensus        13 ~~~~~~~d~~~Al~~~~~i~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~~~~~g~~~~A~~   91 (192)
T d1hh8a_          13 VLAADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKYDLAIK   91 (192)
T ss_dssp             HHHHHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh-hhhhhhHHHHHHHHHhhccHHHHHH
Confidence            456788999999999999999999999999999999999999999999998753 2367888889999999999999999


Q ss_pred             HHHHHhhcC------------C--Ccc-HHHHHHHHHHHHHccccc
Q 046694           87 FFDEMQARN------------V--KPT-ETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        87 ~~~~m~~~g------------~--~~~-~~t~~~li~~~~~~g~~~  117 (118)
                      .|++.....            .  .++ ..++..+-.++.+.|+++
T Consensus        92 ~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~  137 (192)
T d1hh8a_          92 DLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWK  137 (192)
T ss_dssp             HHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHH
Confidence            999875421            1  111 345556667777777654

>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=98.67  E-value=5.5e-07  Score=57.64  Aligned_cols=110  Identities=14%  Similarity=0.134  Sum_probs=93.4

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc-cHHHHHHHHHHHhc
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEY-YPVSHIGVLTACSL   77 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~   77 (118)
                      |..+..++.+.|++++|...|+...   ..+...+..+...+.+.|++++|++.|++..+.  .| +...+..+-..+.+
T Consensus       274 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~  351 (388)
T d1w3ba_         274 YCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKREQGNIEEAVRLYRKALEV--FPEFAAAHSNLASVLQQ  351 (388)
T ss_dssp             HHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTS--CTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHhhhccCCccchhhhHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHH
Confidence            4566778999999999999998664   457788999999999999999999999998764  45 56788889999999


Q ss_pred             CCChhhHHHHHHHHhhcCCCc-cHHHHHHHHHHHHHccc
Q 046694           78 GGLVEKGKKFFDEMQARNVKP-TETHYACMVYLLIKYNQ  115 (118)
Q Consensus        78 ~~~~~~a~~~~~~m~~~g~~~-~~~t~~~li~~~~~~g~  115 (118)
                      .|++++|.+.|++..+.  .| +...|..+-.+|.+.||
T Consensus       352 ~g~~~~A~~~~~~al~l--~P~~~~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         352 QGKLQEALMHYKEAIRI--SPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             TTCCHHHHHHHHHHHTT--CTTCHHHHHHHHHHHHHTCC
T ss_pred             cCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCC
Confidence            99999999999998764  45 47789999999988775

>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=98.63  E-value=7.4e-07  Score=49.37  Aligned_cols=88  Identities=13%  Similarity=0.013  Sum_probs=77.9

Q ss_pred             HHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChh
Q 046694            6 LDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVE   82 (118)
Q Consensus         6 l~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~   82 (118)
                      -..+.+.|++++|+.+|++..   +.+...|..+-.+|.+.|++++|+..+.+..+.. +.+...|..+-.++...|+++
T Consensus        10 g~~~~~~g~~~eAi~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~~~   88 (117)
T d1elwa_          10 GNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNRFE   88 (117)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcCCcchhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccCHH
Confidence            356788999999999999874   4488899999999999999999999999998764 347888999999999999999


Q ss_pred             hHHHHHHHHhhc
Q 046694           83 KGKKFFDEMQAR   94 (118)
Q Consensus        83 ~a~~~~~~m~~~   94 (118)
                      +|...|++..+.
T Consensus        89 ~A~~~~~~a~~~  100 (117)
T d1elwa_          89 EAKRTYEEGLKH  100 (117)
T ss_dssp             HHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHh
Confidence            999999999874

>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=98.63  E-value=1.1e-06  Score=51.08  Aligned_cols=89  Identities=10%  Similarity=-0.010  Sum_probs=78.2

Q ss_pred             HHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChh
Q 046694            6 LDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVE   82 (118)
Q Consensus         6 l~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~   82 (118)
                      -..|.+.|++++|+..|++..   ..+...|..+-..|...|++++|...|++..+.. +-+...|..+..++...|+++
T Consensus        17 gn~~~~~~~y~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~~g~~~   95 (159)
T d1a17a_          17 ANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKFR   95 (159)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHcCCHHHHHHHhhhccccchhhhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHHcCCHH
Confidence            457889999999999999775   4588899999999999999999999999998753 336688999999999999999


Q ss_pred             hHHHHHHHHhhcC
Q 046694           83 KGKKFFDEMQARN   95 (118)
Q Consensus        83 ~a~~~~~~m~~~g   95 (118)
                      +|.+.+++..+..
T Consensus        96 eA~~~~~~a~~~~  108 (159)
T d1a17a_          96 AALRDYETVVKVK  108 (159)
T ss_dssp             HHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHcC
Confidence            9999999997754

>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=98.52  E-value=8.2e-07  Score=52.83  Aligned_cols=87  Identities=8%  Similarity=-0.084  Sum_probs=76.3

Q ss_pred             HHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc-cHHHHHHHHHHHhcCCC
Q 046694            5 RLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEY-YPVSHIGVLTACSLGGL   80 (118)
Q Consensus         5 ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~   80 (118)
                      .-..|.+.|++++|+..|++..   ..+...|..+-.+|.+.|++++|+..|++..+  +.| +...|..+-.++.+.|+
T Consensus        10 ~Gn~~~~~g~~~~Ai~~~~kal~~~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~--l~p~~~~a~~~lg~~~~~l~~   87 (201)
T d2c2la1          10 QGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALE--LDGQSVKAHFFLGQCQLEMES   87 (201)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTT--SCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHH--hCCCcHHHHHHHHHHHHHCCC
Confidence            3567889999999999998764   45888999999999999999999999999875  356 57889999999999999


Q ss_pred             hhhHHHHHHHHhh
Q 046694           81 VEKGKKFFDEMQA   93 (118)
Q Consensus        81 ~~~a~~~~~~m~~   93 (118)
                      +++|...|++..+
T Consensus        88 ~~~A~~~~~~al~  100 (201)
T d2c2la1          88 YDEAIANLQRAYS  100 (201)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999998754

>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=98.49  E-value=1e-06  Score=49.38  Aligned_cols=104  Identities=12%  Similarity=-0.008  Sum_probs=80.9

Q ss_pred             hHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCC---HHHHHHHHHHHHHcCCCcc-HHHHHHHHHHH
Q 046694            3 EPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGE---LDVAINLFEAMREDGVEYY-PVSHIGVLTAC   75 (118)
Q Consensus         3 ~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~---~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~   75 (118)
                      ..|++.+...+++++|++.|++..   ..+..++..+-.++.+.++   +++|+.+|++.......|+ ...+..+-.+|
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y   82 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAGSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGN   82 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHH
Confidence            467889999999999999999765   4477888888888887665   4579999999876544444 34677788899


Q ss_pred             hcCCChhhHHHHHHHHhhcCCCccHHHHHHHHH
Q 046694           76 SLGGLVEKGKKFFDEMQARNVKPTETHYACMVY  108 (118)
Q Consensus        76 ~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~  108 (118)
                      .+.|++++|.+.|++..+.  .|+..-...+..
T Consensus        83 ~~~g~~~~A~~~~~~aL~~--~P~~~~A~~l~~  113 (122)
T d1nzna_          83 YRLKEYEKALKYVRGLLQT--EPQNNQAKELER  113 (122)
T ss_dssp             HHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             HHHhhhHHHHHHHHHHHHh--CcCCHHHHHHHH
Confidence            9999999999999999884  566554444443

>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=98.43  E-value=1.6e-06  Score=47.62  Aligned_cols=85  Identities=11%  Similarity=-0.028  Sum_probs=67.1

Q ss_pred             HHHHHhcCCHHHHHHHhhhCC--CC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChh
Q 046694            6 LDFYTRTGRIDLANKIFDRLP--VK-DSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVE   82 (118)
Q Consensus         6 l~~~~~~~~~~~a~~~~~~m~--~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~   82 (118)
                      -..+.+.|++++|+..|++..  .| +...|..+-..+.+.|++++|+..|++..+.. +-+...+..+-..|...|+.+
T Consensus        23 g~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~~g~~~  101 (112)
T d1hxia_          23 GLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHNAN  101 (112)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhHHHHHHHhhhcccccccchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHHCCCHH
Confidence            445678888888888888764  33 67788888888888888999998888877652 225778888888888888888


Q ss_pred             hHHHHHHHH
Q 046694           83 KGKKFFDEM   91 (118)
Q Consensus        83 ~a~~~~~~m   91 (118)
                      +|.+.+++.
T Consensus       102 ~A~~~l~~~  110 (112)
T d1hxia_         102 AALASLRAW  110 (112)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            888888775

>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=98.43  E-value=6.7e-06  Score=50.48  Aligned_cols=90  Identities=19%  Similarity=0.162  Sum_probs=77.6

Q ss_pred             HHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc-cHHHHHHHHHHHhcCC
Q 046694            4 PRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEY-YPVSHIGVLTACSLGG   79 (118)
Q Consensus         4 ~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~   79 (118)
                      .+-.+|.+.|++++|+..|++..   ..+..+|+.+-..|.+.|++++|++.|++..+.  .| +...+..+-..+...|
T Consensus        42 ~~G~~y~~~g~~~~A~~~~~~al~l~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~g  119 (259)
T d1xnfa_          42 ERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLEL--DPTYNYAHLNRGIALYYGG  119 (259)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCTHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHCCCHHHHHHHHHHhhccCCCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHH--HhhhhhhHHHHHHHHHHHh
Confidence            45568889999999999998764   458889999999999999999999999999875  34 4667888889999999


Q ss_pred             ChhhHHHHHHHHhhcC
Q 046694           80 LVEKGKKFFDEMQARN   95 (118)
Q Consensus        80 ~~~~a~~~~~~m~~~g   95 (118)
                      +++.|.+.|+...+..
T Consensus       120 ~~~~A~~~~~~al~~~  135 (259)
T d1xnfa_         120 RDKLAQDDLLAFYQDD  135 (259)
T ss_dssp             CHHHHHHHHHHHHHHC
T ss_pred             hHHHHHHHHHHHHhhc
Confidence            9999999999987654

>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=98.40  E-value=9.1e-06  Score=51.41  Aligned_cols=112  Identities=16%  Similarity=0.090  Sum_probs=83.7

Q ss_pred             hHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc-cHHHHHHHHHHHhcC
Q 046694            3 EPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEY-YPVSHIGVLTACSLG   78 (118)
Q Consensus         3 ~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~   78 (118)
                      ..+...+...|++++|+..|++..   ..+...|..+-..|...|++++|.+.|++..+.  .| +...+..+-.+|.+.
T Consensus       176 ~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~  253 (323)
T d1fcha_         176 CGLGVLFNLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQSEEAVAAYRRALEL--QPGYIRSRYNLGISCINL  253 (323)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHHhhhhcccccccccccccccchhhhhhcccccccchhHHHHHHHHHHH--hhccHHHHHHHHHHHHHC
Confidence            445667888999999999998764   346778888999999999999999999998764  34 567788889999999


Q ss_pred             CChhhHHHHHHHHhhc----------CCCccHHHHHHHHHHHHHcccc
Q 046694           79 GLVEKGKKFFDEMQAR----------NVKPTETHYACMVYLLIKYNQK  116 (118)
Q Consensus        79 ~~~~~a~~~~~~m~~~----------g~~~~~~t~~~li~~~~~~g~~  116 (118)
                      |++++|.+.|++..+.          ........|..+-.++...|+.
T Consensus       254 g~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~l~~al~~~~~~  301 (323)
T d1fcha_         254 GAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQS  301 (323)
T ss_dssp             TCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCG
T ss_pred             CCHHHHHHHHHHHHHhCCcChhhhhhhHHHHHHHHHHHHHHHHHcCCH
Confidence            9999999999987542          1112234555555565555443

>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=98.30  E-value=6.8e-06  Score=52.32  Aligned_cols=108  Identities=13%  Similarity=0.085  Sum_probs=47.3

Q ss_pred             HHHHHhcCCHHHHHHHhhhCC--CC-C-HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHH-HHhcCCC
Q 046694            6 LDFYTRTGRIDLANKIFDRLP--VK-D-SASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLT-ACSLGGL   80 (118)
Q Consensus         6 l~~~~~~~~~~~a~~~~~~m~--~~-~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~-~~~~~~~   80 (118)
                      +..+.+.|++++|..+|++..  .| + ...|...+....+.|.++.|.++|++..+.+.. +...|..... -+...|+
T Consensus       106 a~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~~~-~~~~~~~~a~~e~~~~~~  184 (308)
T d2onda1         106 ADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDART-RHHVYVTAALMEYYCSKD  184 (308)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTTC-CTHHHHHHHHHHHHTSCC
T ss_pred             HHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHhccC
Confidence            344445555566655555442  11 1 224555555555555555555555555443211 1112211111 1122344


Q ss_pred             hhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccc
Q 046694           81 VEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQ  115 (118)
Q Consensus        81 ~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~  115 (118)
                      .+.|.++|+.+.+. .+.+...|...++.+.+.|+
T Consensus       185 ~~~a~~i~e~~l~~-~p~~~~~w~~y~~~~~~~g~  218 (308)
T d2onda1         185 KSVAFKIFELGLKK-YGDIPEYVLAYIDYLSHLNE  218 (308)
T ss_dssp             HHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHHHHHHh-hhhhHHHHHHHHHHHHHcCC
Confidence            55555555555432 22234444555554444444

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=98.27  E-value=1.4e-05  Score=47.39  Aligned_cols=97  Identities=14%  Similarity=0.105  Sum_probs=79.4

Q ss_pred             HHHHhcCCHHHHHHHhhhCCC--C-----------------------CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC
Q 046694            7 DFYTRTGRIDLANKIFDRLPV--K-----------------------DSASWITLILGYGMLGELDVAINLFEAMREDGV   61 (118)
Q Consensus         7 ~~~~~~~~~~~a~~~~~~m~~--~-----------------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~   61 (118)
                      ......|++++|...|.+-..  +                       ....+..+...+.+.|++++|+..+++..+.. 
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            456778999999888875320  0                       22467888999999999999999999998752 


Q ss_pred             CccHHHHHHHHHHHhcCCChhhHHHHHHHH-----hhcCCCccHHHHH
Q 046694           62 EYYPVSHIGVLTACSLGGLVEKGKKFFDEM-----QARNVKPTETHYA  104 (118)
Q Consensus        62 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m-----~~~g~~~~~~t~~  104 (118)
                      +-+...|..++.++.+.|+.++|.+.|+++     .+.|+.|...+-.
T Consensus        98 P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l~~  145 (179)
T d2ff4a2          98 PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRA  145 (179)
T ss_dssp             TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHH
T ss_pred             CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHHHH
Confidence            348999999999999999999999999997     4579999987643

>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=98.18  E-value=8.8e-06  Score=45.54  Aligned_cols=91  Identities=14%  Similarity=0.040  Sum_probs=74.3

Q ss_pred             HHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC---CC--cc-HHHHHHHHHH
Q 046694            4 PRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDG---VE--YY-PVSHIGVLTA   74 (118)
Q Consensus         4 ~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~---~~--p~-~~~~~~ll~~   74 (118)
                      .+-..|.+.|++++|+..|++..   ..+...|..+-.+|.+.|++++|++.+++..+..   ..  +. ..+|..+-..
T Consensus         9 ~~G~~~~~~~~y~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg~~   88 (128)
T d1elra_           9 ELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGNS   88 (128)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHH
Confidence            35568899999999999998765   4588899999999999999999999999986521   11  11 2477788888


Q ss_pred             HhcCCChhhHHHHHHHHhhc
Q 046694           75 CSLGGLVEKGKKFFDEMQAR   94 (118)
Q Consensus        75 ~~~~~~~~~a~~~~~~m~~~   94 (118)
                      +...+++++|.+.|++-...
T Consensus        89 ~~~~~~~~~A~~~~~kal~~  108 (128)
T d1elra_          89 YFKEEKYKDAIHFYNKSLAE  108 (128)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHhc
Confidence            89999999999999987654

>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=98.16  E-value=3.6e-05  Score=49.25  Aligned_cols=112  Identities=10%  Similarity=0.025  Sum_probs=68.6

Q ss_pred             HHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcC-CHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCC
Q 046694            4 PRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLG-ELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGG   79 (118)
Q Consensus         4 ~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~-~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~   79 (118)
                      -+-..+.+.++.++|+.++++..   ..+...|+..-..+...| ++++|++.++...+.. +-+..+|...-..+.+.|
T Consensus        48 ~~~~~~~~~e~~~~Al~~~~~ai~lnP~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~~~~~~l~  126 (315)
T d2h6fa1          48 YFRAVLQRDERSERAFKLTRDAIELNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVLVEWLR  126 (315)
T ss_dssp             HHHHHHHHTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhCCchHHHHHHHHHHHHHCCCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHhHHHHhhc
Confidence            33445556667777777777654   235556666666666655 4677777777765542 124666666666666777


Q ss_pred             ChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           80 LVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        80 ~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      ++++|...++++.+.. +-+...|..+..++.+.|+++
T Consensus       127 ~~~eAl~~~~kal~~d-p~n~~a~~~~~~~~~~~~~~~  163 (315)
T d2h6fa1         127 DPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWD  163 (315)
T ss_dssp             CCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCT
T ss_pred             cHHHHHHHHhhhhhhh-hcchHHHHHHHHHHHHHHhhH
Confidence            7777777777775532 224666666666666666554

>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=98.14  E-value=9.9e-05  Score=43.92  Aligned_cols=111  Identities=13%  Similarity=0.044  Sum_probs=86.9

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc------------CC--Ccc
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMRED------------GV--EYY   64 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------------~~--~p~   64 (118)
                      |..+-.+|.+.|++++|+..|++-.   ..+...|..+-..|.+.|++++|++.|++....            |.  +++
T Consensus        39 ~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~~~~a~~~~g~~~~~~g~~~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~  118 (192)
T d1hh8a_          39 CFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLYYQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLF  118 (192)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEE
T ss_pred             HHHHHHHHHHcCCchhHHHHHHHHHHHhhhhhhhHHHHHHHHHhhccHHHHHHHHHHHHHhCccCchHHHHHhhhhcccc
Confidence            4567788999999999999999764   458889999999999999999999999997642            11  111


Q ss_pred             -HHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHH
Q 046694           65 -PVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIK  112 (118)
Q Consensus        65 -~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~  112 (118)
                       ..++..+-.++.+.|++++|.+.+....+....|.......-+..+.+
T Consensus       119 ~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~~~~~~~~~Al~~~~~  167 (192)
T d1hh8a_         119 ACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEPRHSKIDKAMECVWK  167 (192)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSGGGGHHHHHHHHHHT
T ss_pred             hHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcchHHHHHHHHHHHh
Confidence             245556677889999999999999998887777766666655655543

>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=98.13  E-value=3.5e-05  Score=45.43  Aligned_cols=87  Identities=3%  Similarity=-0.218  Sum_probs=72.9

Q ss_pred             CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCc-cHHHHHHH
Q 046694           28 KDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKP-TETHYACM  106 (118)
Q Consensus        28 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~-~~~t~~~l  106 (118)
                      |+.......-..|.+.|++++|+..|.+..... +-+...|+.+-.+|.+.|+++.|...|++..+.  .| +...|..+
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            455556666788899999999999999987653 347888999999999999999999999999764  45 47788999


Q ss_pred             HHHHHHccccc
Q 046694          107 VYLLIKYNQKA  117 (118)
Q Consensus       107 i~~~~~~g~~~  117 (118)
                      -.+|.+.|+++
T Consensus        79 g~~~~~l~~~~   89 (201)
T d2c2la1          79 GQCQLEMESYD   89 (201)
T ss_dssp             HHHHHHTTCHH
T ss_pred             HHHHHHCCCHH
Confidence            99999988865

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=98.10  E-value=3.7e-05  Score=44.17  Aligned_cols=104  Identities=13%  Similarity=0.029  Sum_probs=81.2

Q ss_pred             HHHHHhcCCHHHHHHHhhhCC--------CC-----------CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHH
Q 046694            6 LDFYTRTGRIDLANKIFDRLP--------VK-----------DSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPV   66 (118)
Q Consensus         6 l~~~~~~~~~~~a~~~~~~m~--------~~-----------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~   66 (118)
                      -..+.+.|++.+|+..|.+..        .+           ...+|+.+-.+|.+.|++++|++.+++..+.. +.+..
T Consensus        24 G~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Al~~~~~al~~~-p~~~k  102 (153)
T d2fbna1          24 GNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVK  102 (153)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHHHhhhhHHHHHHhhHHHHHHHhcccchhhhhhhcccccc-chhhh
Confidence            456788999999999997542        01           23577888899999999999999999988753 34789


Q ss_pred             HHHHHHHHHhcCCChhhHHHHHHHHhhcCCCc-cHHHHHHHHHHHHH
Q 046694           67 SHIGVLTACSLGGLVEKGKKFFDEMQARNVKP-TETHYACMVYLLIK  112 (118)
Q Consensus        67 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~-~~~t~~~li~~~~~  112 (118)
                      .|..+-.++...|++++|...|++..+..  | +......+-.+.-+
T Consensus       103 a~~~~g~~~~~lg~~~~A~~~~~~al~l~--P~n~~~~~~l~~~~~k  147 (153)
T d2fbna1         103 ALYKLGVANMYFGFLEEAKENLYKAASLN--PNNLDIRNSYELCVNK  147 (153)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHH
T ss_pred             hhHHhHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHH
Confidence            99999999999999999999999998754  4 45555554444433

>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=98.07  E-value=3.3e-05  Score=48.72  Aligned_cols=87  Identities=11%  Similarity=0.024  Sum_probs=74.3

Q ss_pred             HHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhh
Q 046694            7 DFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEK   83 (118)
Q Consensus         7 ~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~   83 (118)
                      ..+.+.|++++|+..|++..   ..+..+|..+-..+...|++++|...|++..+.. +-+...+..+...+...|++++
T Consensus        27 ~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~  105 (323)
T d1fcha_          27 LRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNESLQRQ  105 (323)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-cccccccccccccccccccccc
Confidence            35788999999999999874   3377899999999999999999999999987653 2257788888899999999999


Q ss_pred             HHHHHHHHhhc
Q 046694           84 GKKFFDEMQAR   94 (118)
Q Consensus        84 a~~~~~~m~~~   94 (118)
                      |.+.+++....
T Consensus       106 A~~~~~~~~~~  116 (323)
T d1fcha_         106 ACEILRDWLRY  116 (323)
T ss_dssp             HHHHHHHHHHT
T ss_pred             cccchhhHHHh
Confidence            99999998553

>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP52 (FKBP4), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.01  E-value=0.00019  Score=41.77  Aligned_cols=89  Identities=15%  Similarity=0.013  Sum_probs=73.7

Q ss_pred             HHHHHhcCCHHHHHHHhhhCC-----CC-------------CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHH
Q 046694            6 LDFYTRTGRIDLANKIFDRLP-----VK-------------DSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVS   67 (118)
Q Consensus         6 l~~~~~~~~~~~a~~~~~~m~-----~~-------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~   67 (118)
                      -..+.+.|++++|+..|.+..     .+             ...+|+.+-.+|.+.|++++|+..+++..... +-++..
T Consensus        20 G~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~y~k~~~~~~A~~~~~~al~~~-p~~~~a   98 (170)
T d1p5qa1          20 GTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELD-SNNEKG   98 (170)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHhhhccccchHHHhhhchhHHHHHHHHHHHHHhhhhcccccchhhhhhhcc-ccchhh
Confidence            357889999999999997542     00             23567778889999999999999999998763 237888


Q ss_pred             HHHHHHHHhcCCChhhHHHHHHHHhhcC
Q 046694           68 HIGVLTACSLGGLVEKGKKFFDEMQARN   95 (118)
Q Consensus        68 ~~~ll~~~~~~~~~~~a~~~~~~m~~~g   95 (118)
                      +..+-.++...|++++|...|++..+..
T Consensus        99 ~~~~g~~~~~~g~~~~A~~~~~~al~l~  126 (170)
T d1p5qa1          99 LSRRGEAHLAVNDFELARADFQKVLQLY  126 (170)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             hHHHHHHHHHhhhHHHHHHHHHHHHHhC
Confidence            9999999999999999999999997743

>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=98.01  E-value=6.5e-05  Score=47.60  Aligned_cols=115  Identities=16%  Similarity=0.165  Sum_probs=84.9

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCCC--C-CHhhHHHHHHH-HHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhc
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLPV--K-DSASWITLILG-YGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSL   77 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~~--~-~~~~~~~li~~-~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~   77 (118)
                      |...+..+.+.|++++|+.+|++...  | +...|...... +...|+.+.|..+|+++... .+-+...|...++...+
T Consensus       137 w~~~~~~~~~~~~~~~ar~i~~~al~~~~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~-~p~~~~~w~~y~~~~~~  215 (308)
T d2onda1         137 YIQYMKFARRAEGIKSGRMIFKKAREDARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKK-YGDIPEYVLAYIDYLSH  215 (308)
T ss_dssp             HHHHHHHHHHHHCHHHHHHHHHHHHTSTTCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh-hhhhHHHHHHHHHHHHH
Confidence            55667788889999999999987642  2 33334333322 33458999999999999875 34467889999999999


Q ss_pred             CCChhhHHHHHHHHhhcC-CCcc--HHHHHHHHHHHHHccccc
Q 046694           78 GGLVEKGKKFFDEMQARN-VKPT--ETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        78 ~~~~~~a~~~~~~m~~~g-~~~~--~~t~~~li~~~~~~g~~~  117 (118)
                      .|+++.|..+|++..+.. ..|+  ...|...+..-.+.|+.+
T Consensus       216 ~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~  258 (308)
T d2onda1         216 LNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLA  258 (308)
T ss_dssp             TCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHH
T ss_pred             cCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCCHH
Confidence            999999999999986644 4544  457888888777777653

>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=97.99  E-value=5.7e-05  Score=48.30  Aligned_cols=112  Identities=6%  Similarity=0.025  Sum_probs=85.4

Q ss_pred             chHHHHHHHhcC-CHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhc
Q 046694            2 IEPRLDFYTRTG-RIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSL   77 (118)
Q Consensus         2 ~~~ll~~~~~~~-~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~   77 (118)
                      |+..-.++.+.| ++++|...+++..   ..+..+|+.+-..+.+.|++++|+..++++.+.. +-+...|..+...+.+
T Consensus        80 ~~~r~~~l~~l~~~~~eal~~~~~al~~~p~~~~a~~~~~~~~~~l~~~~eAl~~~~kal~~d-p~n~~a~~~~~~~~~~  158 (315)
T d2h6fa1          80 WHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLVEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQE  158 (315)
T ss_dssp             HHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCcCHHHHHHHHHHHHHHHHhhhhHHHHHhHHHHhhccHHHHHHHHhhhhhhh-hcchHHHHHHHHHHHH
Confidence            455556666666 5899999998764   4578889988889999999999999999997652 2268888888899999


Q ss_pred             CCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccc
Q 046694           78 GGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQ  115 (118)
Q Consensus        78 ~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~  115 (118)
                      .|++++|.+.+++..+.... +...|+.+-.++.+.+.
T Consensus       159 ~~~~~~Al~~~~~al~~~p~-n~~a~~~r~~~l~~~~~  195 (315)
T d2h6fa1         159 FKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISNTTG  195 (315)
T ss_dssp             HTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTC
T ss_pred             HHhhHHHHHHHHHHHHHCCc-cHHHHHHHHHHHHHccc
Confidence            99999999999999775432 56667766666555543

>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=97.97  E-value=1.9e-05  Score=46.85  Aligned_cols=66  Identities=15%  Similarity=0.224  Sum_probs=57.5

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHH-----cCCCccHHH
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMRE-----DGVEYYPVS   67 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-----~~~~p~~~~   67 (118)
                      +..+...+.+.|++++|...+++..   .-+...|..+|.+|...|+.++|++.|+++++     -|+.|+..+
T Consensus        70 ~~~la~~~~~~g~~~~Al~~~~~al~~~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          70 HTAKAEAEIACGRASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHHCCCchHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            3567788999999999999999875   34889999999999999999999999999843     599998765

>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=97.93  E-value=0.00014  Score=42.12  Aligned_cols=105  Identities=6%  Similarity=-0.102  Sum_probs=81.2

Q ss_pred             HHHHHHhcCCHHHHHHHhhhCC-------------------CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccH
Q 046694            5 RLDFYTRTGRIDLANKIFDRLP-------------------VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYP   65 (118)
Q Consensus         5 ll~~~~~~~~~~~a~~~~~~m~-------------------~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~   65 (118)
                      ....+.+.|++++|+..|.+..                   ..+...|..+-..+.+.|++++|+..+++..+.. +-+.
T Consensus        33 ~~~~~~~~~~y~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~-p~~~  111 (169)
T d1ihga1          33 IGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID-PSNT  111 (169)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhhhhhhhhhhhHHHHHhChhhHHHHHHHHHHHHhhcccchhhhhhhhhhhhh-hhhh
Confidence            3456788999999998887652                   1155577778888999999999999999998753 3378


Q ss_pred             HHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHH
Q 046694           66 VSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLI  111 (118)
Q Consensus        66 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~  111 (118)
                      ..|..+-.++.+.|+++.|...|++..+... .+......+-.+..
T Consensus       112 ~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p-~n~~~~~~l~~~~~  156 (169)
T d1ihga1         112 KALYRRAQGWQGLKEYDQALADLKKAQEIAP-EDKAIQAELLKVKQ  156 (169)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHH
T ss_pred             hHHHhHHHHHHHccCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHH
Confidence            8899999999999999999999999987532 24555555555443

>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=97.91  E-value=7.2e-05  Score=42.99  Aligned_cols=80  Identities=9%  Similarity=-0.148  Sum_probs=67.6

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHccc
Q 046694           36 LILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQ  115 (118)
Q Consensus        36 li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~  115 (118)
                      .-..|.+.|++++|+..|++..+.. +-+...|..+-.++...|++++|...|++..+.. +-+...|..+..+|...|+
T Consensus        16 ~gn~~~~~~~y~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~~g~   93 (159)
T d1a17a_          16 QANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGK   93 (159)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHhhhccccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHHcCC
Confidence            3456779999999999999998763 3378888999999999999999999999998754 3356889999999999988


Q ss_pred             cc
Q 046694          116 KA  117 (118)
Q Consensus       116 ~~  117 (118)
                      ++
T Consensus        94 ~~   95 (159)
T d1a17a_          94 FR   95 (159)
T ss_dssp             HH
T ss_pred             HH
Confidence            65

>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=97.87  E-value=9.6e-05  Score=40.45  Aligned_cols=79  Identities=13%  Similarity=-0.100  Sum_probs=67.3

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHcccc
Q 046694           37 ILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQK  116 (118)
Q Consensus        37 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~  116 (118)
                      -..+.+.|++++|+..|++..+.. +-+...|..+-.++.+.|++++|...+....+.. +.+...|..+-.++...|++
T Consensus        10 g~~~~~~g~~~eAi~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~~   87 (117)
T d1elwa_          10 GNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNRF   87 (117)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcC-CcchhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccCH
Confidence            456778899999999999998753 3377889999999999999999999999998764 44788899999999998876


Q ss_pred             c
Q 046694          117 A  117 (118)
Q Consensus       117 ~  117 (118)
                      +
T Consensus        88 ~   88 (117)
T d1elwa_          88 E   88 (117)
T ss_dssp             H
T ss_pred             H
Confidence            5

>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=97.80  E-value=0.00037  Score=40.34  Aligned_cols=99  Identities=15%  Similarity=0.066  Sum_probs=76.7

Q ss_pred             HHHHHhcCCHHHHHHHhhhCC-------CC-----------CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHH
Q 046694            6 LDFYTRTGRIDLANKIFDRLP-------VK-----------DSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVS   67 (118)
Q Consensus         6 l~~~~~~~~~~~a~~~~~~m~-------~~-----------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~   67 (118)
                      -..+.+.|++.+|...|++..       ..           ....|+.+-.+|.+.|++++|+..+++..... +.+...
T Consensus        22 G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a  100 (168)
T d1kt1a1          22 GTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD-SANEKG  100 (168)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHHhhccchhhhhhcchhHHHHHHhHHHHHHHhhhcccchhhhhhhhhcc-cchHHH
Confidence            456788999999999986542       00           23456677788899999999999999998753 347888


Q ss_pred             HHHHHHHHhcCCChhhHHHHHHHHhhcCCCcc-HHHHHHHH
Q 046694           68 HIGVLTACSLGGLVEKGKKFFDEMQARNVKPT-ETHYACMV  107 (118)
Q Consensus        68 ~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~-~~t~~~li  107 (118)
                      |...-.++...|++++|...|++..+.  .|+ ......+-
T Consensus       101 ~~~~~~~~~~l~~~~~A~~~~~~al~l--~P~n~~~~~~l~  139 (168)
T d1kt1a1         101 LYRRGEAQLLMNEFESAKGDFEKVLEV--NPQNKAARLQIF  139 (168)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHS--CTTCHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHH
Confidence            999999999999999999999999874  444 44444433

>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=97.74  E-value=0.0001  Score=46.26  Aligned_cols=115  Identities=10%  Similarity=-0.011  Sum_probs=66.8

Q ss_pred             hHHHHHHHhcCCHHHHHHHhhhCCC-------C--CHhhHHHHHHHHHhcCCHHHHHHHHHHHHH----cCCC-ccHHHH
Q 046694            3 EPRLDFYTRTGRIDLANKIFDRLPV-------K--DSASWITLILGYGMLGELDVAINLFEAMRE----DGVE-YYPVSH   68 (118)
Q Consensus         3 ~~ll~~~~~~~~~~~a~~~~~~m~~-------~--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~----~~~~-p~~~~~   68 (118)
                      ......|...+++++|...|++...       +  -..+|+.+-..|.+.|++++|.+.+++..+    .|-. ....++
T Consensus        41 ~~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~  120 (290)
T d1qqea_          41 VQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFK  120 (290)
T ss_dssp             HHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHH
Confidence            3445566677777777777765431       1  234677777777777777777777776543    1211 123445


Q ss_pred             HHHHHHHh-cCCChhhHHHHHHHHhh----cCCCc-cHHHHHHHHHHHHHccccc
Q 046694           69 IGVLTACS-LGGLVEKGKKFFDEMQA----RNVKP-TETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        69 ~~ll~~~~-~~~~~~~a~~~~~~m~~----~g~~~-~~~t~~~li~~~~~~g~~~  117 (118)
                      ..+...|- ..|++++|...+++..+    .+-.+ -..++..+...|.+.|+++
T Consensus       121 ~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~  175 (290)
T d1qqea_         121 FELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYI  175 (290)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHH
Confidence            55555553 35777777777776532    22222 1345666677777766654

>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=97.72  E-value=9.5e-05  Score=41.02  Aligned_cols=83  Identities=8%  Similarity=0.043  Sum_probs=65.6

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCC---hhhHHHHHHHHhhcCCCcc-HHHHHHHHHH
Q 046694           34 ITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGL---VEKGKKFFDEMQARNVKPT-ETHYACMVYL  109 (118)
Q Consensus        34 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~---~~~a~~~~~~m~~~g~~~~-~~t~~~li~~  109 (118)
                      ..+++.+...+++++|.+.|++....+ +.+..++..+-.++.+.++   +++|+.++++..+....|+ ...+..+-.+
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~-p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~   81 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVG   81 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHH
Confidence            467788889999999999999998754 3477888888888887655   4569999999987665554 3477888899


Q ss_pred             HHHccccc
Q 046694          110 LIKYNQKA  117 (118)
Q Consensus       110 ~~~~g~~~  117 (118)
                      |.+.|+++
T Consensus        82 y~~~g~~~   89 (122)
T d1nzna_          82 NYRLKEYE   89 (122)
T ss_dssp             HHHTTCHH
T ss_pred             HHHHhhhH
Confidence            99999875

>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=97.65  E-value=0.00032  Score=37.93  Aligned_cols=80  Identities=11%  Similarity=-0.082  Sum_probs=67.5

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCc-cHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHc
Q 046694           35 TLILGYGMLGELDVAINLFEAMREDGVEY-YPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKY  113 (118)
Q Consensus        35 ~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~  113 (118)
                      .+-..+.+.|++++|...|++..+.  .| +...|..+-.++.+.|++++|...|++..+.. +.+...|..+-.+|.+.
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            3455677899999999999999875  34 68889999999999999999999999997753 33588899999999998


Q ss_pred             cccc
Q 046694          114 NQKA  117 (118)
Q Consensus       114 g~~~  117 (118)
                      |+.+
T Consensus        98 g~~~  101 (112)
T d1hxia_          98 HNAN  101 (112)
T ss_dssp             HHHH
T ss_pred             CCHH
Confidence            8765

>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=97.56  E-value=0.0005  Score=43.04  Aligned_cols=94  Identities=13%  Similarity=0.053  Sum_probs=71.0

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC-------C--CCHhhHHHHHHHHHh-cCCHHHHHHHHHHHHH----cCCCc-cHH
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP-------V--KDSASWITLILGYGM-LGELDVAINLFEAMRE----DGVEY-YPV   66 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~-------~--~~~~~~~~li~~~~~-~~~~~~a~~~~~~m~~----~~~~p-~~~   66 (118)
                      |+.+..+|.+.|++++|...|++..       .  ....++..+...|.. .|++++|.+.+++..+    .+-++ -..
T Consensus        80 ~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~  159 (290)
T d1qqea_          80 YVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNK  159 (290)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhh
Confidence            5667788999999999998887553       1  124556666666644 6999999999998753    23222 246


Q ss_pred             HHHHHHHHHhcCCChhhHHHHHHHHhhcC
Q 046694           67 SHIGVLTACSLGGLVEKGKKFFDEMQARN   95 (118)
Q Consensus        67 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~g   95 (118)
                      ++..+...+.+.|++++|.+.|++.....
T Consensus       160 ~~~~la~~~~~~g~y~~A~~~~~~~~~~~  188 (290)
T d1qqea_         160 CFIKCADLKALDGQYIEASDIYSKLIKSS  188 (290)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHcChHHHHHHHHHHHHHhC
Confidence            68888999999999999999999986643

>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=97.54  E-value=0.00073  Score=40.95  Aligned_cols=86  Identities=13%  Similarity=-0.049  Sum_probs=71.5

Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc-cHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHH
Q 046694           29 DSASWITLILGYGMLGELDVAINLFEAMREDGVEY-YPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMV  107 (118)
Q Consensus        29 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li  107 (118)
                      ...+|..+-..|.+.|++++|...|++..+.  .| +..+|+.+-.++.+.|++++|.+.|++..+... -+...+..+-
T Consensus        36 ~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l--~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg  112 (259)
T d1xnfa_          36 RAQLLYERGVLYDSLGLRALARNDFSQALAI--RPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDP-TYNYAHLNRG  112 (259)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCTHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHhhcc--CCCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHHh-hhhhhHHHHH
Confidence            4457777788999999999999999999875  34 678899999999999999999999999977532 2466788888


Q ss_pred             HHHHHccccc
Q 046694          108 YLLIKYNQKA  117 (118)
Q Consensus       108 ~~~~~~g~~~  117 (118)
                      .+|.+.|+.+
T Consensus       113 ~~~~~~g~~~  122 (259)
T d1xnfa_         113 IALYYGGRDK  122 (259)
T ss_dssp             HHHHHTTCHH
T ss_pred             HHHHHHhhHH
Confidence            8888888764

>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=97.50  E-value=0.00047  Score=39.38  Aligned_cols=87  Identities=14%  Similarity=-0.027  Sum_probs=66.6

Q ss_pred             HHHHHhcCCHHHHHHHhhhCC-----CC----------CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc-----CCCcc-
Q 046694            6 LDFYTRTGRIDLANKIFDRLP-----VK----------DSASWITLILGYGMLGELDVAINLFEAMRED-----GVEYY-   64 (118)
Q Consensus         6 l~~~~~~~~~~~a~~~~~~m~-----~~----------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----~~~p~-   64 (118)
                      ...+.+.|++++|+..|++-.     .|          ....|+.+-.+|.+.|++++|...+++..+.     ...++ 
T Consensus        16 g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~   95 (156)
T d2hr2a1          16 AQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDE   95 (156)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccc
Confidence            345567799999999888653     11          2467889999999999999999999998642     11221 


Q ss_pred             ----HHHHHHHHHHHhcCCChhhHHHHHHHHh
Q 046694           65 ----PVSHIGVLTACSLGGLVEKGKKFFDEMQ   92 (118)
Q Consensus        65 ----~~~~~~ll~~~~~~~~~~~a~~~~~~m~   92 (118)
                          ...++.+-.+|...|++++|...|++..
T Consensus        96 ~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al  127 (156)
T d2hr2a1          96 GKLWISAVYSRALALDGLGRGAEAMPEFKKVV  127 (156)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             cchhHHHHhhhHHHHHHHHHHHHHHHHHHHHH
Confidence                2356777889999999999999999963

>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=97.48  E-value=0.00041  Score=38.41  Aligned_cols=60  Identities=10%  Similarity=-0.041  Sum_probs=51.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhh
Q 046694           33 WITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQA   93 (118)
Q Consensus        33 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~   93 (118)
                      +-.+-..+.+.|++++|+..|.+..+.. +.+...+..+-.+|.+.|+++.|...+++..+
T Consensus         7 ~k~~G~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~   66 (128)
T d1elra_           7 EKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIE   66 (128)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHH
Confidence            4455667888999999999999998763 33688999999999999999999999999865

>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=97.21  E-value=0.0029  Score=36.36  Aligned_cols=87  Identities=10%  Similarity=0.051  Sum_probs=62.8

Q ss_pred             hHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcc-HHHHHHHHHHHhcC
Q 046694            3 EPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYY-PVSHIGVLTACSLG   78 (118)
Q Consensus         3 ~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~   78 (118)
                      +.+-.+|.+.|++++|+..+++..   ..+..+|..+-.++...|++++|...|++..+.  .|+ ......+-....+.
T Consensus        68 ~Nla~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l--~P~n~~~~~~l~~~~~~~  145 (168)
T d1kt1a1          68 LNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEV--NPQNKAARLQIFMCQKKA  145 (168)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--CTTCHHHHHHHHHHHHHH
T ss_pred             HhHHHHHHHhhhcccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHH
Confidence            445678899999999999998764   558889999999999999999999999999874  454 44444443333344


Q ss_pred             CChh-hHHHHHHHH
Q 046694           79 GLVE-KGKKFFDEM   91 (118)
Q Consensus        79 ~~~~-~a~~~~~~m   91 (118)
                      +... ...+++..|
T Consensus       146 ~~~~e~~kk~~~~~  159 (168)
T d1kt1a1         146 KEHNERDRRTYANM  159 (168)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HhHHHHHHHHHHHH
Confidence            3332 344555555

>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=97.12  E-value=0.0049  Score=38.07  Aligned_cols=113  Identities=14%  Similarity=0.110  Sum_probs=80.4

Q ss_pred             HHHHHHHhcCCHHHHHHHhhhCCCC-------CHhhHHHHHHHHHhcCCHHHHHHHHHHHHH----cCCCcc-HHHHHHH
Q 046694            4 PRLDFYTRTGRIDLANKIFDRLPVK-------DSASWITLILGYGMLGELDVAINLFEAMRE----DGVEYY-PVSHIGV   71 (118)
Q Consensus         4 ~ll~~~~~~~~~~~a~~~~~~m~~~-------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~----~~~~p~-~~~~~~l   71 (118)
                      .+...+...|++++|...+++....       ....+..+...+...|++++|...+++...    .+..|+ ...+..+
T Consensus       218 ~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l  297 (366)
T d1hz4a_         218 VRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLL  297 (366)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHH
Confidence            4455677889999999999876521       344566778899999999999999998853    355553 4677778


Q ss_pred             HHHHhcCCChhhHHHHHHHHhh----cCCCc----cHHHHHHHHHHHHHcccc
Q 046694           72 LTACSLGGLVEKGKKFFDEMQA----RNVKP----TETHYACMVYLLIKYNQK  116 (118)
Q Consensus        72 l~~~~~~~~~~~a~~~~~~m~~----~g~~~----~~~t~~~li~~~~~~g~~  116 (118)
                      -..+.+.|++++|.+.+++..+    .|...    .......++..+.+.+++
T Consensus       298 a~~~~~~g~~~~A~~~l~~Al~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~l  350 (366)
T d1hz4a_         298 NQLYWQAGRKSDAQRVLLDALKLANRTGFISHFVIEGEAMAQQLRQLIQLNTL  350 (366)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHHHHCCCHHHHTTHHHHHHHHHHHHHTTCS
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHhhhcCcHHHHHHHHHHHHHHHHHHHhcCCC
Confidence            8899999999999999998633    33321    223344555555555544

>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=97.06  E-value=0.005  Score=38.81  Aligned_cols=105  Identities=12%  Similarity=0.068  Sum_probs=77.2

Q ss_pred             hcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcC--CHHHHHHHHHHHHHcCCCccHHHHHHH-HHHHhcCCChhhH
Q 046694           11 RTGRIDLANKIFDRLP---VKDSASWITLILGYGMLG--ELDVAINLFEAMREDGVEYYPVSHIGV-LTACSLGGLVEKG   84 (118)
Q Consensus        11 ~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~--~~~~a~~~~~~m~~~~~~p~~~~~~~l-l~~~~~~~~~~~a   84 (118)
                      ..|.+++|..+|++..   ..+...|..+..++...+  ++++|...+++..+.. +++...+... -..+...+..+.|
T Consensus        85 ~~~~~~~al~~~~~~l~~~pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~A  163 (334)
T d1dcea1          85 SAALVKAELGFLESCLRVNPKSYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEE  163 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhCCCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHHH
Confidence            3455788888888764   346777777776666665  5899999999997753 2345544443 4566678999999


Q ss_pred             HHHHHHHhhcCCCccHHHHHHHHHHHHHccccc
Q 046694           85 KKFFDEMQARNVKPTETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        85 ~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~~  117 (118)
                      ...++...+... -+...|+.+-.++.+.|+.+
T Consensus       164 l~~~~~~i~~~p-~~~~a~~~l~~~~~~~~~~~  195 (334)
T d1dcea1         164 LAFTDSLITRNF-SNYSSWHYRSCLLPQLHPQP  195 (334)
T ss_dssp             HHHHHTTTTTTC-CCHHHHHHHHHHHHHHSCCC
T ss_pred             HHHHHHHHHcCC-CCHHHHHHHHHHHHHhcCHH
Confidence            999998877653 36888989999998888765

>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=97.06  E-value=0.0016  Score=37.04  Aligned_cols=61  Identities=10%  Similarity=-0.060  Sum_probs=52.6

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcc
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYY   64 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~   64 (118)
                      |+.+..+|.+.|++++|+..+++..   +.+..+|..+..++...|++++|...|++..+.  .|+
T Consensus        70 ~~Nla~~~~~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l--~P~  133 (153)
T d2fbna1          70 NLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASL--NPN  133 (153)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--STT
T ss_pred             HhhHHHHHHHhcccchhhhhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHh--CCC
Confidence            4557788899999999999998764   458899999999999999999999999998875  454

>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=97.06  E-value=0.0027  Score=36.43  Aligned_cols=70  Identities=11%  Similarity=-0.045  Sum_probs=55.4

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc-cHHHHHHHHH
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEY-YPVSHIGVLT   73 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~   73 (118)
                      |+.+-.+|.+.|++++|+..|++..   ..+...|..+-.++...|++++|...|++..+.  .| +......+-.
T Consensus        80 ~~nla~~~~~~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l--~p~n~~~~~~l~~  153 (169)
T d1ihga1          80 VLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEI--APEDKAIQAELLK  153 (169)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             HHHHHHHHHhhcccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHHH
Confidence            3456678889999999999998764   458889999999999999999999999999875  44 4444444433

>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=97.04  E-value=0.0081  Score=37.03  Aligned_cols=111  Identities=14%  Similarity=0.042  Sum_probs=76.5

Q ss_pred             HHHHHhcCCHHHHHHHhhhCC--CCC------HhhHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCc-cHHHHHHHH
Q 046694            6 LDFYTRTGRIDLANKIFDRLP--VKD------SASWITLILGYGMLGELDVAINLFEAMRED----GVEY-YPVSHIGVL   72 (118)
Q Consensus         6 l~~~~~~~~~~~a~~~~~~m~--~~~------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~p-~~~~~~~ll   72 (118)
                      -..+...|++++|+.+|++..  .|+      ...++.+-..+...|++++|...|++..+.    +-.+ ....+..+.
T Consensus        19 A~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~   98 (366)
T d1hz4a_          19 AQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQS   98 (366)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHH
Confidence            345678999999999998652  221      346777788899999999999999998642    2112 245566777


Q ss_pred             HHHhcCCChhhHHHHHHHHhh----cCCC--cc-HHHHHHHHHHHHHcccc
Q 046694           73 TACSLGGLVEKGKKFFDEMQA----RNVK--PT-ETHYACMVYLLIKYNQK  116 (118)
Q Consensus        73 ~~~~~~~~~~~a~~~~~~m~~----~g~~--~~-~~t~~~li~~~~~~g~~  116 (118)
                      ..+...|+++.+...+.....    .+..  +. ...+..+-..+...|++
T Consensus        99 ~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~  149 (366)
T d1hz4a_          99 EILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARL  149 (366)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcch
Confidence            888899999999999887633    2222  11 23444555666666654

>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=96.98  E-value=0.003  Score=36.41  Aligned_cols=68  Identities=4%  Similarity=-0.129  Sum_probs=55.0

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc-cHHHHHHH
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEY-YPVSHIGV   71 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~l   71 (118)
                      |+.+-.+|.+.|++++|+..+++..   +.++..|..+-.+|...|++++|...|++..+.  .| +......+
T Consensus        65 ~~nla~~y~k~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l--~P~n~~~~~~l  136 (170)
T d1p5qa1          65 HLNLAMCHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQL--YPNNKAAKTQL  136 (170)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSSCHHHHHHH
T ss_pred             HHHHHHHHHhhhhcccccchhhhhhhccccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHh--CCCCHHHHHHH
Confidence            4556778999999999999998664   448889999999999999999999999999774  45 44444333

>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=96.90  E-value=0.0018  Score=36.52  Aligned_cols=99  Identities=14%  Similarity=0.027  Sum_probs=69.9

Q ss_pred             HHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhc----------CCHHHHHHHHHHHHHcCCCc-cHHHHHHHHHH
Q 046694            9 YTRTGRIDLANKIFDRLP---VKDSASWITLILGYGML----------GELDVAINLFEAMREDGVEY-YPVSHIGVLTA   74 (118)
Q Consensus         9 ~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~----------~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~   74 (118)
                      |-+.+.+++|+..|++..   +.+...+..+-..+...          +.+++|+..|++..+-  .| +...|..+-.+
T Consensus         7 ~~r~~~fe~A~~~~e~al~~~P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l--~P~~~~a~~~lG~~   84 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYKSNPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLI--DPKKDEAVWCIGNA   84 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHH
T ss_pred             HHHHccHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHh--cchhhHHHhhHHHH
Confidence            456677999999999774   34777777777776643          4568899999988764  44 56778777777


Q ss_pred             HhcCC-----------ChhhHHHHHHHHhhcCCCccHHHHHHHHHHHH
Q 046694           75 CSLGG-----------LVEKGKKFFDEMQARNVKPTETHYACMVYLLI  111 (118)
Q Consensus        75 ~~~~~-----------~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~  111 (118)
                      |...|           .++.|.+.|++..+  +.|+..++..-+..+-
T Consensus        85 y~~~g~~~~~~~~~~~~~~~A~~~~~kal~--l~P~~~~~~~~L~~~~  130 (145)
T d1zu2a1          85 YTSFAFLTPDETEAKHNFDLATQFFQQAVD--EQPDNTHYLKSLEMTA  130 (145)
T ss_dssp             HHHHHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHHH
T ss_pred             HHHcccchhhHHHHHHhHHHhhhhhhcccc--cCCCHHHHHHHHHHHH
Confidence            76554           35778888887766  5677777666555443

>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=96.73  E-value=0.00051  Score=42.94  Aligned_cols=51  Identities=14%  Similarity=0.050  Sum_probs=43.8

Q ss_pred             HHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 046694            9 YTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMRED   59 (118)
Q Consensus         9 ~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~   59 (118)
                      ..+.|++++|+..+++-.   ..|...+..+...++..|++++|...|+...+.
T Consensus         6 aL~~G~l~eAl~~l~~al~~~P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l   59 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAIKASPKDASLRSSFIELLCIDGDFERADEQLMQSIKL   59 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            346799999999998664   448899999999999999999999999998764

>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=96.69  E-value=0.012  Score=31.03  Aligned_cols=65  Identities=11%  Similarity=0.083  Sum_probs=54.0

Q ss_pred             CHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHH
Q 046694           45 ELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLL  110 (118)
Q Consensus        45 ~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~  110 (118)
                      +.-++.+-++.+-...+.|++.+..+.|++|-+.+++..|.++++-.+.+ +.++...|..+++-.
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K-~~~~k~~y~yilqel   85 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQEL   85 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCcHHHHHHHHHHH
Confidence            67788888888888889999999999999999999999999999998543 333466777776644

>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=96.42  E-value=0.007  Score=31.40  Aligned_cols=54  Identities=7%  Similarity=-0.185  Sum_probs=30.6

Q ss_pred             HhcCCHHHHHHHHHHHHHc-----CCCc-cHHHHHHHHHHHhcCCChhhHHHHHHHHhhc
Q 046694           41 GMLGELDVAINLFEAMRED-----GVEY-YPVSHIGVLTACSLGGLVEKGKKFFDEMQAR   94 (118)
Q Consensus        41 ~~~~~~~~a~~~~~~m~~~-----~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~   94 (118)
                      .+.|++++|...|++..+.     ...+ ...++..+-.++.+.|++++|.+.+++..+.
T Consensus        16 ~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l   75 (95)
T d1tjca_          16 YTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (95)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHh
Confidence            4556666666666655321     1111 1345666666666667777777776666553

>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=96.26  E-value=0.015  Score=38.95  Aligned_cols=102  Identities=9%  Similarity=-0.160  Sum_probs=68.3

Q ss_pred             HhcCCHHHHHHHhhhCCCC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCc-cHHHHHHHHHHHhcCCChhhHHHH
Q 046694           10 TRTGRIDLANKIFDRLPVK-DSASWITLILGYGMLGELDVAINLFEAMREDGVEY-YPVSHIGVLTACSLGGLVEKGKKF   87 (118)
Q Consensus        10 ~~~~~~~~a~~~~~~m~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~   87 (118)
                      .+.|+.++|...+.+-..+ ...++..+-..+...|++++|...|++..+.  .| +...|+.+-..+...|+..+|...
T Consensus       131 ~~~~~~~~A~~~~~~al~~~~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l--~P~~~~~~~~Lg~~~~~~~~~~~A~~~  208 (497)
T d1ya0a1         131 NKQTHTSAIVKPQSSSCSYICQHCLVHLGDIARYRNQTSQAESYYRHAAQL--VPSNGQPYNQLAILASSKGDHLTTIFY  208 (497)
T ss_dssp             ------------CCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTBSHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HhCCCHHHHHHHHHHHhCCCHHHHHHHHHHHHHHcccHHHHHHHHHHHHHH--CCCchHHHHHHHHHHHHcCCHHHHHHH
Confidence            3444444444444332212 2245666778888889999999999998765  45 568899999999999999999999


Q ss_pred             HHHHhhcCCCccHHHHHHHHHHHHHcc
Q 046694           88 FDEMQARNVKPTETHYACMVYLLIKYN  114 (118)
Q Consensus        88 ~~~m~~~g~~~~~~t~~~li~~~~~~g  114 (118)
                      |.+-.... .|-...+.+|...|.+..
T Consensus       209 y~ral~~~-~~~~~a~~nL~~~~~~~~  234 (497)
T d1ya0a1         209 YCRSIAVK-FPFPAASTNLQKALSKAL  234 (497)
T ss_dssp             HHHHHSSS-BCCHHHHHHHHHHHHHHT
T ss_pred             HHHHHhCC-CCCHHHHHHHHHHHHHhh
Confidence            99886643 467888888888887654

>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=96.17  E-value=0.038  Score=30.95  Aligned_cols=87  Identities=14%  Similarity=0.022  Sum_probs=60.5

Q ss_pred             hhHHHH--HHHHHhcCCHHHHHHHHHHHHHc--CCCc---------cHHHHHHHHHHHhcCCChhhHHHHHHHHhhc---
Q 046694           31 ASWITL--ILGYGMLGELDVAINLFEAMRED--GVEY---------YPVSHIGVLTACSLGGLVEKGKKFFDEMQAR---   94 (118)
Q Consensus        31 ~~~~~l--i~~~~~~~~~~~a~~~~~~m~~~--~~~p---------~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~---   94 (118)
                      .+|..+  ...+...|++++|+..|++..+-  ..+.         ....|+.+-.+|.+.|++++|...+++..+.   
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            456666  44555679999999999999752  2110         2467889999999999999999999987542   


Q ss_pred             --CCCcc-----HHHHHHHHHHHHHccccc
Q 046694           95 --NVKPT-----ETHYACMVYLLIKYNQKA  117 (118)
Q Consensus        95 --g~~~~-----~~t~~~li~~~~~~g~~~  117 (118)
                        ...++     ...++.+-.+|.+.|+.+
T Consensus        88 ~~~~~~~~~~~~~~a~~~~g~~~~~lg~~e  117 (156)
T d2hr2a1          88 RGELNQDEGKLWISAVYSRALALDGLGRGA  117 (156)
T ss_dssp             HCCTTSTHHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             cccccccccchhHHHHhhhHHHHHHHHHHH
Confidence              12222     224556667777777765

>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=95.97  E-value=0.0013  Score=40.97  Aligned_cols=93  Identities=5%  Similarity=-0.122  Sum_probs=57.2

Q ss_pred             chHHHHHHHhcCCHHHHHHHhhhCC--CC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcC
Q 046694            2 IEPRLDFYTRTGRIDLANKIFDRLP--VK-DSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLG   78 (118)
Q Consensus         2 ~~~ll~~~~~~~~~~~a~~~~~~m~--~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~   78 (118)
                      +..+...|+..|++++|...|++..  .| +...+..+-..+...+..+++..-...-...+-+++..........+...
T Consensus        33 r~~La~lL~~~G~~e~A~~~l~~a~~l~P~~~~~~~~l~~ll~a~~~~~~a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~  112 (264)
T d1zbpa1          33 RSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRHLVKAAQARKDFAQGAATAKVLGENEELTKSLVSFNLSMVS  112 (264)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHHHHHHTTSCCCEECCCSCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhccccHHHHHHhhhhhcccCchHHHHHHHHHHHHHhC
Confidence            3567889999999999999999775  33 44444444444433333332221111101111123445555567778889


Q ss_pred             CChhhHHHHHHHHhhc
Q 046694           79 GLVEKGKKFFDEMQAR   94 (118)
Q Consensus        79 ~~~~~a~~~~~~m~~~   94 (118)
                      |+.++|..++++..+.
T Consensus       113 gd~~~A~~~~~~a~e~  128 (264)
T d1zbpa1         113 QDYEQVSELALQIEEL  128 (264)
T ss_dssp             TCHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHhc
Confidence            9999999999998553

>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=95.88  E-value=0.038  Score=28.40  Aligned_cols=64  Identities=11%  Similarity=-0.077  Sum_probs=49.4

Q ss_pred             HHHHHHhcCCHHHHHHHhhhCC---------CC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCcc-HHHHHH
Q 046694            5 RLDFYTRTGRIDLANKIFDRLP---------VK-DSASWITLILGYGMLGELDVAINLFEAMREDGVEYY-PVSHIG   70 (118)
Q Consensus         5 ll~~~~~~~~~~~a~~~~~~m~---------~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~   70 (118)
                      +-..+.+.|++++|+..|++-.         .+ ...+++.+-.++.+.|++++|++.+++..+.  .|+ ....+.
T Consensus        11 lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l--~P~~~~a~~N   85 (95)
T d1tjca_          11 LGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL--DPEHQRANGN   85 (95)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHh--CcCCHHHHHH
Confidence            4567889999999999887653         11 2457889999999999999999999999875  454 444443

>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=95.61  E-value=0.13  Score=32.82  Aligned_cols=80  Identities=10%  Similarity=0.073  Sum_probs=49.6

Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHH
Q 046694           29 DSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVY  108 (118)
Q Consensus        29 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~  108 (118)
                      +..+|..+...+.+......+.     +...+..........++..|-..|.+++...+++..... -.++...++-++.
T Consensus        68 ~~~~~k~~~~~l~~~~e~~la~-----i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~-~~~~~~~~~~L~~  141 (336)
T d1b89a_          68 STRTWKEVCFACVDGKEFRLAQ-----MCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAI  141 (336)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHH-----HTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS-TTCCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhCcHHHHHH-----HHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcC-CccchHHHHHHHH
Confidence            3344555555555444443321     112223345555567888888999999988888877432 3456777888888


Q ss_pred             HHHHcc
Q 046694          109 LLIKYN  114 (118)
Q Consensus       109 ~~~~~g  114 (118)
                      .|++.+
T Consensus       142 lyak~~  147 (336)
T d1b89a_         142 LYSKFK  147 (336)
T ss_dssp             HHHTTC
T ss_pred             HHHHhC
Confidence            888764

>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=95.42  E-value=0.082  Score=29.07  Aligned_cols=69  Identities=16%  Similarity=0.232  Sum_probs=48.8

Q ss_pred             hHHHHHHHhcCCHHHHHHHhhhCCCC---CHhhHHHHHHHHHhcCCH--HHHHHHHHHHHHcCCCccHHHHHHH
Q 046694            3 EPRLDFYTRTGRIDLANKIFDRLPVK---DSASWITLILGYGMLGEL--DVAINLFEAMREDGVEYYPVSHIGV   71 (118)
Q Consensus         3 ~~ll~~~~~~~~~~~a~~~~~~m~~~---~~~~~~~li~~~~~~~~~--~~a~~~~~~m~~~~~~p~~~~~~~l   71 (118)
                      +.++.-|...|+.++|...++++..|   ....+..+..+.-+.+.-  +.+.+++..+...|+-+....-..+
T Consensus        11 ~~ll~EY~~~~D~~Ea~~~l~eL~~p~~~~e~V~~~i~~ale~~~~~r~~~~~~Ll~~L~~~~~is~~~i~~Gf   84 (129)
T d2nsza1          11 DMLLKEYLLSGDISEAEHCLKELEVPHFHHELVYEAIVMVLESTGESAFKMILDLLKSLWKSSTITIDQMKRGY   84 (129)
T ss_dssp             HHHHHHHHHHCCHHHHHHHHHHHTCGGGHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHTTCSCHHHHHHHH
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHcCCchhhHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHH
Confidence            57888999999999999999998866   334555666666565554  3467799999888765544443333

>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=95.13  E-value=0.11  Score=28.90  Aligned_cols=85  Identities=8%  Similarity=-0.084  Sum_probs=66.2

Q ss_pred             hcCCHHHHHHHhhhCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChhhHHHHHHH
Q 046694           11 RTGRIDLANKIFDRLPVKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVEKGKKFFDE   90 (118)
Q Consensus        11 ~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~   90 (118)
                      +++++......|-.+.. +..-++..++...+.|.-+...++++++.+. -+|++...-.+-.+|.+.|...++.+++.+
T Consensus        68 ~C~Nlk~vv~C~~~~n~-~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn-~~i~~~~llkia~A~kkig~~re~nell~~  145 (161)
T d1wy6a1          68 KCQNLKSVVECGVINNT-LNEHVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIE  145 (161)
T ss_dssp             GCSCTHHHHHHHHHTTC-CCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             hhhcHHHHHHHHHHhcc-hHHHHHHHHHHHHHhccHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHhcchhhHHHHHHH
Confidence            45555555555554442 3345677888999999999999999997664 367888888999999999999999999999


Q ss_pred             HhhcCCC
Q 046694           91 MQARNVK   97 (118)
Q Consensus        91 m~~~g~~   97 (118)
                      .-+.|+.
T Consensus       146 ACe~G~K  152 (161)
T d1wy6a1         146 ACKKGEK  152 (161)
T ss_dssp             HHHTTCH
T ss_pred             HHHHhHH
Confidence            9888874

>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=94.15  E-value=0.12  Score=28.51  Aligned_cols=76  Identities=14%  Similarity=0.146  Sum_probs=55.4

Q ss_pred             CCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcC-----------CHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcC
Q 046694           13 GRIDLANKIFDRLP---VKDSASWITLILGYGMLG-----------ELDVAINLFEAMREDGVEYYPVSHIGVLTACSLG   78 (118)
Q Consensus        13 ~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~-----------~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~   78 (118)
                      +.+++|+..|++..   ..+..+|..+-..|...|           .+++|.+.|++..+  +.|+-..|...+..+   
T Consensus        55 ~~~~~Ai~~~~kAl~l~P~~~~a~~~lG~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~--l~P~~~~~~~~L~~~---  129 (145)
T d1zu2a1          55 QMIQEAITKFEEALLIDPKKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVD--EQPDNTHYLKSLEMT---  129 (145)
T ss_dssp             HHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHH---
T ss_pred             HHHHHHHHHHHHHHHhcchhhHHHhhHHHHHHHcccchhhHHHHHHhHHHhhhhhhcccc--cCCCHHHHHHHHHHH---
Confidence            45678999988664   457788888888887654           36888888888776  468877777766665   


Q ss_pred             CChhhHHHHHHHHhhcCC
Q 046694           79 GLVEKGKKFFDEMQARNV   96 (118)
Q Consensus        79 ~~~~~a~~~~~~m~~~g~   96 (118)
                         ..+.+++.+..+.|+
T Consensus       130 ---~ka~~~~~e~~k~~~  144 (145)
T d1zu2a1         130 ---AKAPQLHAEAYKQGL  144 (145)
T ss_dssp             ---HTHHHHHHHHHHSSS
T ss_pred             ---HHHHHHHHHHHHHhc
Confidence               456777777777664

>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=94.02  E-value=0.21  Score=27.32  Aligned_cols=75  Identities=7%  Similarity=0.012  Sum_probs=51.9

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCCh--hhHHHHHHHHhhcCCCccHHHHHHHH
Q 046694           32 SWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLV--EKGKKFFDEMQARNVKPTETHYACMV  107 (118)
Q Consensus        32 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~--~~a~~~~~~m~~~g~~~~~~t~~~li  107 (118)
                      ....++.-|...++.++|.+.++++...... ...++.++..+.-+.+.-  +.+.+++..+...|+.+....-..+.
T Consensus         9 k~~~ll~EY~~~~D~~Ea~~~l~eL~~p~~~-~e~V~~~i~~ale~~~~~r~~~~~~Ll~~L~~~~~is~~~i~~Gf~   85 (129)
T d2nsza1           9 EIDMLLKEYLLSGDISEAEHCLKELEVPHFH-HELVYEAIVMVLESTGESAFKMILDLLKSLWKSSTITIDQMKRGYE   85 (129)
T ss_dssp             HHHHHHHHHHHHCCHHHHHHHHHHHTCGGGH-HHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHTTCSCHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHcCCchhh-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHH
Confidence            4578999999999999999999998643222 345566666666565543  34677999998888755444433333

>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=93.38  E-value=0.18  Score=33.54  Aligned_cols=73  Identities=11%  Similarity=0.031  Sum_probs=56.6

Q ss_pred             hHHHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHh
Q 046694            3 EPRLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACS   76 (118)
Q Consensus         3 ~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~   76 (118)
                      ..|-..+...|++++|+..|++-.   ..+...|+.+-..+...|+..+|...|.+-.... +|-...+..+...+.
T Consensus       156 ~~LG~l~~~~~~~~~A~~~y~~A~~l~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~-~~~~~a~~nL~~~~~  231 (497)
T d1ya0a1         156 VHLGDIARYRNQTSQAESYYRHAAQLVPSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVK-FPFPAASTNLQKALS  231 (497)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSS-BCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHHHCCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC-CCCHHHHHHHHHHHH
Confidence            345667888999999999998764   4477899999999999999999999998887653 344555555555554

>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=92.72  E-value=0.69  Score=29.38  Aligned_cols=107  Identities=10%  Similarity=-0.005  Sum_probs=64.2

Q ss_pred             HHHHHHhcCCHHHHHHHhhhCCC------------CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccH-------
Q 046694            5 RLDFYTRTGRIDLANKIFDRLPV------------KDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYP-------   65 (118)
Q Consensus         5 ll~~~~~~~~~~~a~~~~~~m~~------------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~-------   65 (118)
                      ++..|-+.+.++++.-++.++..            ++.......+..+.+..+++...++.....+.  .|+.       
T Consensus       167 ~~~~c~~~~l~~elv~Ly~~~~~~~~A~~~~i~~~~~~~~~~~f~e~~~k~~N~e~~~~~i~~yL~~--~p~~i~~lL~~  244 (336)
T d1b89a_         167 VLRAAEQAHLWAELVFLYDKYEEYDNAIITMMNHPTDAWKEGQFKDIITKVANVELYYRAIQFYLEF--KPLLLNDLLMV  244 (336)
T ss_dssp             HHHHHHTTTCHHHHHHHHHHTTCHHHHHHHHHHSTTTTCCHHHHHHHHHHCSSTHHHHHHHHHHHHH--CGGGHHHHHHH
T ss_pred             HHHHHHHcCChHHHHHHHHhcCCHHHHHHHHHHcchhhhhHHHHHHHHHccCChHHHHHHHHHHHHc--CHHHHHHHHHH
Confidence            34455555556666666655542            23344455677777888877777777766543  2322       


Q ss_pred             ----HHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHcccc
Q 046694           66 ----VSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQK  116 (118)
Q Consensus        66 ----~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~  116 (118)
                          ..-..+++.+.+.+++......++.....|   +..+.+++.+.|...++.
T Consensus       245 v~~~~d~~r~V~~~~k~~~l~li~p~Le~v~~~n---~~~vn~al~~lyie~~d~  296 (336)
T d1b89a_         245 LSPRLDHTRAVNYFSKVKQLPLVKPYLRSVQNHN---NKSVNESLNNLFITEEDY  296 (336)
T ss_dssp             HGGGCCHHHHHHHHHHTTCTTTTHHHHHHHHTTC---CHHHHHHHHHHHHHTTCH
T ss_pred             hccCCCHHHHHHHHHhcCCcHHHHHHHHHHHHcC---hHHHHHHHHHHHhCcchh
Confidence                112334444555566666666666655545   457889999999988764

>d1ug3a1 a.118.1.14 (A:1235-1427) Eukaryotic initiation factor eIF4G {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: MIF4G domain-like
domain: Eukaryotic initiation factor eIF4G
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.38  E-value=0.54  Score=27.38  Aligned_cols=91  Identities=8%  Similarity=-0.079  Sum_probs=59.7

Q ss_pred             hHHHHHHHhcCCHHHHHHHhhhCCCCC---HhhHHHHHHHHHhc-CCHHHHHHHHHHHHHcCCCccHHH---HHHHHHHH
Q 046694            3 EPRLDFYTRTGRIDLANKIFDRLPVKD---SASWITLILGYGML-GELDVAINLFEAMREDGVEYYPVS---HIGVLTAC   75 (118)
Q Consensus         3 ~~ll~~~~~~~~~~~a~~~~~~m~~~~---~~~~~~li~~~~~~-~~~~~a~~~~~~m~~~~~~p~~~~---~~~ll~~~   75 (118)
                      .++|.-|...++.++|...++++..|.   ...+..+..+.-+. ..-+.+.+++..+.+.|+-+....   |..++..+
T Consensus        14 ~~il~Ey~~~~D~~Ea~~~l~el~~p~~~~~~V~~~i~~~le~~~~~re~~~~Ll~~L~~~~~is~~~~~~gf~~~l~~l   93 (193)
T d1ug3a1          14 KAIIEEYLHLNDMKEAVQCVQELASPSLLFIFVRHGVESTLERSAIAREHMGQLLHQLLCAGHLSTAQYYQGLYEILELA   93 (193)
T ss_dssp             HHHHHHHHHHCCHHHHHHHHHTTCCGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHcCCchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhh
Confidence            578999999999999999999998763   22333333333222 136778888888988876655433   34444444


Q ss_pred             hc-CCChhhHHHHHHHHhh
Q 046694           76 SL-GGLVEKGKKFFDEMQA   93 (118)
Q Consensus        76 ~~-~~~~~~a~~~~~~m~~   93 (118)
                      -. .-++..|..++.++..
T Consensus        94 ~Dl~iDiP~a~~~la~~~a  112 (193)
T d1ug3a1          94 EDMEIDIPHVWLYLAELVT  112 (193)
T ss_dssp             HHHTTTCTTHHHHHHHHHG
T ss_pred             hhhhhcchHHHHHHHHHHH
Confidence            43 3366678887777743

>d1mzba_ a.4.5.42 (A:) Ferric uptake regulation protein, FUR {Pseudomonas aeruginosa [TaxId: 287]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: FUR-like
domain: Ferric uptake regulation protein, FUR
species: Pseudomonas aeruginosa [TaxId: 287]

Probab=92.35  E-value=0.42  Score=26.02  Aligned_cols=61  Identities=5%  Similarity=0.022  Sum_probs=45.6

Q ss_pred             HHHHcCCCccHHHHHHHHHHHhcCC-ChhhHHHHHHHHhhcCCCccHHHHHHHHHHHHHcccc
Q 046694           55 AMREDGVEYYPVSHIGVLTACSLGG-LVEKGKKFFDEMQARNVKPTETHYACMVYLLIKYNQK  116 (118)
Q Consensus        55 ~m~~~~~~p~~~~~~~ll~~~~~~~-~~~~a~~~~~~m~~~g~~~~~~t~~~li~~~~~~g~~  116 (118)
                      ++++.|++++. .=..+++.+.+.+ ..-.|.++++.+.+.+..++..|.=--++.+.+.|-+
T Consensus         6 ~Lr~~GlR~T~-qR~~Il~~L~~~~~~h~sa~ei~~~l~~~~~~i~~aTVYR~L~~l~e~gli   67 (134)
T d1mzba_           6 ELRKAGLKVTL-PRVKILQMLDSAEQRHMSAEDVYKALMEAGEDVGLATVYRVLTQFEAAGLV   67 (134)
T ss_dssp             HHHHTTCCCCH-HHHHHHHHHHCC-CCSBCHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTSE
T ss_pred             HHHHcCCCCCH-HHHHHHHHHHhCCCCCCCHHHHHHHHHHhCCCccHHHHHHHHHHHHhccEE
Confidence            47888888776 3345667776664 4778899999998888888888777777777777754

>d1ug3a1 a.118.1.14 (A:1235-1427) Eukaryotic initiation factor eIF4G {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: MIF4G domain-like
domain: Eukaryotic initiation factor eIF4G
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.81  E-value=0.26  Score=28.83  Aligned_cols=77  Identities=13%  Similarity=0.149  Sum_probs=48.3

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCC--hhhHHHHHHHHhhcCCCccHHHHHHHHHH
Q 046694           32 SWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGL--VEKGKKFFDEMQARNVKPTETHYACMVYL  109 (118)
Q Consensus        32 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~--~~~a~~~~~~m~~~g~~~~~~t~~~li~~  109 (118)
                      ....+|.-|...++.++|...++++...... ...+...+..+ ...++  -+.+-+++..+.+.|+.+.......+-..
T Consensus        12 k~~~il~Ey~~~~D~~Ea~~~l~el~~p~~~-~~~V~~~i~~~-le~~~~~re~~~~Ll~~L~~~~~is~~~~~~gf~~~   89 (193)
T d1ug3a1          12 KSKAIIEEYLHLNDMKEAVQCVQELASPSLL-FIFVRHGVEST-LERSAIAREHMGQLLHQLLCAGHLSTAQYYQGLYEI   89 (193)
T ss_dssp             HHHHHHHHHHHHCCHHHHHHHHHTTCCGGGH-HHHHHHHHHHH-TTTCHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHcCCchhH-HHHHHHHHHHH-HcCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHH
Confidence            4678899999999999999999998533222 22333333333 33333  34566778888777776555544444444


Q ss_pred             H
Q 046694          110 L  110 (118)
Q Consensus       110 ~  110 (118)
                      +
T Consensus        90 l   90 (193)
T d1ug3a1          90 L   90 (193)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=89.14  E-value=0.88  Score=24.65  Aligned_cols=55  Identities=9%  Similarity=0.184  Sum_probs=38.8

Q ss_pred             CCHHHHHHHHHHHHHcCCCccH-HHHHHHHHHHhcCCChhhHHHHHHHHhhcCCCccHH
Q 046694           44 GELDVAINLFEAMREDGVEYYP-VSHIGVLTACSLGGLVEKGKKFFDEMQARNVKPTET  101 (118)
Q Consensus        44 ~~~~~a~~~~~~m~~~~~~p~~-~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~  101 (118)
                      .+.++++.+|.+..+.+ +.+. ..+--+--+|.+.|++++|.+.++.+.+.  .|+..
T Consensus        52 ~d~~~gI~lLe~~~~~~-p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~i--eP~n~  107 (124)
T d2pqrb1          52 NDERLGVKILTDIYKEA-ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH--ERNNK  107 (124)
T ss_dssp             HHHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCH
T ss_pred             HHHHHHHHHHHHHHhcC-chhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHcc--CCCcH
Confidence            46789999999987653 2232 34344455578999999999999999874  45433

>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=88.71  E-value=0.7  Score=24.15  Aligned_cols=46  Identities=11%  Similarity=0.090  Sum_probs=36.5

Q ss_pred             CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHH
Q 046694           27 VKDSASWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLT   73 (118)
Q Consensus        27 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~   73 (118)
                      .|.+..-.+.+++|-+.+++..|.++|+-.+.. ..++...|.-++.
T Consensus        38 VPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K-~~~~k~~y~yilq   83 (105)
T d1v54e_          38 VPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQ   83 (105)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCcHHHHHHHHH
Confidence            688899999999999999999999999998743 3334556655544

>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=88.50  E-value=1.7  Score=26.62  Aligned_cols=101  Identities=3%  Similarity=-0.181  Sum_probs=60.3

Q ss_pred             cCCHHHHHHHhhhCC--CC-CHhhHHHHH---HHHHh-------cCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcC
Q 046694           12 TGRIDLANKIFDRLP--VK-DSASWITLI---LGYGM-------LGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLG   78 (118)
Q Consensus        12 ~~~~~~a~~~~~~m~--~~-~~~~~~~li---~~~~~-------~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~   78 (118)
                      ....++|..++++..  .| +...|+..-   .....       .|.+++|+.+++...+.. +-+...|.....++...
T Consensus        42 ~~~~~~al~~~~~~l~~~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~-pk~~~~~~~~~~~~~~~  120 (334)
T d1dcea1          42 GELDESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRL  120 (334)
T ss_dssp             TCCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTC
T ss_pred             ccccHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhC-CCcHHHHHHhhHHHHHh
Confidence            334589999998775  44 444454322   22222       345889999999987653 22555666655555555


Q ss_pred             C--ChhhHHHHHHHHhhcCCCccHHHHHHHH-HHHHHcc
Q 046694           79 G--LVEKGKKFFDEMQARNVKPTETHYACMV-YLLIKYN  114 (118)
Q Consensus        79 ~--~~~~a~~~~~~m~~~g~~~~~~t~~~li-~~~~~~g  114 (118)
                      +  +++++...+.+..+... ++...+.... .++...|
T Consensus       121 ~~~~~~~a~~~~~~al~~~~-~~~~~~~~~~~~~~~~~~  158 (334)
T d1dcea1         121 PEPNWARELELCARFLEADE-RNFHCWDYRRFVAAQAAV  158 (334)
T ss_dssp             SSCCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTCC
T ss_pred             ccccHHHHHHHHHHHHhhCc-hhhhhhhhHHHHHHHhcc
Confidence            4  58899999999977532 2344444333 3443333

>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=88.10  E-value=1.2  Score=24.58  Aligned_cols=58  Identities=16%  Similarity=0.169  Sum_probs=48.4

Q ss_pred             HHHHHHhcCCHHHHHHHhhhCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC
Q 046694            5 RLDFYTRTGRIDLANKIFDRLP---VKDSASWITLILGYGMLGELDVAINLFEAMREDGVE   62 (118)
Q Consensus         5 ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~   62 (118)
                      -++...+.|+-++..+++..+.   ++++...-.+-.+|.+.|...++-+++.+.=+.|++
T Consensus        92 ALd~lv~~~kkd~Ld~i~~~l~kn~~i~~~~llkia~A~kkig~~re~nell~~ACe~G~K  152 (161)
T d1wy6a1          92 ALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  152 (161)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHhccHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhHH
Confidence            4667788888888889877733   678888888889999999999999999998888765

>d1u9pa1 a.43.1.1 (A:72-107) Arc repressor {Salmonella bacteriophage P22 [TaxId: 10754]}

class: All alpha proteins
fold: Ribbon-helix-helix
superfamily: Ribbon-helix-helix
family: Arc/Mnt-like phage repressors
domain: Arc repressor
species: Salmonella bacteriophage P22 [TaxId: 10754]

Probab=83.05  E-value=0.87  Score=18.29  Aligned_cols=23  Identities=9%  Similarity=0.024  Sum_probs=10.9

Q ss_pred             hcCCCccHHHHHHHHHHHHHccc
Q 046694           93 ARNVKPTETHYACMVYLLIKYNQ  115 (118)
Q Consensus        93 ~~g~~~~~~t~~~li~~~~~~g~  115 (118)
                      +.|-..+...|.-++..+-+-|+
T Consensus        13 eng~s~ns~iy~~vmes~kkegr   35 (36)
T d1u9pa1          13 ENGRSVNSEIYQRVMESFKKEGR   35 (36)
T ss_dssp             HHTCCHHHHHHHHHHHHHHHTTC
T ss_pred             HcCcchhHHHHHHHHHHHHHccC
Confidence            34444445555555555444443

>d2fnaa1 a.4.5.11 (A:284-356) Hypothetical protein SSO1545, C-terminal domain {Sulfolobus solfataricus [TaxId: 2287]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Helicase DNA-binding domain
domain: Hypothetical protein SSO1545, C-terminal domain
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=80.46  E-value=2.1  Score=20.87  Aligned_cols=49  Identities=14%  Similarity=0.190  Sum_probs=35.0

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCccHHHHHHHHHHHhcCCChh
Q 046694           32 SWITLILGYGMLGELDVAINLFEAMREDGVEYYPVSHIGVLTACSLGGLVE   82 (118)
Q Consensus        32 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~   82 (118)
                      -|-.++.+.+.-..|.+..+.++.  ..|-+.+-.+++.+|+.+.+.|-++
T Consensus         7 RY~~ILkaia~G~rWs~IK~yle~--~~G~~I~d~~ls~lL~nL~k~~~ie   55 (73)
T d2fnaa1           7 RYLNIMRTLSKCGKWSDVKRALEL--EEGIEISDSEIYNYLTQLTKHSWII   55 (73)
T ss_dssp             HHHHHHHHHTTCBCHHHHHHHHHH--HHCSCCCHHHHHHHHHHHHHTTSEE
T ss_pred             HHHHHHHHHHccCcHHHHHHHHHH--HcCCCCChHHHHHHHHHHHHcCcee
Confidence            467777777777777777766655  4465667778888888887777665