Citrus Sinensis ID: 039637

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------16
Protein Sequence
MISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVVK
Secondary Structure (PSIPRED)
ccccccccccHHHHHHHHHHHHHcccccccHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccEEHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHc
Secondary Structure Prediction (SSPRO)
ccHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHcc
Coil and Loop (DISEMBL)
misafcrsgcfeeTKQLagdfeakydkYDVVLLNSMLCaycrtgdmeSVMHVMRKLDelaispdyntFHILIKYFCKEKMYMLAYRTMVDmhrkghqpeeELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVVK
Flexible Loop (DISEMBL)
MISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDElaispdynTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHilisgkllkdaYIVVK
Low Complexity Region (SEG)
MISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVVK
Disordered region (IsUnstruct)
****FCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGH**EEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV*
Disordered Region (DISOPRED)
MISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVVK
Disordered Region (DISEMBL)
MISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVVK
Disordered Region (DISPRO)
MISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVVK
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVVK
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	159	2.2.26 [Sep-21-2011]
Q0WVV0	664	Pentatricopeptide repeat-	yes	no	1.0	0.239	0.723	5e-65
Q0WVK7	741	Pentatricopeptide repeat-	no	no	0.654	0.140	0.280	8e-10
Q9FMF6	730	Pentatricopeptide repeat-	no	no	0.358	0.078	0.337	2e-08
Q9LPX2	644	Pentatricopeptide repeat-	no	no	0.893	0.220	0.253	3e-08
Q9ZQF1	627	Pentatricopeptide repeat-	no	no	0.603	0.153	0.272	3e-08
Q9SH60	666	Pentatricopeptide repeat-	no	no	0.949	0.226	0.238	8e-08
Q9FIX3	747	Pentatricopeptide repeat-	no	no	0.666	0.141	0.299	2e-07
Q9LFC5	729	Pentatricopeptide repeat-	no	no	0.773	0.168	0.259	3e-07
Q6NQ83	619	Pentatricopeptide repeat-	no	no	0.723	0.185	0.277	3e-07
Q9M302	659	Pentatricopeptide repeat-	no	no	0.761	0.183	0.261	4e-07

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

 Score =  246 bits (627), Expect = 5e-65,   Method: Compositional matrix adjust.
 Identities = 115/159 (72%), Positives = 138/159 (86%)

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

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

Query: 121 SVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVVK 159
           SVYNMLRYSKR++CK LHEKILHILI G LLKDAYIVVK
Sbjct: 503 SVYNMLRYSKRTICKELHEKILHILIQGNLLKDAYIVVK 541

Arabidopsis thaliana (taxid: 3702)

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

 Score = 62.8 bits (151), Expect = 8e-10,   Method: Compositional matrix adjust.
 Identities = 30/107 (28%), Positives = 56/107 (52%)

Query: 1   MISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA 60
           +++  C+SG  EE  +L G+FEA     D V   +++ AYC++G+M+    +++++    
Sbjct: 497 IVNGLCKSGNIEEAVKLVGEFEAAGLNADTVTYTTLMDAYCKSGEMDKAQEILKEMLGKG 556

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

Arabidopsis thaliana (taxid: 3702)

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

 Score = 58.5 bits (140), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 26/77 (33%), Positives = 40/77 (51%)

Query: 1   MISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA 60
           +I+  CRSG  EE  +   +   +    D+V  NS++   CR G +E  + + RKL    
Sbjct: 605 LINGLCRSGMVEEAVEFQKEMVLRGSTPDIVTFNSLINGLCRAGRIEDGLTMFRKLQAEG 664

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

Arabidopsis thaliana (taxid: 3702)

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

 Score = 57.8 bits (138), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 38/150 (25%), Positives = 70/150 (46%), Gaps = 8/150 (5%)

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

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

Query: 121 SVYNMLRYSKRSMCKALHEKIL--HILISG 148
            + +++      + K     I+  +ILI+G
Sbjct: 389 QMVDLM------ISKGCDPDIMTFNILING 412

Arabidopsis thaliana (taxid: 3702)

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

 Score = 57.8 bits (138), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 27/99 (27%), Positives = 55/99 (55%)

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

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

Arabidopsis thaliana (taxid: 3702)

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

 Score = 56.2 bits (134), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 37/155 (23%), Positives = 73/155 (47%), Gaps = 4/155 (2%)

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

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

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

Arabidopsis thaliana (taxid: 3702)

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

 Score = 54.7 bits (130), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 32/107 (29%), Positives = 57/107 (53%)

Query: 1   MISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA 60
           +I+  C +G  E+   +  D + K    DVV  +++L  +CR+ D++  + V R++ E  
Sbjct: 421 LINGHCVTGKMEDAIAVLEDMKEKGLSPDVVSYSTVLSGFCRSYDVDEALRVKREMVEKG 480

Query: 61  ISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLI 107
           I PD  T+  LI+ FC+++    A     +M R G  P+E   ++LI
Sbjct: 481 IKPDTITYSSLIQGFCEQRRTKEACDLYEEMLRVGLPPDEFTYTALI 527

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LFC5|PP360_ARATH Pentatricopeptide repeat-containing protein At5g01110 OS=Arabidopsis thaliana GN=At5g01110 PE=2 SV=1

 Score = 54.3 bits (129), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 33/127 (25%), Positives = 53/127 (41%)

Query: 1   MISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA 60
           M++A C+ G  E+        + K    D+V  N+++ AY   G ME    +M  +    
Sbjct: 241 MVNALCKDGKMEKVGTFLSQVQEKGVYPDIVTYNTLISAYSSKGLMEEAFELMNAMPGKG 300

Query: 61  ISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEAL 120
            SP   T++ +I   CK   Y  A     +M R G  P+     SL+    K     E  
Sbjct: 301 FSPGVYTYNTVINGLCKHGKYERAKEVFAEMLRSGLSPDSTTYRSLLMEACKKGDVVETE 360

Query: 121 SVYNMLR 127
            V++ +R
Sbjct: 361 KVFSDMR 367

Arabidopsis thaliana (taxid: 3702)

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

 Score = 54.3 bits (129), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 35/126 (27%), Positives = 59/126 (46%)

Query: 1   MISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA 60
           +I + C+ G F++   L  + E K  K DVV  +S++   C  G  +    ++R++    
Sbjct: 251 VIDSLCKDGSFDDALSLFNEMEMKGIKADVVTYSSLIGGLCNDGKWDDGAKMLREMIGRN 310

Query: 61  ISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEAL 120
           I PD  TF  LI  F KE   + A     +M  +G  P+    +SLI    K     EA 
Sbjct: 311 IIPDVVTFSALIDVFVKEGKLLEAKELYNEMITRGIAPDTITYNSLIDGFCKENCLHEAN 370

Query: 121 SVYNML 126
            +++++
Sbjct: 371 QMFDLM 376

Arabidopsis thaliana (taxid: 3702)

>sp|Q9M302|PP270_ARATH Pentatricopeptide repeat-containing protein At3g48810 OS=Arabidopsis thaliana GN=At3g48810 PE=2 SV=1

 Score = 53.9 bits (128), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 33/126 (26%), Positives = 58/126 (46%), Gaps = 5/126 (3%)

Query: 1   MISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA 60
           +IS+ C  G  +E ++LA  FE     Y     N+++   C+  D +    +MR++ E  
Sbjct: 222 VISSMCEVGLVKEGRELAERFEPVVSVY-----NALINGLCKEHDYKGAFELMREMVEKG 276

Query: 61  ISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEAL 120
           ISP+  ++  LI   C      LA+  +  M ++G  P     SSL+          +AL
Sbjct: 277 ISPNVISYSTLINVLCNSGQIELAFSFLTQMLKRGCHPNIYTLSSLVKGCFLRGTTFDAL 336

Query: 121 SVYNML 126
            ++N +
Sbjct: 337 DLWNQM 342

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	159
359486048	659	PREDICTED: pentatricopeptide repeat-cont	1.0	0.241	0.823	2e-75
224073298	378	predicted protein [Populus trichocarpa]	1.0	0.420	0.805	3e-73
224058965	562	predicted protein [Populus trichocarpa]	1.0	0.282	0.786	7e-71
255576798	672	pentatricopeptide repeat-containing prot	1.0	0.236	0.773	1e-70
449446895	668	PREDICTED: pentatricopeptide repeat-cont	1.0	0.238	0.773	3e-70
356525958	630	PREDICTED: pentatricopeptide repeat-cont	1.0	0.252	0.742	2e-67
357445509	627	Pentatricopeptide repeat-containing prot	1.0	0.253	0.723	4e-66
145335386	664	pentatricopeptide repeat-containing prot	1.0	0.239	0.723	3e-63
297843920	665	hypothetical protein ARALYDRAFT_888388 [	1.0	0.239	0.735	1e-62
1931651	652	membrane-associated salt-inducible prote	0.924	0.225	0.654	1e-53

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

 Score =  286 bits (733), Expect = 2e-75,   Method: Compositional matrix adjust.
 Identities = 131/159 (82%), Positives = 148/159 (93%)

Query: 1   MISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA 60
           MISAFCRSG  +E KQLA DFEA YDKYD+V+LN+MLCAYCR G+MESVM +MRK+DELA
Sbjct: 387 MISAFCRSGLLKEAKQLARDFEATYDKYDLVMLNTMLCAYCRAGEMESVMQMMRKMDELA 446

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

Query: 121 SVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVVK 159
           SVYNMLRYSKR+MCKALHEKILHIL++G+LLKDAY+VVK
Sbjct: 507 SVYNMLRYSKRTMCKALHEKILHILVAGRLLKDAYVVVK 545

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  279 bits (713), Expect = 3e-73,   Method: Compositional matrix adjust.
 Identities = 128/159 (80%), Positives = 146/159 (91%)

Query: 1   MISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA 60
           MIS+FCR G FEE K+LA +FEAKYDKYDV + N++LCAYCR G+MESVM  MRK+DELA
Sbjct: 172 MISSFCRGGLFEEAKELAEEFEAKYDKYDVAISNAILCAYCRAGEMESVMRTMRKMDELA 231

Query: 61  ISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEAL 120
           ISPDYNTFHILIKYFCKEK+YMLAY+TM DMHRKGHQP EELCSSL+FHLGK++AHSEA 
Sbjct: 232 ISPDYNTFHILIKYFCKEKLYMLAYQTMEDMHRKGHQPAEELCSSLLFHLGKIKAHSEAF 291

Query: 121 SVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVVK 159
           SVY+ML+YSKR+MCKA HEKILHILI+GKLLKDAY+VVK
Sbjct: 292 SVYSMLKYSKRTMCKAFHEKILHILIAGKLLKDAYVVVK 330

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  271 bits (693), Expect = 7e-71,   Method: Compositional matrix adjust.
 Identities = 125/159 (78%), Positives = 144/159 (90%)

Query: 1   MISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA 60
           MIS+FCR G FEE K+LA +FEAKYDKYDVV+LN++LCAYCRTG+ ESVM  MRK+DELA
Sbjct: 290 MISSFCRGGLFEEAKELAEEFEAKYDKYDVVILNTILCAYCRTGEKESVMRTMRKMDELA 349

Query: 61  ISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEAL 120
           ISPDYNTFHILIKYFCKEK+YMLAY+TM DMHRKGHQP EELCSSLI HLGK++AH+EA 
Sbjct: 350 ISPDYNTFHILIKYFCKEKLYMLAYQTMEDMHRKGHQPMEELCSSLILHLGKIKAHAEAF 409

Query: 121 SVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVVK 159
           SVY+ML+ SKR+M KA HE ILHILI+G+LLKDAY+VVK
Sbjct: 410 SVYSMLKSSKRTMSKAFHEDILHILIAGRLLKDAYVVVK 448

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  270 bits (690), Expect = 1e-70,   Method: Compositional matrix adjust.
 Identities = 123/159 (77%), Positives = 141/159 (88%)

Query: 1   MISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA 60
           MISA+CR    EE KQLA +FEAKYDKYDVV+LN+MLCAYCR GDMESVM  MRK+DELA
Sbjct: 398 MISAYCRGRLLEEAKQLAKEFEAKYDKYDVVILNTMLCAYCRAGDMESVMQTMRKMDELA 457

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

Query: 121 SVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVVK 159
           SVY ML+Y KR+MCKALHEKILH+L+ G+LLKDAY+VVK
Sbjct: 518 SVYTMLKYGKRTMCKALHEKILHVLLGGQLLKDAYVVVK 556

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  269 bits (687), Expect = 3e-70,   Method: Compositional matrix adjust.
 Identities = 123/159 (77%), Positives = 143/159 (89%)

Query: 1   MISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA 60
           MISAFCR G  EE K LA DFEA YD+YD+V+LN+MLCAYCR G+MESVM ++RK+D+LA
Sbjct: 389 MISAFCRGGLLEEAKLLAKDFEATYDRYDIVILNTMLCAYCRAGEMESVMQMLRKMDDLA 448

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

Query: 121 SVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVVK 159
           SVYN+L+YSKR+MCKALHEKILHILI+G+LLKDAY+VVK
Sbjct: 509 SVYNILKYSKRTMCKALHEKILHILIAGRLLKDAYVVVK 547

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  259 bits (662), Expect = 2e-67,   Method: Compositional matrix adjust.
 Identities = 118/159 (74%), Positives = 140/159 (88%)

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

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

Query: 121 SVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVVK 159
           SVYNML+YSKR+MCK+LHEKILHIL++G+LLKDAY+VVK
Sbjct: 477 SVYNMLKYSKRTMCKSLHEKILHILLAGQLLKDAYVVVK 515

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  255 bits (652), Expect = 4e-66,   Method: Compositional matrix adjust.
 Identities = 115/159 (72%), Positives = 140/159 (88%)

Query: 1   MISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA 60
           +ISAFCR+  F+E KQLA DF+  +DKYDVV++NSMLCA+CR G+MESVM  +RK+DELA
Sbjct: 355 IISAFCRAKLFQEAKQLAKDFQTTFDKYDVVIMNSMLCAFCRAGEMESVMETLRKMDELA 414

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

Query: 121 SVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVVK 159
           S+YNMLRYSKR++ KALHEKILHIL++GKLLKDAY+V K
Sbjct: 475 SLYNMLRYSKRTIGKALHEKILHILLAGKLLKDAYVVFK 513

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  246 bits (627), Expect = 3e-63,   Method: Compositional matrix adjust.
 Identities = 115/159 (72%), Positives = 138/159 (86%)

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

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

Query: 121 SVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVVK 159
           SVYNMLRYSKR++CK LHEKILHILI G LLKDAYIVVK
Sbjct: 503 SVYNMLRYSKRTICKELHEKILHILIQGNLLKDAYIVVK 541

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  243 bits (621), Expect = 1e-62,   Method: Compositional matrix adjust.
 Identities = 117/159 (73%), Positives = 137/159 (86%)

Query: 1   MISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA 60
           MISA CRS  FEE K+L+ D E  Y+K D+V+LN+MLCAYCR G+MESVM +M+K+DE A
Sbjct: 384 MISALCRSKRFEEAKELSRDSETTYEKCDLVMLNTMLCAYCRAGEMESVMRMMKKMDEQA 443

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

Query: 121 SVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVVK 159
           SVYNMLRYSKR++CK LHEKILHILI G LLKDAYIVVK
Sbjct: 504 SVYNMLRYSKRTICKELHEKILHILIHGDLLKDAYIVVK 542

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  214 bits (544), Expect = 1e-53,   Method: Compositional matrix adjust.
 Identities = 104/159 (65%), Positives = 126/159 (79%), Gaps = 12/159 (7%)

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

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

Query: 121 SVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVVK 159
           SVYNMLRYSKR++CK LHEKILHILI G LLKDAYIVVK
Sbjct: 491 SVYNMLRYSKRTICKELHEKILHILIQGNLLKDAYIVVK 529

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

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	159
TAIR|locus:2197424	664	EMB3103 "EMBRYO DEFECTIVE 3103	1.0	0.239	0.723	1.5e-60
TAIR|locus:2024537	666	AT1G64100 [Arabidopsis thalian	0.949	0.226	0.238	9.4e-09
TAIR|locus:2053552	627	AT2G15630 "AT2G15630" [Arabido	0.672	0.170	0.271	2.3e-08
TAIR|locus:2139732	566	AT4G11690 [Arabidopsis thalian	1.0	0.280	0.220	6.9e-08
TAIR|locus:2177028	816	AT5G12100 [Arabidopsis thalian	0.987	0.192	0.229	6.9e-08
TAIR|locus:2170538	610	AT5G40400 "AT5G40400" [Arabido	0.974	0.254	0.262	9.8e-08
TAIR|locus:1009023134	644	AT1G12775 [Arabidopsis thalian	0.792	0.195	0.253	1.1e-07
TAIR|locus:2077061	619	AT3G22470 "AT3G22470" [Arabido	0.974	0.250	0.2	1.3e-07
TAIR|locus:2164910	747	EMB2745 "EMBRYO DEFECTIVE 2745	0.672	0.143	0.299	1.7e-07
TAIR|locus:2156213	637	AT5G65820 [Arabidopsis thalian	0.798	0.199	0.255	1.7e-07

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

 Score = 620 (223.3 bits), Expect = 1.5e-60, P = 1.5e-60
 Identities = 115/159 (72%), Positives = 138/159 (86%)

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

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

Query:   121 SVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVVK 159
             SVYNMLRYSKR++CK LHEKILHILI G LLKDAYIVVK
Sbjct:   503 SVYNMLRYSKRTICKELHEKILHILIQGNLLKDAYIVVK 541

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

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

 Score = 142 (55.0 bits), Expect = 9.4e-09, P = 9.4e-09
 Identities = 37/155 (23%), Positives = 73/155 (47%)

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

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

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

GO:0003677 "DNA binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=ISM

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

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

 Score = 138 (53.6 bits), Expect = 2.3e-08, P = 2.3e-08
 Identities = 29/107 (27%), Positives = 59/107 (55%)

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

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

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0008150 "biological_process" evidence=ND

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

 Score = 133 (51.9 bits), Expect = 6.9e-08, P = 6.9e-08
 Identities = 35/159 (22%), Positives = 73/159 (45%)

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

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

Query:   121 SVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVVK 159
              +   +   + +   A +  ++ +L   +  K+A  +V+
Sbjct:   499 KLLKEMEEKELAPNVASYRYMIEVLCKERKSKEAERLVE 537

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 135 (52.6 bits), Expect = 6.9e-08, P = 6.9e-08
 Identities = 36/157 (22%), Positives = 72/157 (45%)

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

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

Query:   121 SVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIV 157
              +   +  +        +  +++ L  G  L +A IV
Sbjct:   480 DILKEMEDNGTMPNVVSYGTLINCLCKGSKLLEAQIV 516

GO:0005739 "mitochondrion" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IDA

TAIR|locus:2170538 AT5G40400 "AT5G40400" [Arabidopsis thaliana (taxid:3702)]

 Score = 132 (51.5 bits), Expect = 9.8e-08, P = 9.8e-08
 Identities = 43/164 (26%), Positives = 76/164 (46%)

Query:     1 MISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA 60
             + + FC    F E        E +  + D+V  N+++ +YCR G ++   ++ + +    
Sbjct:   242 LTNVFCNDSNFREVDDFLEKMEEEGFEPDLVTYNTLVSSYCRRGRLKEAFYLYKIMYRRR 301

Query:    61 ISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGK--MRAHSE 118
             + PD  T+  LIK  CK+     A++T   M  +G +P+    ++LI+   K  M   S+
Sbjct:   302 VVPDLVTYTSLIKGLCKDGRVREAHQTFHRMVDRGIKPDCMSYNTLIYAYCKEGMMQQSK 361

Query:   119 ALSVYNMLRYS---KRSMCKALHEKILHILISGKLLKDAYIVVK 159
              L ++ ML  S    R  CK + E  +     G+LL     VV+
Sbjct:   362 KL-LHEMLGNSVVPDRFTCKVIVEGFVR---EGRLLSAVNFVVE 401

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 132 (51.5 bits), Expect = 1.1e-07, P = 1.1e-07
 Identities = 32/126 (25%), Positives = 60/126 (47%)

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

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

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

GO:0005739 "mitochondrion" evidence=ISM

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

 Score = 131 (51.2 bits), Expect = 1.3e-07, P = 1.3e-07
 Identities = 31/155 (20%), Positives = 72/155 (46%)

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

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

Query:   121 SVYNMLRYSKRSMCKALHEKILHILISGKLLKDAY 155
              ++  ++ S+ ++   ++  I+H + +   + DA+
Sbjct:   476 EIFEKMQKSRMTLGIGIYNIIIHGMCNASKVDDAW 510

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 131 (51.2 bits), Expect = 1.7e-07, P = 1.7e-07
 Identities = 32/107 (29%), Positives = 57/107 (53%)

Query:     1 MISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA 60
             +I+  C +G  E+   +  D + K    DVV  +++L  +CR+ D++  + V R++ E  
Sbjct:   421 LINGHCVTGKMEDAIAVLEDMKEKGLSPDVVSYSTVLSGFCRSYDVDEALRVKREMVEKG 480

Query:    61 ISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLI 107
             I PD  T+  LI+ FC+++    A     +M R G  P+E   ++LI
Sbjct:   481 IKPDTITYSSLIQGFCEQRRTKEACDLYEEMLRVGLPPDEFTYTALI 527

GO:0005739 "mitochondrion" evidence=ISM;IDA

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

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

 Score = 130 (50.8 bits), Expect = 1.7e-07, P = 1.7e-07
 Identities = 33/129 (25%), Positives = 60/129 (46%)

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

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

Query:   121 SVY-NMLRY 128
              V+  M RY
Sbjct:   343 KVFVEMERY 351

GO:0005739 "mitochondrion" evidence=ISM

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q0WVV0	PPR31_ARATH	No assigned EC number	0.7232	1.0	0.2394	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: GSVIVG00026521001 SubName- Full=Chromosome chr12 scaffold_38, whole genome shotgun sequence; (644 aa) (Vitis vinifera)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	159
pfam13041	50	pfam13041, PPR_2, PPR repeat family	4e-07

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

 Score = 44.3 bits (106), Expect = 4e-07
 Identities = 16/49 (32%), Positives = 28/49 (57%)

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

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	159
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	99.98
PLN03077	857	Protein ECB2; Provisional	99.97
PLN03077	857	Protein ECB2; Provisional	99.97
PF13041	50	PPR_2: PPR repeat family	99.74
PF13041	50	PPR_2: PPR repeat family	99.67
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.66
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.66
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.53
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.53
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.49
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.48
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.45
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.45
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.43
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.39
PRK12370	553	invasion protein regulator; Provisional	99.35
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.33
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.32
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.3
PF12854	34	PPR_1: PPR repeat	99.29
PRK12370	553	invasion protein regulator; Provisional	99.27
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.24
PF12854	34	PPR_1: PPR repeat	99.24
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.21
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.21
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.19
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.17
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.15
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.15
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.14
PRK11189	296	lipoprotein NlpI; Provisional	99.13
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.13
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.1
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	99.1
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.09
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.08
PRK10370	198	formate-dependent nitrite reductase complex subuni	99.04
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.02
PRK14574	822	hmsH outer membrane protein; Provisional	99.0
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	98.97
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.95
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.94
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	98.93
PRK14574	822	hmsH outer membrane protein; Provisional	98.92
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	98.92
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.92
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	98.91
KOG1126	638	consensus DNA-binding cell division cycle control	98.91
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.9
KOG1129	478	consensus TPR repeat-containing protein [General f	98.9
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.9
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.89
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	98.86
PRK11189	296	lipoprotein NlpI; Provisional	98.84
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	98.84
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.84
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.83
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.82
KOG0547	606	consensus Translocase of outer mitochondrial membr	98.81
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.81
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.8
KOG1126	638	consensus DNA-binding cell division cycle control	98.8
PRK15359	144	type III secretion system chaperone protein SscB;	98.79
KOG2003	840	consensus TPR repeat-containing protein [General f	98.78
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.76
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	98.74
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.73
PRK15359	144	type III secretion system chaperone protein SscB;	98.72
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.71
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.7
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.69
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	98.69
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.69
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.69
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.68
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.67
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.66
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.65
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.65
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.61
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	98.61
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	98.6
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.58
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	98.57
KOG1129	478	consensus TPR repeat-containing protein [General f	98.57
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	98.57
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.56
KOG2076	895	consensus RNA polymerase III transcription factor	98.55
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.53
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.51
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.5
KOG2003	840	consensus TPR repeat-containing protein [General f	98.5
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.49
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.49
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.48
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.46
KOG2076	895	consensus RNA polymerase III transcription factor	98.44
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.43
KOG0547	606	consensus Translocase of outer mitochondrial membr	98.43
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	98.41
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	98.4
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	98.38
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	98.38
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.37
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	98.33
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	98.31
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	98.29
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.29
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	98.28
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.28
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	98.26
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.26
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	98.26
KOG1915	677	consensus Cell cycle control protein (crooked neck	98.25
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.24
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.22
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.22
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.22
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.18
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	98.17
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	98.15
KOG0495	913	consensus HAT repeat protein [RNA processing and m	98.14
KOG1125	579	consensus TPR repeat-containing protein [General f	98.13
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.13
KOG0495	913	consensus HAT repeat protein [RNA processing and m	98.12
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.12
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.12
PF13371	73	TPR_9: Tetratricopeptide repeat	98.12
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.09
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.09
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	98.09
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	98.07
KOG1915	677	consensus Cell cycle control protein (crooked neck	98.07
KOG0553	304	consensus TPR repeat-containing protein [General f	98.06
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	98.05
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	98.04
PF03704	146	BTAD: Bacterial transcriptional activator domain;	98.03
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.0
KOG1125	579	consensus TPR repeat-containing protein [General f	97.99
PLN02789	320	farnesyltranstransferase	97.98
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	97.98
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.97
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	97.91
KOG1128	777	consensus Uncharacterized conserved protein, conta	97.91
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.88
PF12688	120	TPR_5: Tetratrico peptide repeat	97.88
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.85
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.85
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.84
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.83
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	97.82
PF12688	120	TPR_5: Tetratrico peptide repeat	97.8
PRK10803	263	tol-pal system protein YbgF; Provisional	97.8
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.8
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.79
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	97.78
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.77
PRK10803	263	tol-pal system protein YbgF; Provisional	97.77
PRK14720	906	transcript cleavage factor/unknown domain fusion p	97.76
PRK04841	903	transcriptional regulator MalT; Provisional	97.75
KOG0553	304	consensus TPR repeat-containing protein [General f	97.74
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.73
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.71
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	97.7
KOG1128	777	consensus Uncharacterized conserved protein, conta	97.69
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.69
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.67
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	97.62
smart00299	140	CLH Clathrin heavy chain repeat homology.	97.62
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.61
PLN02789	320	farnesyltranstransferase	97.6
PRK15331	165	chaperone protein SicA; Provisional	97.59
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	97.59
KOG3785	557	consensus Uncharacterized conserved protein [Funct	97.59
KOG3616	1636	consensus Selective LIM binding factor [Transcript	97.56
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	97.54
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.53
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	97.51
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	97.5
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	97.49
PF13371	73	TPR_9: Tetratricopeptide repeat	97.48
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.41
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.41
KOG3941	406	consensus Intermediate in Toll signal transduction	97.37
KOG3616	1636	consensus Selective LIM binding factor [Transcript	97.3
PRK04841	903	transcriptional regulator MalT; Provisional	97.28
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.24
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.22
KOG2376	652	consensus Signal recognition particle, subunit Srp	97.22
KOG3941	406	consensus Intermediate in Toll signal transduction	97.21
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	97.19
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	97.17
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	97.14
COG3629	280	DnrI DNA-binding transcriptional activator of the	97.09
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	97.09
KOG2047	835	consensus mRNA splicing factor [RNA processing and	97.05
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	96.99
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	96.96
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	96.95
smart00299	140	CLH Clathrin heavy chain repeat homology.	96.91
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	96.89
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.88
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.87
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	96.79
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	96.78
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	96.77
KOG4340	459	consensus Uncharacterized conserved protein [Funct	96.77
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.76
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.75
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	96.74
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	96.73
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.73
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	96.68
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	96.67
PRK15331	165	chaperone protein SicA; Provisional	96.63
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.62
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	96.62
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	96.61
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	96.59
KOG4555	175	consensus TPR repeat-containing protein [Function	96.58
COG3629	280	DnrI DNA-binding transcriptional activator of the	96.57
PF13929	292	mRNA_stabil: mRNA stabilisation	96.53
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.5
PF13428	44	TPR_14: Tetratricopeptide repeat	96.45
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	96.43
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	96.43
PF13428	44	TPR_14: Tetratricopeptide repeat	96.39
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	96.36
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	96.28
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	96.25
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.19
KOG2047	835	consensus mRNA splicing factor [RNA processing and	96.14
KOG4570	418	consensus Uncharacterized conserved protein [Funct	96.13
KOG4555	175	consensus TPR repeat-containing protein [Function	96.09
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	96.09
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.08
COG4105	254	ComL DNA uptake lipoprotein [General function pred	96.01
KOG2610	491	consensus Uncharacterized conserved protein [Funct	95.99
PF13431	34	TPR_17: Tetratricopeptide repeat	95.92
COG3118	304	Thioredoxin domain-containing protein [Posttransla	95.88
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	95.8
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	95.79
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	95.79
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	95.77
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	95.76
KOG4077	149	consensus Cytochrome c oxidase, subunit Va/COX6 [E	95.72
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	95.71
KOG4570	418	consensus Uncharacterized conserved protein [Funct	95.63
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	95.62
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	95.59
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	95.58
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	95.55
PF13512	142	TPR_18: Tetratricopeptide repeat	95.41
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	95.35
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	95.32
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	95.27
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	95.24
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	95.22
PF13512	142	TPR_18: Tetratricopeptide repeat	95.15
COG3898	531	Uncharacterized membrane-bound protein [Function u	94.99
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	94.92
KOG2610	491	consensus Uncharacterized conserved protein [Funct	94.9
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	94.88
COG3898	531	Uncharacterized membrane-bound protein [Function u	94.8
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	94.79
COG4455	273	ImpE Protein of avirulence locus involved in tempe	94.75
PRK11906	458	transcriptional regulator; Provisional	94.73
KOG2041	1189	consensus WD40 repeat protein [General function pr	94.59
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	94.51
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	94.5
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	94.47
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	94.44
KOG1585	308	consensus Protein required for fusion of vesicles	94.44
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	94.24
COG0457	291	NrfG FOG: TPR repeat [General function prediction	94.2
KOG4077	149	consensus Cytochrome c oxidase, subunit Va/COX6 [E	94.19
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	94.19
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	94.14
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	94.01
KOG4648	536	consensus Uncharacterized conserved protein, conta	94.0
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	93.98
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	93.91
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	93.79
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	93.73
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	93.4
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	93.35
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	93.25
COG3947	361	Response regulator containing CheY-like receiver a	92.81
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	92.8
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	92.63
PF13431	34	TPR_17: Tetratricopeptide repeat	92.55
KOG1550	552	consensus Extracellular protein SEL-1 and related	92.48
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	92.44
PF13929	292	mRNA_stabil: mRNA stabilisation	92.36
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	92.32
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	92.17
COG1747	711	Uncharacterized N-terminal domain of the transcrip	92.08
COG0735	145	Fur Fe2+/Zn2+ uptake regulation proteins [Inorgani	91.97
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	91.95
COG0457	291	NrfG FOG: TPR repeat [General function prediction	91.94
COG3118	304	Thioredoxin domain-containing protein [Posttransla	91.86
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	91.85
KOG2908	380	consensus 26S proteasome regulatory complex, subun	91.77
KOG4648	536	consensus Uncharacterized conserved protein, conta	91.67
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	91.66
KOG2063	877	consensus Vacuolar assembly/sorting proteins VPS39	91.54
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	91.52
COG0735	145	Fur Fe2+/Zn2+ uptake regulation proteins [Inorgani	91.44
PF14669	233	Asp_Glu_race_2: Putative aspartate racemase	91.41
PF11846	193	DUF3366: Domain of unknown function (DUF3366); Int	90.63
PF13762	145	MNE1: Mitochondrial splicing apparatus component	90.62
COG4455	273	ImpE Protein of avirulence locus involved in tempe	90.6
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	90.46
PRK11639	169	zinc uptake transcriptional repressor; Provisional	89.91
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	89.73
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	89.58
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	89.29
PF11838	324	ERAP1_C: ERAP1-like C-terminal domain; InterPro: I	89.28
KOG1941	518	consensus Acetylcholine receptor-associated protei	89.03
PF13762	145	MNE1: Mitochondrial splicing apparatus component	88.93
PF11848	48	DUF3368: Domain of unknown function (DUF3368); Int	88.91
PF11848	48	DUF3368: Domain of unknown function (DUF3368); Int	88.69
COG5159	421	RPN6 26S proteasome regulatory complex component [	88.67
cd08819	88	CARD_MDA5_2 Caspase activation and recruitment dom	88.49
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	88.4
PF11817	247	Foie-gras_1: Foie gras liver health family 1; Inte	88.32
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	88.08
PF11663	140	Toxin_YhaV: Toxin with endonuclease activity YhaV;	88.05
KOG4567	370	consensus GTPase-activating protein [General funct	87.55
PF11846	193	DUF3366: Domain of unknown function (DUF3366); Int	87.44
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	87.43
PF12926	88	MOZART2: Mitotic-spindle organizing gamma-tubulin	87.31
COG3947	361	Response regulator containing CheY-like receiver a	87.28
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	87.06
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	86.57
PRK10564	303	maltose regulon periplasmic protein; Provisional	86.2
PF13934	226	ELYS: Nuclear pore complex assembly	85.69
cd00280	200	TRFH Telomeric Repeat binding Factor or TTAGGG Rep	85.67
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	85.64
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	85.51
smart00386	33	HAT HAT (Half-A-TPR) repeats. Present in several R	85.46
PF10366	108	Vps39_1: Vacuolar sorting protein 39 domain 1; Int	85.4
PF09454	65	Vps23_core: Vps23 core domain; InterPro: IPR017916	85.1
cd08819	88	CARD_MDA5_2 Caspase activation and recruitment dom	85.03
PF01475	120	FUR: Ferric uptake regulator family; InterPro: IPR	84.88
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	84.82
PF14689	62	SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical do	84.74
PF11768	545	DUF3312: Protein of unknown function (DUF3312); In	84.72
PRK10564	303	maltose regulon periplasmic protein; Provisional	84.61
cd07153	116	Fur_like Ferric uptake regulator(Fur) and related	84.46
PF02847	113	MA3: MA3 domain; InterPro: IPR003891 This entry re	84.27
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	84.21
KOG4234	271	consensus TPR repeat-containing protein [General f	84.13
PRK11906	458	transcriptional regulator; Provisional	84.08
PF14669	233	Asp_Glu_race_2: Putative aspartate racemase	84.08
PF11663	140	Toxin_YhaV: Toxin with endonuclease activity YhaV;	84.06
PF09797	365	NatB_MDM20: N-acetyltransferase B complex (NatB) n	84.05
KOG2063	877	consensus Vacuolar assembly/sorting proteins VPS39	83.91
PF09454	65	Vps23_core: Vps23 core domain; InterPro: IPR017916	83.67
PRK09462	148	fur ferric uptake regulator; Provisional	83.48
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	83.41
PRK11639	169	zinc uptake transcriptional repressor; Provisional	82.76
PF02847	113	MA3: MA3 domain; InterPro: IPR003891 This entry re	82.42
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	82.2
COG1747	711	Uncharacterized N-terminal domain of the transcrip	82.14
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	82.11
KOG2422	665	consensus Uncharacterized conserved protein [Funct	81.8
PF09477	116	Type_III_YscG: Bacterial type II secretion system	81.64
PF10475	291	DUF2450: Protein of unknown function N-terminal do	81.38
cd07153	116	Fur_like Ferric uptake regulator(Fur) and related	81.32
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	81.19
PRK09462	148	fur ferric uptake regulator; Provisional	81.0
cd00280	200	TRFH Telomeric Repeat binding Factor or TTAGGG Rep	80.82
PF13934	226	ELYS: Nuclear pore complex assembly	80.72
PF03745	62	DUF309: Domain of unknown function (DUF309); Inter	80.49
COG5159	421	RPN6 26S proteasome regulatory complex component [	80.48
PF11817	247	Foie-gras_1: Foie gras liver health family 1; Inte	80.3
KOG0403	645	consensus Neoplastic transformation suppressor Pdc	80.22

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=3.7e-34  Score=219.55  Aligned_cols=157  Identities=16%  Similarity=0.191  Sum_probs=100.3

Q ss_pred             hhHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChH
Q 039637            2 ISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMY   81 (159)
Q Consensus         2 l~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~   81 (159)
                      |++|++.|++++|.++|+.|.+.|+.|+..+||++|.+|++.|++++|.++|++|.+.|+.||..||+.++++|++.|++
T Consensus       586 I~ay~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~  665 (1060)
T PLN03218        586 MKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDL  665 (1060)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCH
Confidence            55666666666666666666666666666666666666666666666666666666666666666666666666666666


Q ss_pred             HHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637           82 MLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      ++|.+++++|.+.|+.|+..+|+++|.+|++.|++++|.++|++|...+..||..+|+.+|.+|++.|++++|.++|
T Consensus       666 eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf  742 (1060)
T PLN03218        666 DKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVL  742 (1060)
T ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            66666666666666666666666666666666666666666666665566666666666666666666666666554

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=6.2e-34  Score=218.35  Aligned_cols=157  Identities=13%  Similarity=0.133  Sum_probs=83.4

Q ss_pred             hhHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChH
Q 039637            2 ISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMY   81 (159)
Q Consensus         2 l~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~   81 (159)
                      |++|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..||+.|+.+|++.|++
T Consensus       479 I~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~  558 (1060)
T PLN03218        479 ISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAV  558 (1060)
T ss_pred             HHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCH
Confidence            44555555555555555555555555555555555555555555555555555555555555555555555555555555


Q ss_pred             HHHHHHHHHHHH--cCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637           82 MLAYRTMVDMHR--KGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus        82 ~~a~~~~~~m~~--~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      ++|.++|.+|..  .|+.||..+|+++|.+|++.|++++|.++|+.|...+++|+..+|+.+|.+|++.|++++|.++|
T Consensus       559 deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf  637 (1060)
T PLN03218        559 DRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIY  637 (1060)
T ss_pred             HHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHH
Confidence            555555555543  34445555555555555555555555555555555555555555555555555555555555444

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

Probab=100.00  E-value=3.6e-32  Score=204.39  Aligned_cols=154  Identities=14%  Similarity=0.097  Sum_probs=89.5

Q ss_pred             ChhHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccCh
Q 039637            1 MISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKM   80 (159)
Q Consensus         1 ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~   80 (159)
                      ||.+|++.|++++|.++|++|.+.|+.||..+|++++.+|++.|++++|.+++..|.+.|+.||..+|+.|+++|++.|+
T Consensus       296 li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~  375 (697)
T PLN03081        296 MLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGR  375 (697)
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCC
Confidence            35667777777777777777777777777777777777766666666666666666666655555555555555544444


Q ss_pred             HHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637           81 YMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus        81 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      +++|.++|++|.    .||..+|+++|.+|++.|+.++|.++|++|...|+.||..||+.++.+|++.|++++|.++|
T Consensus       376 ~~~A~~vf~~m~----~~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f  449 (697)
T PLN03081        376 MEDARNVFDRMP----RKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIF  449 (697)
T ss_pred             HHHHHHHHHhCC----CCCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHH
Confidence            444444444442    13444555555555555555555555555555555555555555555555555555555444

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

Probab=99.98  E-value=2.1e-31  Score=200.23  Aligned_cols=154  Identities=16%  Similarity=0.201  Sum_probs=121.8

Q ss_pred             ChhHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccCh
Q 039637            1 MISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKM   80 (159)
Q Consensus         1 ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~   80 (159)
                      ++++|++.|++++|.+++..|.+.|+.||..+||+|+++|++.|++++|.++|++|.+    ||..+|+.|+.+|++.|+
T Consensus       331 ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~----~d~~t~n~lI~~y~~~G~  406 (697)
T PLN03081        331 MIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR----KNLISWNALIAGYGNHGR  406 (697)
T ss_pred             HHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCC----CCeeeHHHHHHHHHHcCC
Confidence            3677788888888888888888888777888888888888888888888888887754    677788888888888888


Q ss_pred             HHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHh-CCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637           81 YMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRY-SKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus        81 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      .++|.++|++|.+.|+.||..||+.++.+|++.|.+++|.++|+.|.. .++.|+..+|+.++++|++.|++++|.+++
T Consensus       407 ~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~  485 (697)
T PLN03081        407 GTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMI  485 (697)
T ss_pred             HHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHH
Confidence            888888888888778888888888888888888888888888887764 577777778888888888888888887765

>PLN03077 Protein ECB2; Provisional

Probab=99.97  E-value=3.5e-29  Score=191.92  Aligned_cols=148  Identities=16%  Similarity=0.187  Sum_probs=73.3

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYM   82 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   82 (159)
                      ++|++.|++++|.++|++|.    .||..+||++|.+|++.|++++|+++|.+|.+.|+.||..||+.++.+|++.|+.+
T Consensus       230 ~~y~k~g~~~~A~~lf~~m~----~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~  305 (857)
T PLN03077        230 TMYVKCGDVVSARLVFDRMP----RRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDER  305 (857)
T ss_pred             HHHhcCCCHHHHHHHHhcCC----CCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChH
Confidence            34444444444444444442    23444444444555555555555555555555555555555555555555555555


Q ss_pred             HHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637           83 LAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      .+.+++..|.+.|..||..+|+.|+.+|++.|++++|.++|+.|..    ||..+|+.++.+|++.|++++|.++|
T Consensus       306 ~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~----~d~~s~n~li~~~~~~g~~~~A~~lf  377 (857)
T PLN03077        306 LGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMET----KDAVSWTAMISGYEKNGLPDKALETY  377 (857)
T ss_pred             HHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCC----CCeeeHHHHHHHHHhCCCHHHHHHHH
Confidence            5555555555555555555555555555555555555555555432    34445555555555555555555444

>PLN03077 Protein ECB2; Provisional

Probab=99.97  E-value=4.1e-29  Score=191.55  Aligned_cols=159  Identities=14%  Similarity=0.109  Sum_probs=100.4

Q ss_pred             ChhHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCC-----------------
Q 039637            1 MISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP-----------------   63 (159)
Q Consensus         1 ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-----------------   63 (159)
                      ||.+|++.|++++|.++|++|.+.|+.||..+|+.++.+|++.|+.+.+.+++..|.+.|+.|                 
T Consensus       259 li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~  338 (857)
T PLN03077        259 MISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGS  338 (857)
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCC
Confidence            456677777777777777777666666665555555555555544444444444444444444                 


Q ss_pred             --------------ChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 039637           64 --------------DYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYS  129 (159)
Q Consensus        64 --------------~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  129 (159)
                                    |..+|+.++.+|++.|++++|+++|++|.+.|+.||..+|+.++.+|++.|++++|.++++.+...
T Consensus       339 ~~~A~~vf~~m~~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~  418 (857)
T PLN03077        339 WGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERK  418 (857)
T ss_pred             HHHHHHHHhhCCCCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHh
Confidence                          445555555555555556666666666666666666666666666666666666666666666666


Q ss_pred             CCCCCHHHHHHHHHHHHhcCcHHHHhhhhC
Q 039637          130 KRSMCKALHEKILHILISGKLLKDAYIVVK  159 (159)
Q Consensus       130 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  159 (159)
                      |..|+..+|+.++.+|++.|++++|.++|+
T Consensus       419 g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~  448 (857)
T PLN03077        419 GLISYVVVANALIEMYSKCKCIDKALEVFH  448 (857)
T ss_pred             CCCcchHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            666667777777777777777777777663

>PF13041 PPR_2: PPR repeat family

Probab=99.74  E-value=1.1e-17  Score=84.72  Aligned_cols=50  Identities=34%  Similarity=0.765  Sum_probs=43.0

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHc
Q 039637           28 YDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCK   77 (159)
Q Consensus        28 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~   77 (159)
                      ||+.+||++|.+|++.|++++|.++|++|.+.|+.||..||++++++|++
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            68888888888888888888888888888888888888888888888874

>PF13041 PPR_2: PPR repeat family

Probab=99.67  E-value=2.8e-16  Score=79.54  Aligned_cols=50  Identities=30%  Similarity=0.503  Sum_probs=30.2

Q ss_pred             CChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHc
Q 039637           63 PDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGK  112 (159)
Q Consensus        63 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~  112 (159)
                      ||..+|++++++|++.|++++|.++|++|.+.|+.||..||+.+|++|++
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            55566666666666666666666666666666666666666666665543

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.66  E-value=1.9e-14  Score=102.23  Aligned_cols=151  Identities=10%  Similarity=0.022  Sum_probs=61.2

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCCh----hhHHHHHHHHHccC
Q 039637            4 AFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDY----NTFHILIKYFCKEK   79 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~----~~~~~ll~~~~~~~   79 (159)
                      .|.+.|++++|.++|+.+.+..+ ++..+++.++..+.+.|++++|.+.++.+.+.+..++.    ..+..+...+.+.|
T Consensus       116 ~~~~~g~~~~A~~~~~~~l~~~~-~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~  194 (389)
T PRK11788        116 DYLKAGLLDRAEELFLQLVDEGD-FAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARG  194 (389)
T ss_pred             HHHHCCCHHHHHHHHHHHHcCCc-chHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCC
Confidence            34444555555555555443322 23444444555555555555555555444443211110    11223333344444


Q ss_pred             hHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhh
Q 039637           80 MYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYI  156 (159)
Q Consensus        80 ~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  156 (159)
                      ++++|...++++.+.. +.+...+..+...|.+.|++++|.++|+++...+......++..+...|.+.|++++|..
T Consensus       195 ~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~  270 (389)
T PRK11788        195 DLDAARALLKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLE  270 (389)
T ss_pred             CHHHHHHHHHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHH
Confidence            4444444444444322 112233333444444444444444444444332111112233344444444444444443

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.66  E-value=2.2e-14  Score=101.90  Aligned_cols=153  Identities=10%  Similarity=0.064  Sum_probs=107.7

Q ss_pred             hhHHHhcCCHHHHHHHHHHHHhCCCCCCH----HHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC-hhhHHHHHHHHH
Q 039637            2 ISAFCRSGCFEETKQLAGDFEAKYDKYDV----VLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFC   76 (159)
Q Consensus         2 l~~~~~~~~~~~A~~~~~~~~~~~~~~~~----~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~   76 (159)
                      +..+.+.|++++|.+.++.+.+.++.++.    ..+..+...+.+.|++++|...|+++.+..  |+ ...+..+...+.
T Consensus       148 a~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~la~~~~  225 (389)
T PRK11788        148 LEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARALLKKALAAD--PQCVRASILLGDLAL  225 (389)
T ss_pred             HHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHC--cCCHHHHHHHHHHHH
Confidence            45677788888888888888766544321    235566677778888888888888877642  33 456666777788


Q ss_pred             ccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhh
Q 039637           77 KEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYI  156 (159)
Q Consensus        77 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  156 (159)
                      +.|++++|.++++++.+.+......+++.++.+|.+.|++++|...++++...  .|+...+..+...+.+.|++++|..
T Consensus       226 ~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~la~~~~~~g~~~~A~~  303 (389)
T PRK11788        226 AQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEE--YPGADLLLALAQLLEEQEGPEAAQA  303 (389)
T ss_pred             HCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCchHHHHHHHHHHHhCCHHHHHH
Confidence            88888888888888776532222456677778888888888888888877754  3444555777788888888888877


Q ss_pred             hh
Q 039637          157 VV  158 (159)
Q Consensus       157 ~~  158 (159)
                      ++
T Consensus       304 ~l  305 (389)
T PRK11788        304 LL  305 (389)
T ss_pred             HH
Confidence            65

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

Probab=99.53  E-value=3.4e-12  Score=98.44  Aligned_cols=152  Identities=13%  Similarity=0.036  Sum_probs=86.7

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYM   82 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   82 (159)
                      ..|.+.|++++|.++++.+.+..+ .+...|..+..++.+.|++++|...|+++.+.. +.+...+..+..++...|+++
T Consensus       575 ~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~  652 (899)
T TIGR02917       575 QYYLGKGQLKKALAILNEAADAAP-DSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYA  652 (899)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHH
Confidence            345556666666666666654433 255666666666666666666666666665532 123445555666666666666


Q ss_pred             HHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637           83 LAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      +|..+++++.+.. +.+..++..+...+...|++++|.++++.+.... +.+...+..+...+.+.|++++|.+.|
T Consensus       653 ~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~  726 (899)
T TIGR02917       653 KAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQH-PKAALGFELEGDLYLRQKDYPAAIQAY  726 (899)
T ss_pred             HHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCChHHHHHHHHHHHHCCCHHHHHHHH
Confidence            6666666665532 2334555555555666666666666665555432 334445555555566666666655544

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

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

Probab=99.53  E-value=3.1e-12  Score=98.66  Aligned_cols=152  Identities=14%  Similarity=0.069  Sum_probs=110.5

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYM   82 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   82 (159)
                      ..+.+.|++++|.+.++.+.+..+. ++..++.+...|.+.|++++|...|+++.+.. +++..++..+...+...|+ .
T Consensus       744 ~~~~~~g~~~~A~~~~~~~l~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~-~  820 (899)
T TIGR02917       744 RALLASGNTAEAVKTLEAWLKTHPN-DAVLRTALAELYLAQKDYDKAIKHYRTVVKKA-PDNAVVLNNLAWLYLELKD-P  820 (899)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCc-H
Confidence            3455666666666666666655443 66677777777777777777777777777643 2445666777777777777 6


Q ss_pred             HHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhhC
Q 039637           83 LAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVVK  159 (159)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  159 (159)
                      +|+.++++..... +-++.++..+...+...|++++|..+++++...+.. +..++..+...+.+.|+.++|.++++
T Consensus       821 ~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~  895 (899)
T TIGR02917       821 RALEYAEKALKLA-PNIPAILDTLGWLLVEKGEADRALPLLRKAVNIAPE-AAAIRYHLALALLATGRKAEARKELD  895 (899)
T ss_pred             HHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-ChHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            6777777776642 234556667788888899999999999999875543 78889999999999999999998763

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

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.49  E-value=2.5e-11  Score=79.83  Aligned_cols=153  Identities=11%  Similarity=0.057  Sum_probs=109.4

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYM   82 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   82 (159)
                      ..+...|++++|.+.+++..+..+. +...+..+...+...|++++|.+.+++..+.. +.+...+..+...+...|+++
T Consensus        39 ~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~~~~g~~~  116 (234)
T TIGR02521        39 LGYLEQGDLEVAKENLDKALEHDPD-DYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGTFLCQQGKYE  116 (234)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcccHH
Confidence            4567778888888888887765443 56777788888888888888888888877643 233456666777788888888


Q ss_pred             HHHHHHHHHHHcCCC-CcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637           83 LAYRTMVDMHRKGHQ-PEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus        83 ~a~~~~~~m~~~g~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      +|.+.+.+..+.... .....+..+...+...|++++|...+++..... +.+...+..+...+...|++++|...+
T Consensus       117 ~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~  192 (234)
T TIGR02521       117 QAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQID-PQRPESLLELAELYYLRGQYKDARAYL  192 (234)
T ss_pred             HHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCChHHHHHHHHHHHHcCCHHHHHHHH
Confidence            888888887764322 234456667777788888888888888776532 334556777778888888888877655

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.

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.48  E-value=4.2e-12  Score=88.59  Aligned_cols=153  Identities=19%  Similarity=0.203  Sum_probs=113.1

Q ss_pred             ChhHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccCh
Q 039637            1 MISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKM   80 (159)
Q Consensus         1 ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~   80 (159)
                      ||.+.|+--..++|.+++++-.+...+.+..+||.+|.+-.=..    -.++..+|.+..+.||..|||+++++..+.|+
T Consensus       213 mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~----~K~Lv~EMisqkm~Pnl~TfNalL~c~akfg~  288 (625)
T KOG4422|consen  213 MIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSV----GKKLVAEMISQKMTPNLFTFNALLSCAAKFGK  288 (625)
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhc----cHHHHHHHHHhhcCCchHhHHHHHHHHHHhcc
Confidence            46677777788888888888877777778888888887644222    26778888888888999999999988888887


Q ss_pred             HHH----HHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHH-HHHHHHHHHHhC--C------CCCCHHHHHHHHHHHHh
Q 039637           81 YML----AYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHS-EALSVYNMLRYS--K------RSMCKALHEKILHILIS  147 (159)
Q Consensus        81 ~~~----a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~-~a~~~~~~~~~~--~------~~~~~~~~~~l~~~~~~  147 (159)
                      ++.    |.+++.+|++-|+.|+..+|..+|..+++.++.. .|..++.++...  |      .+-+...|...+..|.+
T Consensus       289 F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~FF~~AM~Ic~~  368 (625)
T KOG4422|consen  289 FEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDNKFFQSAMSICSS  368 (625)
T ss_pred             hHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchhHHHHHHHHHHHH
Confidence            764    4567788888888888888888888888887764 355566666532  2      22334567777777778


Q ss_pred             cCcHHHHhhh
Q 039637          148 GKLLKDAYIV  157 (159)
Q Consensus       148 ~g~~~~A~~~  157 (159)
                      ..+.+.|+.+
T Consensus       369 l~d~~LA~~v  378 (625)
T KOG4422|consen  369 LRDLELAYQV  378 (625)
T ss_pred             hhhHHHHHHH
Confidence            8877777765

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

Probab=99.45  E-value=4.6e-12  Score=86.48  Aligned_cols=153  Identities=16%  Similarity=0.117  Sum_probs=112.8

Q ss_pred             hhHHHhcCCHHHHHHHHHHHHhCC-CCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC-hhhHHHHHHHHHccC
Q 039637            2 ISAFCRSGCFEETKQLAGDFEAKY-DKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEK   79 (159)
Q Consensus         2 l~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~   79 (159)
                      +..+.+.++++++.++++.+.+.. .+.+...|..+...+.+.|+.++|+..+++..+.  .|+ ......++..+...|
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            456778899999999999987544 3457888999999999999999999999999984  575 677888999999999


Q ss_pred             hHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637           80 MYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus        80 ~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      +.+++.+++....+.. +.|+..+..+..+|...|+.++|..+|++.... .+.|..+...+..++...|+.++|.++.
T Consensus       195 ~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~-~p~d~~~~~~~a~~l~~~g~~~~A~~~~  271 (280)
T PF13429_consen  195 DYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKL-NPDDPLWLLAYADALEQAGRKDEALRLR  271 (280)
T ss_dssp             HHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHH-STT-HHHHHHHHHHHT------------
T ss_pred             ChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhccccccccccccccccccc-cccccccccccccccccccccccccccc
Confidence            9999999998888764 456678889999999999999999999998763 3457888889999999999999998875

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.45  E-value=7e-12  Score=87.51  Aligned_cols=121  Identities=11%  Similarity=0.068  Sum_probs=106.2

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHH
Q 039637           28 YDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLI  107 (159)
Q Consensus        28 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li  107 (159)
                      .+..++.+||.+.|+-...+.|.+++++-.+...+.+..+||.+|.+-+-..    ..++..+|....+.||..|+|+++
T Consensus       205 KT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~----~K~Lv~EMisqkm~Pnl~TfNalL  280 (625)
T KOG4422|consen  205 KTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSV----GKKLVAEMISQKMTPNLFTFNALL  280 (625)
T ss_pred             CCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhc----cHHHHHHHHHhhcCCchHhHHHHH
Confidence            3677899999999999999999999999999888999999999998755433    268889999999999999999999


Q ss_pred             HHHHccCCHHHH----HHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHH
Q 039637          108 FHLGKMRAHSEA----LSVYNMLRYSKRSMCKALHEKILHILISGKLLK  152 (159)
Q Consensus       108 ~~~~~~g~~~~a----~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  152 (159)
                      ++..+.|+++.|    .+++.+|++-|+.|+..+|..+|..+++.++..
T Consensus       281 ~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~  329 (625)
T KOG4422|consen  281 SCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQ  329 (625)
T ss_pred             HHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCch
Confidence            999999988755    457789999999999999999999988887753

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.43  E-value=1.2e-10  Score=76.56  Aligned_cols=153  Identities=11%  Similarity=-0.049  Sum_probs=126.8

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCC-ChhhHHHHHHHHHccChH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP-DYNTFHILIKYFCKEKMY   81 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~~~~   81 (159)
                      ..+...|++++|.+.++...+..+. +...+..+...+...|++++|...+.+.......| ....+..+..++...|++
T Consensus        73 ~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  151 (234)
T TIGR02521        73 LYYQQLGELEKAEDSFRRALTLNPN-NGDVLNNYGTFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDF  151 (234)
T ss_pred             HHHHHcCCHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCH
Confidence            4677889999999999999877654 67788889999999999999999999998753222 345667778889999999


Q ss_pred             HHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637           82 MLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      ++|...+.+..+.. +.+...+..+...+...|++++|...+++.... .+.+...+..+...+...|+.++|..+.
T Consensus       152 ~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~  226 (234)
T TIGR02521       152 DKAEKYLTRALQID-PQRPESLLELAELYYLRGQYKDARAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYG  226 (234)
T ss_pred             HHHHHHHHHHHHhC-cCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHH
Confidence            99999999998764 335668888999999999999999999988865 4456677778889999999999998753

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

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

Probab=99.39  E-value=1.9e-10  Score=86.54  Aligned_cols=151  Identities=9%  Similarity=-0.063  Sum_probs=121.0

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHH
Q 039637            4 AFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYML   83 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~   83 (159)
                      .+...|++++|+..|+...+..+. +...|..+...+...|++++|...|++..+.. ..+...|..+...+...|++++
T Consensus       340 ~~~~~g~~~eA~~~~~kal~l~P~-~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~  417 (615)
T TIGR00990       340 FKCLKGKHLEALADLSKSIELDPR-VTQSYIKRASMNLELGDPDKAEEDFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQ  417 (615)
T ss_pred             HHHHcCCHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHH
Confidence            456678999999999888876543 56788888888889999999999999887742 2246778888888889999999


Q ss_pred             HHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637           84 AYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus        84 a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      |...|++.++.. +.+...+..+...+.+.|++++|...|+..... .+.+...+..+...+...|++++|.+.|
T Consensus       418 A~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~-~P~~~~~~~~lg~~~~~~g~~~~A~~~~  490 (615)
T TIGR00990       418 AGKDYQKSIDLD-PDFIFSHIQLGVTQYKEGSIASSMATFRRCKKN-FPEAPDVYNYYGELLLDQNKFDEAIEKF  490 (615)
T ss_pred             HHHHHHHHHHcC-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCChHHHHHHHHHHHHccCHHHHHHHH
Confidence            999999888764 335667778888888999999999999988753 3445778888889999999999998765

>PRK12370 invasion protein regulator; Provisional

Probab=99.35  E-value=2.9e-10  Score=84.50  Aligned_cols=147  Identities=10%  Similarity=-0.075  Sum_probs=105.2

Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC-hhhHHHHHHHHHccChHHHHHH
Q 039637            8 SGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYMLAYR   86 (159)
Q Consensus         8 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~   86 (159)
                      .+++++|...+++..+.++. +...|..+...+...|++++|...|++..+.  .|+ ...+..+..++...|++++|..
T Consensus       317 ~~~~~~A~~~~~~Al~ldP~-~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l--~P~~~~a~~~lg~~l~~~G~~~eAi~  393 (553)
T PRK12370        317 QNAMIKAKEHAIKATELDHN-NPQALGLLGLINTIHSEYIVGSLLFKQANLL--SPISADIKYYYGWNLFMAGQLEEALQ  393 (553)
T ss_pred             chHHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            34578888888888877665 7778888888888888888888888888874  454 4566777778888888888888


Q ss_pred             HHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637           87 TMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus        87 ~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      .+++..+.... ++..+..++..+...|++++|...+++......+-+...+..+..++...|+.++|...+
T Consensus       394 ~~~~Al~l~P~-~~~~~~~~~~~~~~~g~~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~  464 (553)
T PRK12370        394 TINECLKLDPT-RAAAGITKLWITYYHTGIDDAIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLT  464 (553)
T ss_pred             HHHHHHhcCCC-ChhhHHHHHHHHHhccCHHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHH
Confidence            88888775422 222333344456667888888888887765332324445667777788888888887765

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.33  E-value=5.1e-10  Score=84.65  Aligned_cols=150  Identities=13%  Similarity=0.078  Sum_probs=100.9

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHH----HHHHHHHhHhcCCCCC-hhhHHHHHHHHHcc
Q 039637            4 AFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMES----VMHVMRKLDELAISPD-YNTFHILIKYFCKE   78 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~----a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~   78 (159)
                      .+.+.|++++|.+.|+...+..+. +...+..+...+.+.|++++    |...|++..+.  .|+ ...+..+...+...
T Consensus       221 ~l~~~g~~~eA~~~~~~al~~~p~-~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l--~P~~~~a~~~lg~~l~~~  297 (656)
T PRK15174        221 TLCAVGKYQEAIQTGESALARGLD-GAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQF--NSDNVRIVTLYADALIRT  297 (656)
T ss_pred             HHHHCCCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHC
Confidence            455667777777777777665543 56667777777777777764    67777777763  344 45666777777777


Q ss_pred             ChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637           79 KMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus        79 ~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      |++++|...+++..+.. +.+...+..+...+.+.|++++|...++.+...... +...+..+...+...|+.++|...|
T Consensus       298 g~~~eA~~~l~~al~l~-P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~P~-~~~~~~~~a~al~~~G~~deA~~~l  375 (656)
T PRK15174        298 GQNEKAIPLLQQSLATH-PDLPYVRAMYARALRQVGQYTAASDEFVQLAREKGV-TSKWNRYAAAALLQAGKTSEAESVF  375 (656)
T ss_pred             CCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-chHHHHHHHHHHHHCCCHHHHHHHH
Confidence            88888888887777653 234556666777777888888888888777653211 2223344556777788888887765

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.32  E-value=5.2e-10  Score=84.58  Aligned_cols=150  Identities=7%  Similarity=-0.070  Sum_probs=83.2

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC-hhhHHHHHHHHHccChHH
Q 039637            4 AFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYM   82 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~~   82 (159)
                      +....|++++|.+.|+.+.+..+. +...+..+...+.+.|++++|...+.+..+.  .|+ ...+..+...+...|+++
T Consensus        85 ~~l~~g~~~~A~~~l~~~l~~~P~-~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l--~P~~~~a~~~la~~l~~~g~~~  161 (656)
T PRK15174         85 SPLASSQPDAVLQVVNKLLAVNVC-QPEDVLLVASVLLKSKQYATVADLAEQAWLA--FSGNSQIFALHLRTLVLMDKEL  161 (656)
T ss_pred             hHhhcCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHCCChH
Confidence            344566777777777766665444 5556666666666677777777777666652  343 445556666666666666


Q ss_pred             HHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637           83 LAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      +|...+..+..... .+...+..+ ..+...|++++|...++.+......++...+..+...+.+.|++++|...+
T Consensus       162 eA~~~~~~~~~~~P-~~~~a~~~~-~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~  235 (656)
T PRK15174        162 QAISLARTQAQEVP-PRGDMIATC-LSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTG  235 (656)
T ss_pred             HHHHHHHHHHHhCC-CCHHHHHHH-HHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHH
Confidence            66666666554321 122222222 235555666666666665544322223333334445555666666655443

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.30  E-value=1.3e-09  Score=85.24  Aligned_cols=149  Identities=9%  Similarity=-0.023  Sum_probs=84.8

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHH
Q 039637            5 FCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLA   84 (159)
Q Consensus         5 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   84 (159)
                      +.+.|++++|.+.|+...+..+. +...+..+.....+.|++++|...+.+..+  +.|+...+..+..++.+.|++++|
T Consensus       552 ll~~Gd~~eA~~~l~qAL~l~P~-~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~--l~P~~~a~~~LA~~l~~lG~~deA  628 (987)
T PRK09782        552 AQAAGNGAARDRWLQQAEQRGLG-DNALYWWLHAQRYIPGQPELALNDLTRSLN--IAPSANAYVARATIYRQRHNVPAA  628 (987)
T ss_pred             HHHCCCHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHhCCCHHHHHHHHHHHHH--hCCCHHHHHHHHHHHHHCCCHHHH
Confidence            34455555555555555543322 222222333333344666666666666655  345555666666666666666666


Q ss_pred             HHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637           85 YRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus        85 ~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      +..+++..+.. +.+...++.+...+...|+.++|...+++.... .|-+...+..+..++...|++++|...|
T Consensus       629 ~~~l~~AL~l~-Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l-~P~~~~a~~nLA~al~~lGd~~eA~~~l  700 (987)
T PRK09782        629 VSDLRAALELE-PNNSNYQAALGYALWDSGDIAQSREMLERAHKG-LPDDPALIRQLAYVNQRLDDMAATQHYA  700 (987)
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            66666666543 234455566666666667777777766666542 2334556666667777777777666554

>PF12854 PPR_1: PPR repeat

Probab=99.29  E-value=6.6e-12  Score=57.81  Aligned_cols=32  Identities=22%  Similarity=0.541  Sum_probs=22.8

Q ss_pred             CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHh
Q 039637           25 YDKYDVVLLNSMLCAYCRTGDMESVMHVMRKL   56 (159)
Q Consensus        25 ~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m   56 (159)
                      |+.||..+||+||++||+.|+.++|.++|++|
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            56677777777777777777777777777766

>PRK12370 invasion protein regulator; Provisional

Probab=99.27  E-value=1.7e-09  Score=80.49  Aligned_cols=147  Identities=10%  Similarity=-0.076  Sum_probs=112.1

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChh-hHHHHHHHHHccChHH
Q 039637            4 AFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYN-TFHILIKYFCKEKMYM   82 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~-~~~~ll~~~~~~~~~~   82 (159)
                      .+...|++++|...|++..+.++. +...|..+...+...|++++|...+++..+.  .|+.. .+..++..+...|+++
T Consensus       347 ~~~~~g~~~~A~~~~~~Al~l~P~-~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l--~P~~~~~~~~~~~~~~~~g~~e  423 (553)
T PRK12370        347 INTIHSEYIVGSLLFKQANLLSPI-SADIKYYYGWNLFMAGQLEEALQTINECLKL--DPTRAAAGITKLWITYYHTGID  423 (553)
T ss_pred             HHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCChhhHHHHHHHHHhccCHH
Confidence            566789999999999999987765 6778899999999999999999999999884  56543 3334455566789999


Q ss_pred             HHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhh
Q 039637           83 LAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYI  156 (159)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  156 (159)
                      +|...+.+..+...+-++..+..+..++...|+.++|...++++... .+.+....+.+...|+..|+  .|..
T Consensus       424 eA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~--~a~~  494 (553)
T PRK12370        424 DAIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQ-EITGLIAVNLLYAEYCQNSE--RALP  494 (553)
T ss_pred             HHHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhc-cchhHHHHHHHHHHHhccHH--HHHH
Confidence            99999999886543234556777888899999999999999987653 22234445566667777774  4444

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

Probab=99.24  E-value=2.7e-09  Score=80.39  Aligned_cols=148  Identities=9%  Similarity=-0.073  Sum_probs=124.5

Q ss_pred             cCCHHHHHHHHHHHHhCC-CCC-CHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC-hhhHHHHHHHHHccChHHHH
Q 039637            8 SGCFEETKQLAGDFEAKY-DKY-DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYMLA   84 (159)
Q Consensus         8 ~~~~~~A~~~~~~~~~~~-~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~~~a   84 (159)
                      .+++++|.+.|+...+.+ ..| +...|+.+...+...|++++|+..|++..+.  .|+ ...|..+...+...|++++|
T Consensus       307 ~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l--~P~~~~~~~~la~~~~~~g~~~eA  384 (615)
T TIGR00990       307 DESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIEL--DPRVTQSYIKRASMNLELGDPDKA  384 (615)
T ss_pred             hhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHCCCHHHH
Confidence            367999999999988764 223 4567889999999999999999999999874  565 56788888889999999999


Q ss_pred             HHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhhC
Q 039637           85 YRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVVK  159 (159)
Q Consensus        85 ~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  159 (159)
                      ...+++..+.. +.++.++..+...+...|++++|...|++..... +.+...+..+...+.+.|++++|...|+
T Consensus       385 ~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~  457 (615)
T TIGR00990       385 EEDFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFSHIQLGVTQYKEGSIASSMATFR  457 (615)
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            99999998764 3467889999999999999999999999988643 4456778888999999999999998763

>PF12854 PPR_1: PPR repeat

Probab=99.24  E-value=1.5e-11  Score=56.64  Aligned_cols=32  Identities=22%  Similarity=0.332  Sum_probs=17.4

Q ss_pred             CCCCcHHHHHHHHHHHHccCCHHHHHHHHHHH
Q 039637           95 GHQPEEELCSSLIFHLGKMRAHSEALSVYNML  126 (159)
Q Consensus        95 g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  126 (159)
                      |+.||..+|++||.+|++.|++++|.++|++|
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            44555555555555555555555555555554

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

Probab=99.21  E-value=1.9e-10  Score=78.62  Aligned_cols=149  Identities=19%  Similarity=0.131  Sum_probs=87.6

Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcC-CCCChhhHHHHHHHHHccChHHHH
Q 039637            6 CRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA-ISPDYNTFHILIKYFCKEKMYMLA   84 (159)
Q Consensus         6 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~-~~~~~~~~~~ll~~~~~~~~~~~a   84 (159)
                      ...+++++|.+++...-+.  .+++..+..++..+.+.++++++.++++...+.. ..++...|..+...+.+.|++++|
T Consensus        88 ~~~~~~~~A~~~~~~~~~~--~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A  165 (280)
T PF13429_consen   88 LQDGDPEEALKLAEKAYER--DGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKA  165 (280)
T ss_dssp             --------------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHH
T ss_pred             ccccccccccccccccccc--ccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHH
Confidence            5678888888887665443  2466667788888888899999988888876532 245667777888888888999999


Q ss_pred             HHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637           85 YRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus        85 ~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      ++.+++.++.. +-|+.....++..+...|+.+++..+++...... +.|...+..+..+|...|+.++|...|
T Consensus       166 ~~~~~~al~~~-P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~  237 (280)
T PF13429_consen  166 LRDYRKALELD-PDDPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYL  237 (280)
T ss_dssp             HHHHHHHHHH--TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHH
T ss_pred             HHHHHHHHHcC-CCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhccccccccccccc
Confidence            99998888763 2357778888888888899988888888776543 445556778888899999999888776

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.21  E-value=8.2e-09  Score=73.94  Aligned_cols=152  Identities=13%  Similarity=-0.005  Sum_probs=95.6

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCC--------------------
Q 039637            4 AFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP--------------------   63 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~--------------------   63 (159)
                      .+...|++++|.+.++.+.+..+. ++.....+...|.+.|++++|.+++..+.+.+..+                    
T Consensus       162 l~l~~g~~~~Al~~l~~~~~~~P~-~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~  240 (398)
T PRK10747        162 IQLARNENHAARHGVDKLLEVAPR-HPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAM  240 (398)
T ss_pred             HHHHCCCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            456677777777777777776654 66777777777777777777777777766543321                    


Q ss_pred             ---------------------ChhhHHHHHHHHHccChHHHHHHHHHHHHHcC---------------------------
Q 039637           64 ---------------------DYNTFHILIKYFCKEKMYMLAYRTMVDMHRKG---------------------------   95 (159)
Q Consensus        64 ---------------------~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g---------------------------   95 (159)
                                           +......+...+...|+.++|.+.+.+..+..                           
T Consensus       241 ~~~~~~~l~~~w~~lp~~~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~~~~~~l~~l~~~l~~~~~~~al~~~e~~  320 (398)
T PRK10747        241 ADQGSEGLKRWWKNQSRKTRHQVALQVAMAEHLIECDDHDTAQQIILDGLKRQYDERLVLLIPRLKTNNPEQLEKVLRQQ  320 (398)
T ss_pred             HhcCHHHHHHHHHhCCHHHhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCHHHHHHHhhccCCChHHHHHHHHHH
Confidence                                 11122233444555566666666655554421                           


Q ss_pred             ---CCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637           96 ---HQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus        96 ---~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                         .+-|+....++...+.+.+++++|...|+...+.  .|+..++..+...+.+.|+.++|.+.+
T Consensus       321 lk~~P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~--~P~~~~~~~La~~~~~~g~~~~A~~~~  384 (398)
T PRK10747        321 IKQHGDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQ--RPDAYDYAWLADALDRLHKPEEAAAMR  384 (398)
T ss_pred             HhhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence               1223445556667777777777777777777643  466666677777777777777776654

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

Probab=99.19  E-value=1e-08  Score=66.41  Aligned_cols=152  Identities=9%  Similarity=0.006  Sum_probs=127.1

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC-hhhHHHHHHHHHccChH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMY   81 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~   81 (159)
                      -.|.+.|+...|.+-+++..+..+. +..+|..+...|-+.|+.+.|.+-|++..+  +.|+ -...|.--..+|.+|++
T Consensus        43 l~YL~~gd~~~A~~nlekAL~~DPs-~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAls--l~p~~GdVLNNYG~FLC~qg~~  119 (250)
T COG3063          43 LGYLQQGDYAQAKKNLEKALEHDPS-YYLAHLVRAHYYQKLGENDLADESYRKALS--LAPNNGDVLNNYGAFLCAQGRP  119 (250)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCChhhHHHHHHHHHh--cCCCccchhhhhhHHHHhCCCh
Confidence            3688999999999999999988766 788999999999999999999999999888  4565 56777888889999999


Q ss_pred             HHHHHHHHHHHHcCCCC-cHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637           82 MLAYRTMVDMHRKGHQP-EEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus        82 ~~a~~~~~~m~~~g~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      ++|...|++......-+ ...+|..+.-+..+.|+.+.|...|++........ ..+...+.....+.|++..|.-++
T Consensus       120 ~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~~-~~~~l~~a~~~~~~~~y~~Ar~~~  196 (250)
T COG3063         120 EEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQF-PPALLELARLHYKAGDYAPARLYL  196 (250)
T ss_pred             HHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcCC-ChHHHHHHHHHHhcccchHHHHHH
Confidence            99999999998764333 34588889999999999999999999888754332 345578889999999988887654

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.17  E-value=1.1e-08  Score=80.21  Aligned_cols=147  Identities=6%  Similarity=-0.092  Sum_probs=115.9

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCCh-hhHHHHHHHHHccChHHH
Q 039637            5 FCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDY-NTFHILIKYFCKEKMYML   83 (159)
Q Consensus         5 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~-~~~~~ll~~~~~~~~~~~   83 (159)
                      +.+.|++++|...|+.+...  .|+...+..+..++.+.|++++|...+.+..+..  |+. ..+..+.....+.|++++
T Consensus       519 l~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~--P~~~~l~~~La~~l~~~Gr~~e  594 (987)
T PRK09782        519 AYQVEDYATALAAWQKISLH--DMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRG--LGDNALYWWLHAQRYIPGQPEL  594 (987)
T ss_pred             HHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CccHHHHHHHHHHHHhCCCHHH
Confidence            35789999999999987654  3344556677788889999999999999988753  433 333334444556699999


Q ss_pred             HHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637           84 AYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus        84 a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      |...+++..+.  .|+...+..+...+.+.|+.++|...+++.... .|.+...+..+...+...|+.++|...|
T Consensus       595 Al~~~~~AL~l--~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l-~Pd~~~a~~nLG~aL~~~G~~eeAi~~l  666 (987)
T PRK09782        595 ALNDLTRSLNI--APSANAYVARATIYRQRHNVPAAVSDLRAALEL-EPNNSNYQAALGYALWDSGDIAQSREML  666 (987)
T ss_pred             HHHHHHHHHHh--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            99999999875  467888899999999999999999999998864 3446678888888999999999998876

>TIGR00540 hemY_coli hemY protein

Probab=99.15  E-value=2.4e-08  Score=71.81  Aligned_cols=154  Identities=10%  Similarity=-0.005  Sum_probs=94.1

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCC--------------------
Q 039637            4 AFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP--------------------   63 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~--------------------   63 (159)
                      .+...|+++.|.+.++.+.+..|. +..++..+...+.+.|++++|.+++..+.+.+..+                    
T Consensus       162 l~l~~~~~~~Al~~l~~l~~~~P~-~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~  240 (409)
T TIGR00540       162 ILLAQNELHAARHGVDKLLEMAPR-HKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAM  240 (409)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            345567777777777777766554 56667777777777777777777666666543221                    


Q ss_pred             ---------------------ChhhHHHHHHHHHccChHHHHHHHHHHHHHcCC--------------------------
Q 039637           64 ---------------------DYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGH--------------------------   96 (159)
Q Consensus        64 ---------------------~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~--------------------------   96 (159)
                                           +...+..+...+...|+.++|.+.+++..+...                          
T Consensus       241 ~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~pd~~~~~~~~l~~~~~l~~~~~~~~~~  320 (409)
T TIGR00540       241 ADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKLGDDRAISLPLCLPIPRLKPEDNEKLEK  320 (409)
T ss_pred             HhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhCCCcccchhHHHHHhhhcCCCChHHHHH
Confidence                                 222223333444555666666666555544210                          


Q ss_pred             --------CC-cH--HHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637           97 --------QP-EE--ELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus        97 --------~~-~~--~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                              .| |+  ....++...+.+.|++++|.+.|+........|+...+..+...+.+.|+.++|.+++
T Consensus       321 ~~e~~lk~~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~  393 (409)
T TIGR00540       321 LIEKQAKNVDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMR  393 (409)
T ss_pred             HHHHHHHhCCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence                    12 23  3445666777777777777777775444444567667777777777777777777665

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.

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

Probab=99.15  E-value=1e-08  Score=72.53  Aligned_cols=152  Identities=13%  Similarity=0.047  Sum_probs=133.5

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYM   82 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   82 (159)
                      +-|+-.++.++|...|++..+.++. ....|+.+..-|....+.+.|.+-++..++.. +.|-..|-.|-.+|.-.+.+.
T Consensus       338 NYYSlr~eHEKAv~YFkRALkLNp~-~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~-p~DyRAWYGLGQaYeim~Mh~  415 (559)
T KOG1155|consen  338 NYYSLRSEHEKAVMYFKRALKLNPK-YLSAWTLMGHEYVEMKNTHAAIESYRRAVDIN-PRDYRAWYGLGQAYEIMKMHF  415 (559)
T ss_pred             hHHHHHHhHHHHHHHHHHHHhcCcc-hhHHHHHhhHHHHHhcccHHHHHHHHHHHhcC-chhHHHHhhhhHHHHHhcchH
Confidence            4567788999999999999988766 78899999999999999999999999998842 346789999999999999999


Q ss_pred             HHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637           83 LAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      -|+-+|++..+-. +-|+..|.+|..+|.+.+++++|++.|......+.. +...+..+...|-+-++..+|...|
T Consensus       416 YaLyYfqkA~~~k-PnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dt-e~~~l~~LakLye~l~d~~eAa~~y  489 (559)
T KOG1155|consen  416 YALYYFQKALELK-PNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDT-EGSALVRLAKLYEELKDLNEAAQYY  489 (559)
T ss_pred             HHHHHHHHHHhcC-CCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcccc-chHHHHHHHHHHHHHHhHHHHHHHH
Confidence            9999999988742 348899999999999999999999999988876544 5678899999999999999998765

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

Probab=99.14  E-value=1e-09  Score=80.20  Aligned_cols=146  Identities=10%  Similarity=0.016  Sum_probs=72.3

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC-hhhHHHHHHHHHccChHHH
Q 039637            5 FCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYML   83 (159)
Q Consensus         5 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~~~   83 (159)
                      |-..|+++.|+..|++..+..+. =+..|+.|.+++-..|+..+|.+.|++...  +.|+ ..+.+.|-+.+...|.+++
T Consensus       296 YyeqG~ldlAI~~Ykral~~~P~-F~~Ay~NlanALkd~G~V~ea~~cYnkaL~--l~p~hadam~NLgni~~E~~~~e~  372 (966)
T KOG4626|consen  296 YYEQGLLDLAIDTYKRALELQPN-FPDAYNNLANALKDKGSVTEAVDCYNKALR--LCPNHADAMNNLGNIYREQGKIEE  372 (966)
T ss_pred             EeccccHHHHHHHHHHHHhcCCC-chHHHhHHHHHHHhccchHHHHHHHHHHHH--hCCccHHHHHHHHHHHHHhccchH
Confidence            33445555555555555443222 234555555555555555555555555544  2333 3444455555555555555


Q ss_pred             HHHHHHHHHHcCCCCc-HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCcHHHHhhh
Q 039637           84 AYRTMVDMHRKGHQPE-EELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMC-KALHEKILHILISGKLLKDAYIV  157 (159)
Q Consensus        84 a~~~~~~m~~~g~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~  157 (159)
                      |..+|...++-  .|+ ...++.|...|-++|++++|...+++...  +.|+ ...|+.+-..|-..|+.+.|...
T Consensus       373 A~~ly~~al~v--~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykealr--I~P~fAda~~NmGnt~ke~g~v~~A~q~  444 (966)
T KOG4626|consen  373 ATRLYLKALEV--FPEFAAAHNNLASIYKQQGNLDDAIMCYKEALR--IKPTFADALSNMGNTYKEMGDVSAAIQC  444 (966)
T ss_pred             HHHHHHHHHhh--ChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHh--cCchHHHHHHhcchHHHHhhhHHHHHHH
Confidence            55555544432  222 23445555555555555555555555442  2222 33455555555555555555443

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.13  E-value=5.7e-08  Score=67.00  Aligned_cols=118  Identities=9%  Similarity=0.037  Sum_probs=89.9

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC-hhhHHHHHHHHHccChHH
Q 039637            4 AFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYM   82 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~~   82 (159)
                      .|.+.|++++|...|+...+..+. +...|+.+...+...|++++|...|++..+  +.|+ ..+|..+..++...|+++
T Consensus        73 ~~~~~g~~~~A~~~~~~Al~l~P~-~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~--l~P~~~~a~~~lg~~l~~~g~~~  149 (296)
T PRK11189         73 LYDSLGLRALARNDFSQALALRPD-MADAYNYLGIYLTQAGNFDAAYEAFDSVLE--LDPTYNYAYLNRGIALYYGGRYE  149 (296)
T ss_pred             HHHHCCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHCCCHH
Confidence            467789999999999998887665 788999999999999999999999999887  4565 567777888888889999


Q ss_pred             HHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHH
Q 039637           83 LAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNML  126 (159)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  126 (159)
                      +|.+.++...+..  |+..........+...++.++|...|++.
T Consensus       150 eA~~~~~~al~~~--P~~~~~~~~~~l~~~~~~~~~A~~~l~~~  191 (296)
T PRK11189        150 LAQDDLLAFYQDD--PNDPYRALWLYLAESKLDPKQAKENLKQR  191 (296)
T ss_pred             HHHHHHHHHHHhC--CCCHHHHHHHHHHHccCCHHHHHHHHHHH
Confidence            9999999888753  43222222222344567788888887543

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.13  E-value=2.3e-08  Score=77.07  Aligned_cols=83  Identities=6%  Similarity=-0.134  Sum_probs=35.4

Q ss_pred             HHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHH
Q 039637           73 KYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLK  152 (159)
Q Consensus        73 ~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  152 (159)
                      ..+...|++++|++.++++.... +.+...+..+...+...|++++|++.+++..... |-+...+......+.+.|+++
T Consensus       367 ~~l~~~g~~~eA~~~l~~al~~~-P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~-Pd~~~l~~~~a~~al~~~~~~  444 (765)
T PRK10049        367 QVAKYSNDLPQAEMRARELAYNA-PGNQGLRIDYASVLQARGWPRAAENELKKAEVLE-PRNINLEVEQAWTALDLQEWR  444 (765)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhC-CCChHHHHHHHHHHHHhCCHH
Confidence            33444444444444444444321 2233344444444444444444444444444321 222333334444444444454


Q ss_pred             HHhhh
Q 039637          153 DAYIV  157 (159)
Q Consensus       153 ~A~~~  157 (159)
                      +|..+
T Consensus       445 ~A~~~  449 (765)
T PRK10049        445 QMDVL  449 (765)
T ss_pred             HHHHH
Confidence            44443

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.10  E-value=2.1e-08  Score=80.46  Aligned_cols=55  Identities=18%  Similarity=0.167  Sum_probs=45.6

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhc
Q 039637            4 AFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDEL   59 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~   59 (159)
                      .+...|++++|.+.|++..+..+. +...+..+...|.+.|++++|...+++..+.
T Consensus       470 ~~~~~g~~~eA~~~~~~Al~~~P~-~~~~~~~LA~~~~~~G~~~~A~~~l~~al~~  524 (1157)
T PRK11447        470 ALENQGKWAQAAELQRQRLALDPG-SVWLTYRLAQDLRQAGQRSQADALMRRLAQQ  524 (1157)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            456779999999999998877665 6778888888999999999999999888763

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=99.10  E-value=4.2e-08  Score=65.35  Aligned_cols=153  Identities=12%  Similarity=0.078  Sum_probs=115.1

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCC-CC-HHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChh----hHHHHHHHHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDK-YD-VVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYN----TFHILIKYFC   76 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~-~~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~----~~~~ll~~~~   76 (159)
                      ..+.+.|++++|...|+.+.+..+. |. ..++..+..++.+.|++++|...++++.+.  .|+..    ++..+-.++.
T Consensus        41 ~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~a~~~~g~~~~  118 (235)
T TIGR03302        41 KEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRL--HPNHPDADYAYYLRGLSNY  118 (235)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--CcCCCchHHHHHHHHHHHH
Confidence            4577899999999999999876543 11 246788899999999999999999999874  34322    3444555555


Q ss_pred             cc--------ChHHHHHHHHHHHHHcCCCCcHHHH-----------------HHHHHHHHccCCHHHHHHHHHHHHhCC-
Q 039637           77 KE--------KMYMLAYRTMVDMHRKGHQPEEELC-----------------SSLIFHLGKMRAHSEALSVYNMLRYSK-  130 (159)
Q Consensus        77 ~~--------~~~~~a~~~~~~m~~~g~~~~~~~~-----------------~~li~~~~~~g~~~~a~~~~~~~~~~~-  130 (159)
                      ..        |++++|.+.++.+.+.... +....                 -.+...|.+.|++++|...++...... 
T Consensus       119 ~~~~~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p  197 (235)
T TIGR03302       119 NQIDRVDRDQTAAREAFEAFQELIRRYPN-SEYAPDAKKRMDYLRNRLAGKELYVARFYLKRGAYVAAINRFETVVENYP  197 (235)
T ss_pred             HhcccccCCHHHHHHHHHHHHHHHHHCCC-ChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHCC
Confidence            44        7899999999999875321 22221                 134566788899999999999887642 


Q ss_pred             -CCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637          131 -RSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus       131 -~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                       .+.....+..+...+.+.|+.++|...+
T Consensus       198 ~~~~~~~a~~~l~~~~~~lg~~~~A~~~~  226 (235)
T TIGR03302       198 DTPATEEALARLVEAYLKLGLKDLAQDAA  226 (235)
T ss_pred             CCcchHHHHHHHHHHHHHcCCHHHHHHHH
Confidence             2334678889999999999999998875

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).

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.09  E-value=2.5e-08  Score=80.06  Aligned_cols=150  Identities=9%  Similarity=-0.008  Sum_probs=120.3

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYM   82 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   82 (159)
                      +.+...|+.++|.++++    .. +.+...+..+...+.+.|++++|+..|++..+.. +.+...+..+...+...|+++
T Consensus       581 ~~l~~~G~~~eA~~~l~----~~-p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~-P~~~~a~~~la~~~~~~g~~~  654 (1157)
T PRK11447        581 NRLRDSGKEAEAEALLR----QQ-PPSTRIDLTLADWAQQRGDYAAARAAYQRVLTRE-PGNADARLGLIEVDIAQGDLA  654 (1157)
T ss_pred             HHHHHCCCHHHHHHHHH----hC-CCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHH
Confidence            45778899999999986    12 3466778889999999999999999999999853 234678888999999999999


Q ss_pred             HHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCC--CC---CHHHHHHHHHHHHhcCcHHHHhhh
Q 039637           83 LAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKR--SM---CKALHEKILHILISGKLLKDAYIV  157 (159)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~--~~---~~~~~~~l~~~~~~~g~~~~A~~~  157 (159)
                      +|++.++...+.. +.+..+...+...+.+.|+.++|.++++.+.....  +|   +...+..+...+.+.|+.++|...
T Consensus       655 eA~~~l~~ll~~~-p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~  733 (1157)
T PRK11447        655 AARAQLAKLPATA-NDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALET  733 (1157)
T ss_pred             HHHHHHHHHhccC-CCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHH
Confidence            9999999887643 23556677788889999999999999999876432  22   224566678889999999999987


Q ss_pred             hC
Q 039637          158 VK  159 (159)
Q Consensus       158 ~~  159 (159)
                      |+
T Consensus       734 y~  735 (1157)
T PRK11447        734 YK  735 (1157)
T ss_pred             HH
Confidence            63

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.08  E-value=7.1e-08  Score=74.48  Aligned_cols=151  Identities=11%  Similarity=0.080  Sum_probs=124.0

Q ss_pred             hhHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC-hhhHHHHHHHHHccCh
Q 039637            2 ISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKM   80 (159)
Q Consensus         2 l~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~   80 (159)
                      +......|+.++|+++|....... +.+...+..+..++.+.|++++|.++|++..+.  .|+ ...+..+...+...|+
T Consensus        22 ~~ia~~~g~~~~A~~~~~~~~~~~-~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~la~~l~~~g~   98 (765)
T PRK10049         22 LQIALWAGQDAEVITVYNRYRVHM-QLPARGYAAVAVAYRNLKQWQNSLTLWQKALSL--EPQNDDYQRGLILTLADAGQ   98 (765)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCC
Confidence            356678899999999999987633 336667999999999999999999999998874  454 5667778888999999


Q ss_pred             HHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637           81 YMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus        81 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      +++|...+++..+.. +.+.. +..+...+...|+.++|...++++... .|.+...+..+...+...|..++|...+
T Consensus        99 ~~eA~~~l~~~l~~~-P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~-~P~~~~~~~~la~~l~~~~~~e~Al~~l  173 (765)
T PRK10049         99 YDEALVKAKQLVSGA-PDKAN-LLALAYVYKRAGRHWDELRAMTQALPR-APQTQQYPTEYVQALRNNRLSAPALGAI  173 (765)
T ss_pred             HHHHHHHHHHHHHhC-CCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHCCChHHHHHHH
Confidence            999999999998863 34556 888889999999999999999999874 3345666677888888899988887654

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

Probab=99.04  E-value=7.3e-08  Score=62.60  Aligned_cols=133  Identities=9%  Similarity=-0.033  Sum_probs=103.3

Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCC-ChhhHHHHHHH-HHccCh--HHH
Q 039637            8 SGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP-DYNTFHILIKY-FCKEKM--YML   83 (159)
Q Consensus         8 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~-~~~~~~--~~~   83 (159)
                      .++.+++...++...+.++. |...|..+...|...|++++|...|++..+.  .| +...+..+..+ +...|+  .++
T Consensus        52 ~~~~~~~i~~l~~~L~~~P~-~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l--~P~~~~~~~~lA~aL~~~~g~~~~~~  128 (198)
T PRK10370         52 QQTPEAQLQALQDKIRANPQ-NSEQWALLGEYYLWRNDYDNALLAYRQALQL--RGENAELYAALATVLYYQAGQHMTPQ  128 (198)
T ss_pred             chhHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCCCCcHH
Confidence            45567777777777766665 8899999999999999999999999999884  45 45667777766 466676  599


Q ss_pred             HHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 039637           84 AYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILI  146 (159)
Q Consensus        84 a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  146 (159)
                      |.+++++..+.. +-++.++..+...+.+.|++++|...|+++.+. .+|+..-+ .+|....
T Consensus       129 A~~~l~~al~~d-P~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l-~~~~~~r~-~~i~~i~  188 (198)
T PRK10370        129 TREMIDKALALD-ANEVTALMLLASDAFMQADYAQAIELWQKVLDL-NSPRVNRT-QLVESIN  188 (198)
T ss_pred             HHHHHHHHHHhC-CCChhHHHHHHHHHHHcCCHHHHHHHHHHHHhh-CCCCccHH-HHHHHHH
Confidence            999999999875 347788889999999999999999999999864 34444333 3445433

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

Probab=99.02  E-value=2.2e-08  Score=73.43  Aligned_cols=145  Identities=14%  Similarity=0.111  Sum_probs=67.8

Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC-hhhHHHHHHHHHccChHHHH
Q 039637            6 CRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYMLA   84 (159)
Q Consensus         6 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~~~a   84 (159)
                      -..|++.+|.+.|+......+. -..+.+.|.++|.+.|.+++|..+|....+  +.|. ...++.|...|-.+|++++|
T Consensus       331 kd~G~V~ea~~cYnkaL~l~p~-hadam~NLgni~~E~~~~e~A~~ly~~al~--v~p~~aaa~nNLa~i~kqqgnl~~A  407 (966)
T KOG4626|consen  331 KDKGSVTEAVDCYNKALRLCPN-HADAMNNLGNIYREQGKIEEATRLYLKALE--VFPEFAAAHNNLASIYKQQGNLDDA  407 (966)
T ss_pred             HhccchHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHhccchHHHHHHHHHHh--hChhhhhhhhhHHHHHHhcccHHHH
Confidence            3345555555555544433222 233444555555555555555555554444  3333 23444555555555555555


Q ss_pred             HHHHHHHHHcCCCCc-HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhh
Q 039637           85 YRTMVDMHRKGHQPE-EELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYI  156 (159)
Q Consensus        85 ~~~~~~m~~~g~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  156 (159)
                      +..+++.++  +.|+ ...++.+...|-..|+++.|.+.+.+....+.. -...++.+...|-.+|++.+|+.
T Consensus       408 i~~Ykealr--I~P~fAda~~NmGnt~ke~g~v~~A~q~y~rAI~~nPt-~AeAhsNLasi~kDsGni~~AI~  477 (966)
T KOG4626|consen  408 IMCYKEALR--IKPTFADALSNMGNTYKEMGDVSAAIQCYTRAIQINPT-FAEAHSNLASIYKDSGNIPEAIQ  477 (966)
T ss_pred             HHHHHHHHh--cCchHHHHHHhcchHHHHhhhHHHHHHHHHHHHhcCcH-HHHHHhhHHHHhhccCCcHHHHH
Confidence            555555443  2232 234445555555555555555555544432211 13344555555555555555544

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.00  E-value=2e-07  Score=72.04  Aligned_cols=154  Identities=16%  Similarity=0.026  Sum_probs=79.8

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcC-----CCCChhhHHHHHHHHHcc
Q 039637            4 AFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA-----ISPDYNTFHILIKYFCKE   78 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~-----~~~~~~~~~~ll~~~~~~   78 (159)
                      ++...|++.++.+.|+.+...+.+....+-..+.++|...+++++|+.+|..+....     ..++......|..++...
T Consensus       301 aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~  380 (822)
T PRK14574        301 ALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNES  380 (822)
T ss_pred             HHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhc
Confidence            445555666666666666655544344455566666666666666666666554432     111222234555566666


Q ss_pred             ChHHHHHHHHHHHHHcCC-----------CCc---HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 039637           79 KMYMLAYRTMVDMHRKGH-----------QPE---EELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHI  144 (159)
Q Consensus        79 ~~~~~a~~~~~~m~~~g~-----------~~~---~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  144 (159)
                      +++++|..+++++.+...           .|+   ...+..++..+.-.|+..+|++.++++.. .-|-|......+...
T Consensus       381 e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~-~aP~n~~l~~~~A~v  459 (822)
T PRK14574        381 EQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKLEDLSS-TAPANQNLRIALASI  459 (822)
T ss_pred             ccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH-hCCCCHHHHHHHHHH
Confidence            666666666666554210           111   12223344445555666666666665543 334455555555555


Q ss_pred             HHhcCcHHHHhhhh
Q 039637          145 LISGKLLKDAYIVV  158 (159)
Q Consensus       145 ~~~~g~~~~A~~~~  158 (159)
                      +...|...+|...+
T Consensus       460 ~~~Rg~p~~A~~~~  473 (822)
T PRK14574        460 YLARDLPRKAEQEL  473 (822)
T ss_pred             HHhcCCHHHHHHHH
Confidence            55666555555543

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=98.97  E-value=2.1e-07  Score=66.80  Aligned_cols=84  Identities=10%  Similarity=0.010  Sum_probs=36.9

Q ss_pred             HhcCChHHHHHHHHHhHhcCCCCChhhHH--HHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHH
Q 039637           41 CRTGDMESVMHVMRKLDELAISPDYNTFH--ILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSE  118 (159)
Q Consensus        41 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~--~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~  118 (159)
                      .+.|+++.+.+.+.++.+  ..|+.....  .....+...|+++.|...++++.+.. +-++.....+...|.+.|++++
T Consensus       129 ~~~g~~~~A~~~l~~A~~--~~~~~~~~~~l~~a~l~l~~g~~~~Al~~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~  205 (398)
T PRK10747        129 QQRGDEARANQHLERAAE--LADNDQLPVEITRVRIQLARNENHAARHGVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSS  205 (398)
T ss_pred             HHCCCHHHHHHHHHHHHh--cCCcchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHH
Confidence            444555555555555443  223332222  11233444455555555555444432 1233444444555555555555


Q ss_pred             HHHHHHHHH
Q 039637          119 ALSVYNMLR  127 (159)
Q Consensus       119 a~~~~~~~~  127 (159)
                      |..++..+.
T Consensus       206 a~~~l~~l~  214 (398)
T PRK10747        206 LLDILPSMA  214 (398)
T ss_pred             HHHHHHHHH
Confidence            554444444

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.95  E-value=1.8e-09  Score=49.92  Aligned_cols=33  Identities=24%  Similarity=0.619  Sum_probs=26.3

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC
Q 039637           32 LLNSMLCAYCRTGDMESVMHVMRKLDELAISPD   64 (159)
Q Consensus        32 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~   64 (159)
                      +||++|.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            577888888888888888888888888887776

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.

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.94  E-value=2.9e-07  Score=69.94  Aligned_cols=129  Identities=10%  Similarity=0.004  Sum_probs=103.1

Q ss_pred             CCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC-hhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHH
Q 039637           27 KYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSS  105 (159)
Q Consensus        27 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~  105 (159)
                      ..++..+-.|..+..+.|.+++|+.+++...+  +.|+ ......+..++.+.+++++|+...++.+... +-+......
T Consensus        83 ~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~--~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~-p~~~~~~~~  159 (694)
T PRK15179         83 PHTELFQVLVARALEAAHRSDEGLAVWRGIHQ--RFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGG-SSSAREILL  159 (694)
T ss_pred             cccHHHHHHHHHHHHHcCCcHHHHHHHHHHHh--hCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcC-CCCHHHHHH
Confidence            34677888888888899999999999998888  5676 4556677888888899999999999888764 235566677


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhhC
Q 039637          106 LIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVVK  159 (159)
Q Consensus       106 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  159 (159)
                      +..++.+.|++++|..+|+++.. ..+-+..++...-..+-+.|+.++|...|+
T Consensus       160 ~a~~l~~~g~~~~A~~~y~~~~~-~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~  212 (694)
T PRK15179        160 EAKSWDEIGQSEQADACFERLSR-QHPEFENGYVGWAQSLTRRGALWRARDVLQ  212 (694)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHh-cCCCcHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            78888888999999999998887 334457788888889999999998887663

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

Probab=98.93  E-value=2e-07  Score=63.47  Aligned_cols=153  Identities=9%  Similarity=0.008  Sum_probs=96.3

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC----hhhHHHHHHHHHccC
Q 039637            4 AFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD----YNTFHILIKYFCKEK   79 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~----~~~~~~ll~~~~~~~   79 (159)
                      -|...|-+++|..+|..+.+.+. .-......|+..|-...+|++|+++-.++.+.+-.+.    ...|.-+...+....
T Consensus       116 Dym~aGl~DRAE~~f~~L~de~e-fa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~  194 (389)
T COG2956         116 DYMAAGLLDRAEDIFNQLVDEGE-FAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASS  194 (389)
T ss_pred             HHHHhhhhhHHHHHHHHHhcchh-hhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhh
Confidence            35566666777777766665432 2455666677777777777777777766666443222    122333444444456


Q ss_pred             hHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637           80 MYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus        80 ~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      +.+.|..++.+..+... -.+..--.+.+.....|+++.|.+.++.+.+.+...-..+...+..+|...|+.++...++
T Consensus       195 ~~d~A~~~l~kAlqa~~-~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL  272 (389)
T COG2956         195 DVDRARELLKKALQADK-KCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFL  272 (389)
T ss_pred             hHHHHHHHHHHHHhhCc-cceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHH
Confidence            66666666666665431 2333334566677777888888888888877766666677788888888888888776554

>PRK14574 hmsH outer membrane protein; Provisional

Probab=98.92  E-value=3.6e-07  Score=70.64  Aligned_cols=147  Identities=12%  Similarity=-0.016  Sum_probs=100.5

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhh-HHHH--HHHHHccCh
Q 039637            4 AFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNT-FHIL--IKYFCKEKM   80 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~-~~~l--l~~~~~~~~   80 (159)
                      ...+.|+++.|++.|++..+..+.-...++ .++..+...|+.++|+..+++..    .|+... +..+  ...+...|+
T Consensus        43 i~~r~Gd~~~Al~~L~qaL~~~P~~~~av~-dll~l~~~~G~~~~A~~~~eka~----~p~n~~~~~llalA~ly~~~gd  117 (822)
T PRK14574         43 IRARAGDTAPVLDYLQEESKAGPLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQ----SSMNISSRGLASAARAYRNEKR  117 (822)
T ss_pred             HHHhCCCHHHHHHHHHHHHhhCccchhhHH-HHHHHHHHcCCcHHHHHHHHHhc----cCCCCCHHHHHHHHHHHHHcCC
Confidence            356788999999999888876554222344 77888888899999988888877    243322 3333  446777789


Q ss_pred             HHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637           81 YMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus        81 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      +++|.++++++.+.. +-++..+..++..|...++.++|...++++...  .|+...+..++..+...++..+|++.+
T Consensus       118 yd~Aiely~kaL~~d-P~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~~~AL~~~  192 (822)
T PRK14574        118 WDQALALWQSSLKKD-PTNPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRNYDALQAS  192 (822)
T ss_pred             HHHHHHHHHHHHhhC-CCCHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchHHHHHHHH
Confidence            999999999888764 235667777788888889999999888888754  344444544444443344444465544

>TIGR00540 hemY_coli hemY protein

Probab=98.92  E-value=2.9e-07  Score=66.33  Aligned_cols=151  Identities=12%  Similarity=0.046  Sum_probs=78.5

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCC-ChhhHHHHHHHHHccChHHH
Q 039637            5 FCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP-DYNTFHILIKYFCKEKMYML   83 (159)
Q Consensus         5 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~~~~~~   83 (159)
                      ..+.|+.+.|.+.+....+..+.++....-.....+...|+++.|...++.+.+..  | +......+...+...|++++
T Consensus       128 a~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~Al~~l~~l~~~~--P~~~~~l~ll~~~~~~~~d~~~  205 (409)
T TIGR00540       128 AQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAARHGVDKLLEMA--PRHKEVLKLAEEAYIRSGAWQA  205 (409)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHhhHHH
Confidence            44556666666666665544333222333334555566666666666666666643  3 34455566666666666666


Q ss_pred             HHHHHHHHHHcCCCCcHHHHH-HHHHHH---HccCCHHHHHHHHHHHHhCC---CCCCHHHHHHHHHHHHhcCcHHHHhh
Q 039637           84 AYRTMVDMHRKGHQPEEELCS-SLIFHL---GKMRAHSEALSVYNMLRYSK---RSMCKALHEKILHILISGKLLKDAYI  156 (159)
Q Consensus        84 a~~~~~~m~~~g~~~~~~~~~-~li~~~---~~~g~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~g~~~~A~~  156 (159)
                      +.+.+..+.+.+.. +...+. .-...+   ...+..+.+...+..+....   .+.+...+..+...+...|+.++|.+
T Consensus       206 a~~~l~~l~k~~~~-~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~  284 (409)
T TIGR00540       206 LDDIIDNMAKAGLF-DDEEFADLEQKAEIGLLDEAMADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQE  284 (409)
T ss_pred             HHHHHHHHHHcCCC-CHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHH
Confidence            66666666665532 222221 111111   11122222222333332211   11356667777777888888887776


Q ss_pred             hh
Q 039637          157 VV  158 (159)
Q Consensus       157 ~~  158 (159)
                      ++
T Consensus       285 ~l  286 (409)
T TIGR00540       285 II  286 (409)
T ss_pred             HH
Confidence            64

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.

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

Probab=98.92  E-value=3.4e-07  Score=64.55  Aligned_cols=151  Identities=13%  Similarity=0.060  Sum_probs=103.6

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCChHHHHHHHHHhHhcCCCCCh-hhHHHHHHHHHcc
Q 039637            4 AFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCR----TGDMESVMHVMRKLDELAISPDY-NTFHILIKYFCKE   78 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~m~~~~~~~~~-~~~~~ll~~~~~~   78 (159)
                      .+...|++++|.+.++...+..+. |...+.. ...+..    .+....+.+.+..  .....|+. .....+...+...
T Consensus        52 ~~~~~g~~~~A~~~~~~~l~~~P~-~~~a~~~-~~~~~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~~~~~~a~~~~~~  127 (355)
T cd05804          52 SAWIAGDLPKALALLEQLLDDYPR-DLLALKL-HLGAFGLGDFSGMRDHVARVLPL--WAPENPDYWYLLGMLAFGLEEA  127 (355)
T ss_pred             HHHHcCCHHHHHHHHHHHHHHCCC-cHHHHHH-hHHHHHhcccccCchhHHHHHhc--cCcCCCCcHHHHHHHHHHHHHc
Confidence            356679999999999998876554 4545543 223333    3445555555543  11222332 3334555678889


Q ss_pred             ChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCC-CCCH--HHHHHHHHHHHhcCcHHHHh
Q 039637           79 KMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKR-SMCK--ALHEKILHILISGKLLKDAY  155 (159)
Q Consensus        79 ~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~-~~~~--~~~~~l~~~~~~~g~~~~A~  155 (159)
                      |++++|...+++..+.. +.+...+..+...+...|++++|...+++...... .|+.  ..|..+...+...|+.++|.
T Consensus       128 G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~  206 (355)
T cd05804         128 GQYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAAL  206 (355)
T ss_pred             CCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHH
Confidence            99999999999998864 34566778888999999999999999998775432 2332  34557888999999999998


Q ss_pred             hhhC
Q 039637          156 IVVK  159 (159)
Q Consensus       156 ~~~~  159 (159)
                      .+++
T Consensus       207 ~~~~  210 (355)
T cd05804         207 AIYD  210 (355)
T ss_pred             HHHH
Confidence            8763

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.

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

Probab=98.91  E-value=3.5e-07  Score=62.31  Aligned_cols=149  Identities=12%  Similarity=0.097  Sum_probs=110.5

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChh------hHHHHHHHHHcc
Q 039637            5 FCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYN------TFHILIKYFCKE   78 (159)
Q Consensus         5 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~------~~~~ll~~~~~~   78 (159)
                      +.-+++.++|.+.|-+|.+..+. +..+.-+|-+.|-+.|..+.|+.+...+.++   ||..      ....|-.-|...
T Consensus        45 fLLs~Q~dKAvdlF~e~l~~d~~-t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~s---pdlT~~qr~lAl~qL~~Dym~a  120 (389)
T COG2956          45 FLLSNQPDKAVDLFLEMLQEDPE-TFEAHLTLGNLFRSRGEVDRAIRIHQTLLES---PDLTFEQRLLALQQLGRDYMAA  120 (389)
T ss_pred             HHhhcCcchHHHHHHHHHhcCch-hhHHHHHHHHHHHhcchHHHHHHHHHHHhcC---CCCchHHHHHHHHHHHHHHHHh
Confidence            45578899999999999875544 5667778889999999999999999888874   5532      233455668888


Q ss_pred             ChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCH----HHHHHHHHHHHhcCcHHHH
Q 039637           79 KMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCK----ALHEKILHILISGKLLKDA  154 (159)
Q Consensus        79 ~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~g~~~~A  154 (159)
                      |-++.|+++|..+.+.|. .-......|+..|....+|++|+.+-+++...+..+..    ..|.-+...+....+++.|
T Consensus       121 Gl~DRAE~~f~~L~de~e-fa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A  199 (389)
T COG2956         121 GLLDRAEDIFNQLVDEGE-FAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRA  199 (389)
T ss_pred             hhhhHHHHHHHHHhcchh-hhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHH
Confidence            999999999999887653 34557788999999999999999998877765544432    2355555555666677776


Q ss_pred             hhhh
Q 039637          155 YIVV  158 (159)
Q Consensus       155 ~~~~  158 (159)
                      ..++
T Consensus       200 ~~~l  203 (389)
T COG2956         200 RELL  203 (389)
T ss_pred             HHHH
Confidence            6654

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

Probab=98.91  E-value=2.5e-08  Score=73.03  Aligned_cols=152  Identities=9%  Similarity=-0.044  Sum_probs=97.6

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCC---------------------------------CCCHHHHHHHHHHHHhcCChHHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYD---------------------------------KYDVVLLNSMLCAYCRTGDMESV   49 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~---------------------------------~~~~~~~~~ll~~~~~~~~~~~a   49 (159)
                      .+|...+++++|.++|+.+.+..+                                 +-++.+|.++.+.|.-+++.+.|
T Consensus       361 rayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~Ls~Laq~Li~~~~~sPesWca~GNcfSLQkdh~~A  440 (638)
T KOG1126|consen  361 RAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVALSYLAQDLIDTDPNSPESWCALGNCFSLQKDHDTA  440 (638)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHHHHHHHHHHhhCCCCcHHHHHhcchhhhhhHHHHH
Confidence            466777788888888887765522                                 23567788888888888888888


Q ss_pred             HHHHHHhHhcCCCC-ChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHh
Q 039637           50 MHVMRKLDELAISP-DYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRY  128 (159)
Q Consensus        50 ~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  128 (159)
                      +..|++..+  +.| ...+|+.+-.-+....+++.|...|+..+.... -+-.+|--+.-.|.+.++.+.|.-.|++...
T Consensus       441 ik~f~RAiQ--ldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~~-rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~  517 (638)
T KOG1126|consen  441 IKCFKRAIQ--LDPRFAYAYTLLGHESIATEEFDKAMKSFRKALGVDP-RHYNAWYGLGTVYLKQEKLEFAEFHFQKAVE  517 (638)
T ss_pred             HHHHHHhhc--cCCccchhhhhcCChhhhhHHHHhHHHHHHhhhcCCc-hhhHHHHhhhhheeccchhhHHHHHHHhhhc
Confidence            888888777  445 356666665666666677777777766553210 1222333445566677777777777766664


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637          129 SKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus       129 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      -+.. +......+...+-+.|+.|+|++++
T Consensus       518 INP~-nsvi~~~~g~~~~~~k~~d~AL~~~  546 (638)
T KOG1126|consen  518 INPS-NSVILCHIGRIQHQLKRKDKALQLY  546 (638)
T ss_pred             CCcc-chhHHhhhhHHHHHhhhhhHHHHHH
Confidence            3322 3445556666666667777766665

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.90  E-value=3.2e-09  Score=48.86  Aligned_cols=33  Identities=21%  Similarity=0.502  Sum_probs=21.5

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCC
Q 039637           31 VLLNSMLCAYCRTGDMESVMHVMRKLDELAISP   63 (159)
Q Consensus        31 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~   63 (159)
                      .+||++|.+|++.|+++.|.++|++|.+.|++|
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            356666666666666666666666666666655

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

Probab=98.90  E-value=6.8e-08  Score=65.98  Aligned_cols=150  Identities=11%  Similarity=-0.068  Sum_probs=121.2

Q ss_pred             hhHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhH-HHHHHHHHccCh
Q 039637            2 ISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTF-HILIKYFCKEKM   80 (159)
Q Consensus         2 l~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~-~~ll~~~~~~~~   80 (159)
                      -+.|.+.|.+.+|.+.|+.-.+.  .|-+.||-.|-..|.+..++..|+.++.+-++.  .|-..|| .-+.+.+...++
T Consensus       230 gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~--fP~~VT~l~g~ARi~eam~~  305 (478)
T KOG1129|consen  230 GKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS--FPFDVTYLLGQARIHEAMEQ  305 (478)
T ss_pred             HHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc--CCchhhhhhhhHHHHHHHHh
Confidence            35788899999999999877665  345567888889999999999999999988773  4655555 456677888899


Q ss_pred             HHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhh
Q 039637           81 YMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIV  157 (159)
Q Consensus        81 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  157 (159)
                      .++|.++++...+. .+.++....++...|.-.++++.|.++++++.+-|.. +...|+.+--+|.-.+++|-++.-
T Consensus       306 ~~~a~~lYk~vlk~-~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L~s  380 (478)
T KOG1129|consen  306 QEDALQLYKLVLKL-HPINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVLPS  380 (478)
T ss_pred             HHHHHHHHHHHHhc-CCccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhHHH
Confidence            99999999998876 3567788888888899999999999999999887766 677888888888888888776543

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

Probab=98.90  E-value=4.7e-07  Score=55.06  Aligned_cols=110  Identities=9%  Similarity=-0.002  Sum_probs=89.5

Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCC
Q 039637           17 LAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGH   96 (159)
Q Consensus        17 ~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~   96 (159)
                      .++...+..+. +......+...+.+.|++++|.+.|......+ ..+...+..+..++...|++++|..++++..+.+ 
T Consensus         5 ~~~~~l~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-   81 (135)
T TIGR02552         5 TLKDLLGLDSE-QLEQIYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-   81 (135)
T ss_pred             hHHHHHcCChh-hHHHHHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-
Confidence            45555554443 55667788888999999999999999988854 2356778888899999999999999999988764 


Q ss_pred             CCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 039637           97 QPEEELCSSLIFHLGKMRAHSEALSVYNMLRYS  129 (159)
Q Consensus        97 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  129 (159)
                      +.+...+..+...|...|+.++|...|+.....
T Consensus        82 p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  114 (135)
T TIGR02552        82 PDDPRPYFHAAECLLALGEPESALKALDLAIEI  114 (135)
T ss_pred             CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            456778888889999999999999999988864

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

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

Probab=98.89  E-value=9.3e-07  Score=58.44  Aligned_cols=148  Identities=14%  Similarity=0.095  Sum_probs=108.9

Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHH
Q 039637            7 RSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYR   86 (159)
Q Consensus         7 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~   86 (159)
                      ..|+-+....+........ ..|....+..+....+.|++..|...+.+...- -.+|..+|+.+--+|.+.|+.++|..
T Consensus        78 ~~G~a~~~l~~~~~~~~~~-~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l-~p~d~~~~~~lgaaldq~Gr~~~Ar~  155 (257)
T COG5010          78 LRGDADSSLAVLQKSAIAY-PKDRELLAAQGKNQIRNGNFGEAVSVLRKAARL-APTDWEAWNLLGAALDQLGRFDEARR  155 (257)
T ss_pred             hcccccchHHHHhhhhccC-cccHHHHHHHHHHHHHhcchHHHHHHHHHHhcc-CCCChhhhhHHHHHHHHccChhHHHH
Confidence            3344444444443333222 226667777888888899999999999888763 24567888888888999999999999


Q ss_pred             HHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637           87 TMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus        87 ~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      -|.+..+.- .-++...+.+.-.|.-.|+.+.|..++......+. -+..+-..+.......|++++|.++.
T Consensus       156 ay~qAl~L~-~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~-ad~~v~~NLAl~~~~~g~~~~A~~i~  225 (257)
T COG5010         156 AYRQALELA-PNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPA-ADSRVRQNLALVVGLQGDFREAEDIA  225 (257)
T ss_pred             HHHHHHHhc-cCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCC-CchHHHHHHHHHHhhcCChHHHHhhc
Confidence            888888753 23556778888888888999999999888776443 35567788888889999999888753

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

Probab=98.86  E-value=6.2e-07  Score=63.80  Aligned_cols=150  Identities=12%  Similarity=-0.031  Sum_probs=126.3

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCC-ChhhHHHHHHHHHccChH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP-DYNTFHILIKYFCKEKMY   81 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~~~~   81 (159)
                      +-|...++...|.+-+++.++-.+. |-..|-.|.++|.-.+.+.=|+-.|++..+  ++| |...|.+|-.+|.+.+++
T Consensus       372 HEyvEmKNt~AAi~sYRrAvdi~p~-DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~--~kPnDsRlw~aLG~CY~kl~~~  448 (559)
T KOG1155|consen  372 HEYVEMKNTHAAIESYRRAVDINPR-DYRAWYGLGQAYEIMKMHFYALYYFQKALE--LKPNDSRLWVALGECYEKLNRL  448 (559)
T ss_pred             HHHHHhcccHHHHHHHHHHHhcCch-hHHHHhhhhHHHHHhcchHHHHHHHHHHHh--cCCCchHHHHHHHHHHHHhccH
Confidence            4577888999999999999987665 999999999999999999999999999887  667 479999999999999999


Q ss_pred             HHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhC----C-CCC-CHHHHHHHHHHHHhcCcHHHHh
Q 039637           82 MLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYS----K-RSM-CKALHEKILHILISGKLLKDAY  155 (159)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~-~~~-~~~~~~~l~~~~~~~g~~~~A~  155 (159)
                      ++|++.|......|. .+...+..|...|.+.++.++|.+.|++-...    | ..| ....-..|...+.+.+++++|.
T Consensus       449 ~eAiKCykrai~~~d-te~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As  527 (559)
T KOG1155|consen  449 EEAIKCYKRAILLGD-TEGSALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEAS  527 (559)
T ss_pred             HHHHHHHHHHHhccc-cchHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHH
Confidence            999999999998764 36678999999999999999999998866541    2 222 2334455778889999999987


Q ss_pred             h
Q 039637          156 I  156 (159)
Q Consensus       156 ~  156 (159)
                      .
T Consensus       528 ~  528 (559)
T KOG1155|consen  528 Y  528 (559)
T ss_pred             H
Confidence            5

>PRK11189 lipoprotein NlpI; Provisional

Probab=98.84  E-value=1.2e-06  Score=60.49  Aligned_cols=146  Identities=13%  Similarity=-0.064  Sum_probs=109.7

Q ss_pred             cCCHHHHHHHHHHHHhCCC-CC--CHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC-hhhHHHHHHHHHccChHHH
Q 039637            8 SGCFEETKQLAGDFEAKYD-KY--DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYML   83 (159)
Q Consensus         8 ~~~~~~A~~~~~~~~~~~~-~~--~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~~~   83 (159)
                      .++.+.++.-+..+..... .|  ....|..+...|.+.|++++|...|.+..+.  .|+ ...|+.+-..+...|++++
T Consensus        39 ~~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l--~P~~~~a~~~lg~~~~~~g~~~~  116 (296)
T PRK11189         39 TLQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALAL--RPDMADAYNYLGIYLTQAGNFDA  116 (296)
T ss_pred             chHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHCCCHHH
Confidence            3556777888877775432 22  2456888888999999999999999999884  454 6889999999999999999


Q ss_pred             HHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637           84 AYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus        84 a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      |...|++..+.. +-+..++..+...+...|++++|.+.|+......  |+..........+...++.++|.+.|
T Consensus       117 A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~--P~~~~~~~~~~l~~~~~~~~~A~~~l  188 (296)
T PRK11189        117 AYEAFDSVLELD-PTYNYAYLNRGIALYYGGRYELAQDDLLAFYQDD--PNDPYRALWLYLAESKLDPKQAKENL  188 (296)
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHccCCHHHHHHHH
Confidence            999999999753 2256678888888999999999999999887643  33221222223345567788887765

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

Probab=98.84  E-value=1.4e-06  Score=60.70  Aligned_cols=150  Identities=13%  Similarity=0.008  Sum_probs=104.5

Q ss_pred             hhHHHhcCCHHHHHHHHHHHHhCCCCCCHH-------HHHHHH----------------------------------HHH
Q 039637            2 ISAFCRSGCFEETKQLAGDFEAKYDKYDVV-------LLNSML----------------------------------CAY   40 (159)
Q Consensus         2 l~~~~~~~~~~~A~~~~~~~~~~~~~~~~~-------~~~~ll----------------------------------~~~   40 (159)
                      .+.|.+.|+|.....+...+.+.|.--|..       +|+.++                                  .-+
T Consensus       194 ~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~~pr~lr~~p~l~~~~a~~l  273 (400)
T COG3071         194 LRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKNQPRKLRNDPELVVAYAERL  273 (400)
T ss_pred             HHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHhccHHhhcChhHHHHHHHHH
Confidence            467889999999999999998887533322       344444                                  445


Q ss_pred             HhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHH
Q 039637           41 CRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEAL  120 (159)
Q Consensus        41 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~  120 (159)
                      .+.|+.++|.++..+-.+.+..|+    -..+-.+.+.++++.-++..++-.+. ++-++..+.+|...|.+.+.+.+|.
T Consensus       274 i~l~~~~~A~~~i~~~Lk~~~D~~----L~~~~~~l~~~d~~~l~k~~e~~l~~-h~~~p~L~~tLG~L~~k~~~w~kA~  348 (400)
T COG3071         274 IRLGDHDEAQEIIEDALKRQWDPR----LCRLIPRLRPGDPEPLIKAAEKWLKQ-HPEDPLLLSTLGRLALKNKLWGKAS  348 (400)
T ss_pred             HHcCChHHHHHHHHHHHHhccChh----HHHHHhhcCCCCchHHHHHHHHHHHh-CCCChhHHHHHHHHHHHhhHHHHHH
Confidence            555666666666665555555444    12222344555555555555444432 2335578889999999999999999


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637          121 SVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus       121 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      ..|+...  ...|+..+|+.+.+.+.+.|+..+|.++.
T Consensus       349 ~~leaAl--~~~~s~~~~~~la~~~~~~g~~~~A~~~r  384 (400)
T COG3071         349 EALEAAL--KLRPSASDYAELADALDQLGEPEEAEQVR  384 (400)
T ss_pred             HHHHHHH--hcCCChhhHHHHHHHHHHcCChHHHHHHH
Confidence            9999665  45689999999999999999999998764

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.84  E-value=7.5e-09  Score=47.77  Aligned_cols=33  Identities=27%  Similarity=0.473  Sum_probs=20.1

Q ss_pred             hHHHHHHHHHccChHHHHHHHHHHHHHcCCCCc
Q 039637           67 TFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPE   99 (159)
Q Consensus        67 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~   99 (159)
                      +|++++.+|++.|++++|.++|.+|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            456666666666666666666666666665554

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=98.83  E-value=9.3e-08  Score=55.36  Aligned_cols=81  Identities=14%  Similarity=0.158  Sum_probs=64.2

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHhHhcCC-CCChhhHHHHHHHHHccC--------hHHHHHHHHHHHHHcCCCCcHHH
Q 039637           32 LLNSMLCAYCRTGDMESVMHVMRKLDELAI-SPDYNTFHILIKYFCKEK--------MYMLAYRTMVDMHRKGHQPEEEL  102 (159)
Q Consensus        32 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~-~~~~~~~~~ll~~~~~~~--------~~~~a~~~~~~m~~~g~~~~~~~  102 (159)
                      +-...|..+...+++.....+|+.++..|+ .|+..+|+.++.+-++..        ++-..+.+|+.|+..++.|+..+
T Consensus        27 t~i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~et  106 (120)
T PF08579_consen   27 TQIDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDET  106 (120)
T ss_pred             HHHHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHH
Confidence            345566667777888888899999988888 888899988888876642        34577888888888888899999


Q ss_pred             HHHHHHHHHc
Q 039637          103 CSSLIFHLGK  112 (159)
Q Consensus       103 ~~~li~~~~~  112 (159)
                      |+.++..+.+
T Consensus       107 Ynivl~~Llk  116 (120)
T PF08579_consen  107 YNIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHHH
Confidence            9888877654

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 [, , ].

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

Probab=98.82  E-value=2.3e-06  Score=55.81  Aligned_cols=151  Identities=11%  Similarity=-0.120  Sum_probs=125.2

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCC-ChhhHHHHHHHHHccChH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP-DYNTFHILIKYFCKEKMY   81 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~~~~   81 (159)
                      ..|-+.|+.+.|.+-|+...+..+. +-.+.|..-..+|..|++++|...|.+....-.-| ...||..+.-|..+.|+.
T Consensus        77 ~~Yq~~Ge~~~A~e~YrkAlsl~p~-~GdVLNNYG~FLC~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~  155 (250)
T COG3063          77 HYYQKLGENDLADESYRKALSLAPN-NGDVLNNYGAFLCAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQF  155 (250)
T ss_pred             HHHHHcCChhhHHHHHHHHHhcCCC-ccchhhhhhHHHHhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCc
Confidence            5678899999999999999887665 78889999999999999999999999988753222 257899999999999999


Q ss_pred             HHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhh
Q 039637           82 MLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYI  156 (159)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  156 (159)
                      +.|...|.+-++... -.+.+.-.+.....+.|+.-.|..+++.....+. ++....-..|+.=-..|+-+.+.+
T Consensus       156 ~~A~~~l~raL~~dp-~~~~~~l~~a~~~~~~~~y~~Ar~~~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~  228 (250)
T COG3063         156 DQAEEYLKRALELDP-QFPPALLELARLHYKAGDYAPARLYLERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQR  228 (250)
T ss_pred             hhHHHHHHHHHHhCc-CCChHHHHHHHHHHhcccchHHHHHHHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHH
Confidence            999999999988643 2445677888999999999999999999987655 787777777777777777766543

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

Probab=98.81  E-value=3.9e-07  Score=65.23  Aligned_cols=151  Identities=9%  Similarity=0.065  Sum_probs=114.9

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHH
Q 039637            5 FCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLA   84 (159)
Q Consensus         5 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   84 (159)
                      +.-.+++++|..-|++.++..+. +...|--+..+..|.+++++++..|++.+.. ++-.+..|+.....+..+++++.|
T Consensus       404 ~flL~q~e~A~aDF~Kai~L~pe-~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A  481 (606)
T KOG0547|consen  404 RFLLQQYEEAIADFQKAISLDPE-NAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKA  481 (606)
T ss_pred             HHHHHHHHHHHHHHHHHhhcChh-hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHH
Confidence            33446778888888887776655 7778888888888899999999999998875 544578888888899999999999


Q ss_pred             HHHHHHHHHcCC-------CCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhh
Q 039637           85 YRTMVDMHRKGH-------QPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIV  157 (159)
Q Consensus        85 ~~~~~~m~~~g~-------~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  157 (159)
                      .+.|+...+...       .+.+.+...++-.--+ +++..|..++++..+.. +-....|..|...-...|++++|.++
T Consensus       482 ~k~YD~ai~LE~~~~~~~v~~~plV~Ka~l~~qwk-~d~~~a~~Ll~KA~e~D-pkce~A~~tlaq~~lQ~~~i~eAiel  559 (606)
T KOG0547|consen  482 VKQYDKAIELEPREHLIIVNAAPLVHKALLVLQWK-EDINQAENLLRKAIELD-PKCEQAYETLAQFELQRGKIDEAIEL  559 (606)
T ss_pred             HHHHHHHHhhccccccccccchhhhhhhHhhhchh-hhHHHHHHHHHHHHccC-chHHHHHHHHHHHHHHHhhHHHHHHH
Confidence            999988775321       1223334444444333 88999999999888644 33567899999999999999999999


Q ss_pred             hC
Q 039637          158 VK  159 (159)
Q Consensus       158 ~~  159 (159)
                      |+
T Consensus       560 FE  561 (606)
T KOG0547|consen  560 FE  561 (606)
T ss_pred             HH
Confidence            85

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.81  E-value=1.2e-08  Score=46.88  Aligned_cols=33  Identities=21%  Similarity=0.330  Sum_probs=20.8

Q ss_pred             hhHHHHHHHHHccChHHHHHHHHHHHHHcCCCC
Q 039637           66 NTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQP   98 (159)
Q Consensus        66 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~   98 (159)
                      .+|+.++.+|++.|+++.|.++|++|.+.|++|
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            456666666666666666666666666666554

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

Probab=98.80  E-value=2.8e-07  Score=53.42  Aligned_cols=82  Identities=20%  Similarity=0.206  Sum_probs=62.0

Q ss_pred             hHHHHHHHHHccChHHHHHHHHHHHHHcCC-CCcHHHHHHHHHHHHccC--------CHHHHHHHHHHHHhCCCCCCHHH
Q 039637           67 TFHILIKYFCKEKMYMLAYRTMVDMHRKGH-QPEEELCSSLIFHLGKMR--------AHSEALSVYNMLRYSKRSMCKAL  137 (159)
Q Consensus        67 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~-~~~~~~~~~li~~~~~~g--------~~~~a~~~~~~~~~~~~~~~~~~  137 (159)
                      |-...|.-|...+++...-.+|+.+++.|+ -|+..+|+.++.+.++..        ++-....++++|...+.+|+..+
T Consensus        27 t~i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~et  106 (120)
T PF08579_consen   27 TQIDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDET  106 (120)
T ss_pred             HHHHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHH
Confidence            334556666666888888888888888888 788888888888777653        34566778888888888888888


Q ss_pred             HHHHHHHHHhc
Q 039637          138 HEKILHILISG  148 (159)
Q Consensus       138 ~~~l~~~~~~~  148 (159)
                      |+.++..+.+.
T Consensus       107 Ynivl~~Llkg  117 (120)
T PF08579_consen  107 YNIVLGSLLKG  117 (120)
T ss_pred             HHHHHHHHHHh
Confidence            88888877653

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

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

Probab=98.80  E-value=1.4e-07  Score=69.28  Aligned_cols=147  Identities=12%  Similarity=-0.081  Sum_probs=70.6

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHH-----------------------------
Q 039637            4 AFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMR-----------------------------   54 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~-----------------------------   54 (159)
                      .|+-.++.+.|++.|++..+.++. ..++|+.+-.-+.....++.|...|+                             
T Consensus       430 cfSLQkdh~~Aik~f~RAiQldp~-faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~~rhYnAwYGlG~vy~Kqek~e~A  508 (638)
T KOG1126|consen  430 CFSLQKDHDTAIKCFKRAIQLDPR-FAYAYTLLGHESIATEEFDKAMKSFRKALGVDPRHYNAWYGLGTVYLKQEKLEFA  508 (638)
T ss_pred             hhhhhhHHHHHHHHHHHhhccCCc-cchhhhhcCChhhhhHHHHhHHHHHHhhhcCCchhhHHHHhhhhheeccchhhHH
Confidence            455667777788887777654332 44555555555555555555555554                             


Q ss_pred             -----HhHhcCCCCC-hhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHh
Q 039637           55 -----KLDELAISPD-YNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRY  128 (159)
Q Consensus        55 -----~m~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  128 (159)
                           +..+  +.|. .+....+...+.+.|+.++|++++++...... .|+..----+..+...++.++|.+.+++++.
T Consensus       509 e~~fqkA~~--INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~-kn~l~~~~~~~il~~~~~~~eal~~LEeLk~  585 (638)
T KOG1126|consen  509 EFHFQKAVE--INPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDP-KNPLCKYHRASILFSLGRYVEALQELEELKE  585 (638)
T ss_pred             HHHHHhhhc--CCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCC-CCchhHHHHHHHHHhhcchHHHHHHHHHHHH
Confidence                 4443  2232 22333333444444555555555554443321 1222222233334444555555555555553


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCcHHHHh
Q 039637          129 SKRSMCKALHEKILHILISGKLLKDAY  155 (159)
Q Consensus       129 ~~~~~~~~~~~~l~~~~~~~g~~~~A~  155 (159)
                       -++-+..+|-.+...|-+-|+.+.|.
T Consensus       586 -~vP~es~v~~llgki~k~~~~~~~Al  611 (638)
T KOG1126|consen  586 -LVPQESSVFALLGKIYKRLGNTDLAL  611 (638)
T ss_pred             -hCcchHHHHHHHHHHHHHHccchHHH
Confidence             22223334445555555555555554

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.79  E-value=1.4e-06  Score=53.79  Aligned_cols=108  Identities=11%  Similarity=-0.041  Sum_probs=87.7

Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcC
Q 039637           16 QLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKG   95 (159)
Q Consensus        16 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g   95 (159)
                      .+|++..+.  .|+  .+..+...+...|++++|...|.+..... ..+...|..+-.++...|++++|...|+...+..
T Consensus        14 ~~~~~al~~--~p~--~~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~   88 (144)
T PRK15359         14 DILKQLLSV--DPE--TVYASGYASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD   88 (144)
T ss_pred             HHHHHHHHc--CHH--HHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            345555543  233  35567888899999999999999998743 2357788889999999999999999999999864


Q ss_pred             CCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 039637           96 HQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYS  129 (159)
Q Consensus        96 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  129 (159)
                       +.++..+..+..++.+.|+.++|...|+.....
T Consensus        89 -p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~  121 (144)
T PRK15359         89 -ASHPEPVYQTGVCLKMMGEPGLAREAFQTAIKM  121 (144)
T ss_pred             -CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence             457888899999999999999999999988764

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

Probab=98.78  E-value=9.2e-07  Score=63.15  Aligned_cols=146  Identities=12%  Similarity=0.058  Sum_probs=78.8

Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCC-ChhhHHHHHHHHHccChHHHHH
Q 039637            7 RSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP-DYNTFHILIKYFCKEKMYMLAY   85 (159)
Q Consensus         7 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~   85 (159)
                      ..|+.++|+++|-++..- ..-+..+.-.+.+.|-...++..|++++.+...  +.| |+...+-|...|-+.|+-..|.
T Consensus       536 ~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~~~q~~s--lip~dp~ilskl~dlydqegdksqaf  612 (840)
T KOG2003|consen  536 ALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIELLMQANS--LIPNDPAILSKLADLYDQEGDKSQAF  612 (840)
T ss_pred             HhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhcc--cCCCCHHHHHHHHHHhhcccchhhhh
Confidence            345666666666544321 112444555555666666666666666655443  334 3556666666676666666665


Q ss_pred             HHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHH-HHHHhcCcHHHHhhhh
Q 039637           86 RTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKIL-HILISGKLLKDAYIVV  158 (159)
Q Consensus        86 ~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~-~~~~~~g~~~~A~~~~  158 (159)
                      +++..--+. .+.+..+...|...|....-+++|+.+|++..  -+.|+..-|..++ .++-+.|++..|++++
T Consensus       613 q~~ydsyry-fp~nie~iewl~ayyidtqf~ekai~y~ekaa--liqp~~~kwqlmiasc~rrsgnyqka~d~y  683 (840)
T KOG2003|consen  613 QCHYDSYRY-FPCNIETIEWLAAYYIDTQFSEKAINYFEKAA--LIQPNQSKWQLMIASCFRRSGNYQKAFDLY  683 (840)
T ss_pred             hhhhhcccc-cCcchHHHHHHHHHHHhhHHHHHHHHHHHHHH--hcCccHHHHHHHHHHHHHhcccHHHHHHHH
Confidence            554433322 33345555555555555555566666665543  3445555555555 3334456666666554

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

Probab=98.76  E-value=5.7e-07  Score=64.38  Aligned_cols=124  Identities=13%  Similarity=0.000  Sum_probs=103.2

Q ss_pred             CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhc--CCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHH
Q 039637           25 YDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDEL--AISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEEL  102 (159)
Q Consensus        25 ~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~--~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~  102 (159)
                      +.+.+.....++++.+....+.+.+..++.+....  ....-..|..++++.|...|..+.+..++..=...|+-||..+
T Consensus        61 ~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s  140 (429)
T PF10037_consen   61 KKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFS  140 (429)
T ss_pred             CCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhh
Confidence            33457778888999988888999999999888875  2223345667999999999999999999999999999999999


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 039637          103 CSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISG  148 (159)
Q Consensus       103 ~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  148 (159)
                      ++.|+..+.+.|++..|.++.-.|...+...+..|+...+.+|.+-
T Consensus       141 ~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  141 FNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            9999999999999999999998888777777777777666666655

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 [].

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=98.74  E-value=1e-06  Score=64.40  Aligned_cols=158  Identities=16%  Similarity=0.118  Sum_probs=114.5

Q ss_pred             hhHHHhcCCHHHHHHHHHHHHhC-----CC-CCCHHH-HHHHHHHHHhcCChHHHHHHHHHhHhc-----C-CCCC-hhh
Q 039637            2 ISAFCRSGCFEETKQLAGDFEAK-----YD-KYDVVL-LNSMLCAYCRTGDMESVMHVMRKLDEL-----A-ISPD-YNT   67 (159)
Q Consensus         2 l~~~~~~~~~~~A~~~~~~~~~~-----~~-~~~~~~-~~~ll~~~~~~~~~~~a~~~~~~m~~~-----~-~~~~-~~~   67 (159)
                      ...|...|+++.|.+++++..+-     |. .|.+.+ .+.+...|...+++.+|..+|+++...     | ..|. ..+
T Consensus       206 a~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h~~va~~  285 (508)
T KOG1840|consen  206 AEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDHPAVAAT  285 (508)
T ss_pred             HHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCCHHHHHH
Confidence            46789999999999999986543     21 234333 344777888999999999999998864     2 1222 356


Q ss_pred             HHHHHHHHHccChHHHHHHHHHHHHH-----cC-CCCcHH-HHHHHHHHHHccCCHHHHHHHHHHHHh---CCCCCC---
Q 039637           68 FHILIKYFCKEKMYMLAYRTMVDMHR-----KG-HQPEEE-LCSSLIFHLGKMRAHSEALSVYNMLRY---SKRSMC---  134 (159)
Q Consensus        68 ~~~ll~~~~~~~~~~~a~~~~~~m~~-----~g-~~~~~~-~~~~li~~~~~~g~~~~a~~~~~~~~~---~~~~~~---  134 (159)
                      ++.|-..|.+.|++++|..+++...+     .| ..|.+. .++.+...++..+++++|..+++...+   .-..++   
T Consensus       286 l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~  365 (508)
T KOG1840|consen  286 LNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVN  365 (508)
T ss_pred             HHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccchH
Confidence            67777889999999998888776552     12 123332 446677788888999999999885542   112222   


Q ss_pred             -HHHHHHHHHHHHhcCcHHHHhhhhC
Q 039637          135 -KALHEKILHILISGKLLKDAYIVVK  159 (159)
Q Consensus       135 -~~~~~~l~~~~~~~g~~~~A~~~~~  159 (159)
                       ..+++.+-..|.+.|++++|+++++
T Consensus       366 ~a~~~~nl~~l~~~~gk~~ea~~~~k  391 (508)
T KOG1840|consen  366 LAKIYANLAELYLKMGKYKEAEELYK  391 (508)
T ss_pred             HHHHHHHHHHHHHHhcchhHHHHHHH
Confidence             3579999999999999999999874

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

Probab=98.73  E-value=1.9e-06  Score=57.01  Aligned_cols=121  Identities=14%  Similarity=0.037  Sum_probs=103.7

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC-hhhHHHHHHHHHccChH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMY   81 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~   81 (159)
                      ....+.|++.+|..+|++.....+ +|...|+.+--+|-+.|+.++|..-|.+..+  +.|+ ....+.+.-.+.-.|++
T Consensus       108 k~~~~~g~~~~A~~~~rkA~~l~p-~d~~~~~~lgaaldq~Gr~~~Ar~ay~qAl~--L~~~~p~~~nNlgms~~L~gd~  184 (257)
T COG5010         108 KNQIRNGNFGEAVSVLRKAARLAP-TDWEAWNLLGAALDQLGRFDEARRAYRQALE--LAPNEPSIANNLGMSLLLRGDL  184 (257)
T ss_pred             HHHHHhcchHHHHHHHHHHhccCC-CChhhhhHHHHHHHHccChhHHHHHHHHHHH--hccCCchhhhhHHHHHHHcCCH
Confidence            456788999999999999987655 4999999999999999999999999999988  5565 46678888888899999


Q ss_pred             HHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHH
Q 039637           82 MLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLR  127 (159)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~  127 (159)
                      +.|..++......+. -|..+-+.+.......|++++|.++...-.
T Consensus       185 ~~A~~lll~a~l~~~-ad~~v~~NLAl~~~~~g~~~~A~~i~~~e~  229 (257)
T COG5010         185 EDAETLLLPAYLSPA-ADSRVRQNLALVVGLQGDFREAEDIAVQEL  229 (257)
T ss_pred             HHHHHHHHHHHhCCC-CchHHHHHHHHHHhhcCChHHHHhhccccc
Confidence            999999998887653 377788889999999999999999876444

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.72  E-value=2.2e-06  Score=52.87  Aligned_cols=91  Identities=5%  Similarity=-0.147  Sum_probs=79.8

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYM   82 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   82 (159)
                      ..+.+.|++++|...|+......+. +...|..+..++.+.|++++|...|.+..... ..+...+..+..++...|+++
T Consensus        32 ~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~-p~~~~a~~~lg~~l~~~g~~~  109 (144)
T PRK15359         32 YASWQEGDYSRAVIDFSWLVMAQPW-SWRAHIALAGTWMMLKEYTTAINFYGHALMLD-ASHPEPVYQTGVCLKMMGEPG  109 (144)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHH
Confidence            3567889999999999999887665 88999999999999999999999999999843 235688888999999999999


Q ss_pred             HHHHHHHHHHHcC
Q 039637           83 LAYRTMVDMHRKG   95 (159)
Q Consensus        83 ~a~~~~~~m~~~g   95 (159)
                      +|...+....+..
T Consensus       110 eAi~~~~~Al~~~  122 (144)
T PRK15359        110 LAREAFQTAIKMS  122 (144)
T ss_pred             HHHHHHHHHHHhC
Confidence            9999999998753

>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=98.71  E-value=2.8e-06  Score=60.48  Aligned_cols=122  Identities=14%  Similarity=0.109  Sum_probs=95.6

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHH
Q 039637           31 VLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHL  110 (159)
Q Consensus        31 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~  110 (159)
                      ..-..|+..+...++++.|..+|+++.+..  |+  ....+...+...++-.+|.+++.+.++.. +-+......-...+
T Consensus       170 yLv~~Ll~~l~~t~~~~~ai~lle~L~~~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fL  244 (395)
T PF09295_consen  170 YLVDTLLKYLSLTQRYDEAIELLEKLRERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFL  244 (395)
T ss_pred             HHHHHHHHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            344566666777889999999999998854  54  44557788878888889999998888653 34677777778888


Q ss_pred             HccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637          111 GKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus       111 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      .+.++.+.|..+.+++... .|-+..+|..|..+|.+.|++++|+-.+
T Consensus       245 l~k~~~~lAL~iAk~av~l-sP~~f~~W~~La~~Yi~~~d~e~ALlaL  291 (395)
T PF09295_consen  245 LSKKKYELALEIAKKAVEL-SPSEFETWYQLAECYIQLGDFENALLAL  291 (395)
T ss_pred             HhcCCHHHHHHHHHHHHHh-CchhHHHHHHHHHHHHhcCCHHHHHHHH
Confidence            9999999999999988853 3334568999999999999999998665

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

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.70  E-value=4.9e-06  Score=63.44  Aligned_cols=123  Identities=12%  Similarity=-0.037  Sum_probs=105.0

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCCh-hhHHHHHHHHHccChH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDY-NTFHILIKYFCKEKMY   81 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~-~~~~~ll~~~~~~~~~   81 (159)
                      ....+.|..++|..+++...+..|. +...+..+..++.+.+++++|+...++....  .|+. .....+-.++.+.|++
T Consensus        94 ~i~~~~g~~~ea~~~l~~~~~~~Pd-~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~--~p~~~~~~~~~a~~l~~~g~~  170 (694)
T PRK15179         94 RALEAAHRSDEGLAVWRGIHQRFPD-SSEAFILMLRGVKRQQGIEAGRAEIELYFSG--GSSSAREILLEAKSWDEIGQS  170 (694)
T ss_pred             HHHHHcCCcHHHHHHHHHHHhhCCC-cHHHHHHHHHHHHHhccHHHHHHHHHHHhhc--CCCCHHHHHHHHHHHHHhcch
Confidence            4456789999999999999987554 6788899999999999999999999999984  4664 5556677888999999


Q ss_pred             HHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 039637           82 MLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYS  129 (159)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  129 (159)
                      ++|..+|+++... .+-+..++..+...+-+.|+.++|...|++..+.
T Consensus       171 ~~A~~~y~~~~~~-~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~  217 (694)
T PRK15179        171 EQADACFERLSRQ-HPEFENGYVGWAQSLTRRGALWRARDVLQAGLDA  217 (694)
T ss_pred             HHHHHHHHHHHhc-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            9999999999983 3345778999999999999999999999988753

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

Probab=98.69  E-value=4.8e-06  Score=51.43  Aligned_cols=122  Identities=17%  Similarity=0.068  Sum_probs=71.5

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCCh----hhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCc--HHHHHH
Q 039637           32 LLNSMLCAYCRTGDMESVMHVMRKLDELAISPDY----NTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPE--EELCSS  105 (159)
Q Consensus        32 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~----~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~--~~~~~~  105 (159)
                      .|..++..+ ..++...+...++.+.+..  |+.    ...-.+-..+...|++++|...|+.+......|+  ....-.
T Consensus        14 ~y~~~~~~~-~~~~~~~~~~~~~~l~~~~--~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~   90 (145)
T PF09976_consen   14 LYEQALQAL-QAGDPAKAEAAAEQLAKDY--PSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLR   90 (145)
T ss_pred             HHHHHHHHH-HCCCHHHHHHHHHHHHHHC--CCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHH
Confidence            344444444 3666777777777776642  222    2222334556677777777777777776542222  123344


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637          106 LIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus       106 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      +...+...|++++|...++.....  ......+...-..|.+.|++++|...|
T Consensus        91 LA~~~~~~~~~d~Al~~L~~~~~~--~~~~~~~~~~Gdi~~~~g~~~~A~~~y  141 (145)
T PF09976_consen   91 LARILLQQGQYDEALATLQQIPDE--AFKALAAELLGDIYLAQGDYDEARAAY  141 (145)
T ss_pred             HHHHHHHcCCHHHHHHHHHhccCc--chHHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            566677777777777777664322  233445556667777777777777665

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

Probab=98.69  E-value=5.4e-06  Score=57.90  Aligned_cols=153  Identities=14%  Similarity=0.127  Sum_probs=96.5

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCCh-------hhHHHHHHHHHc
Q 039637            5 FCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDY-------NTFHILIKYFCK   77 (159)
Q Consensus         5 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~-------~~~~~ll~~~~~   77 (159)
                      ....|+.+.|..-.+.+.+.++. ++.......++|.+.|++.++..++.+|.+.|+--+.       .+|..+++-...
T Consensus       163 ll~~~d~~aA~~~v~~ll~~~pr-~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~  241 (400)
T COG3071         163 LLNRRDYPAARENVDQLLEMTPR-HPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARD  241 (400)
T ss_pred             HHhCCCchhHHHHHHHHHHhCcC-ChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhc
Confidence            44556667777666666665554 6667777777777777777777777777777653332       344555555544


Q ss_pred             cChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCC-------------------------
Q 039637           78 EKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRS-------------------------  132 (159)
Q Consensus        78 ~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~-------------------------  132 (159)
                      .+..+.-..+|++.-+. ..-++..-.+++.-+.++|+.++|.++.++..+.+..                         
T Consensus       242 ~~~~~gL~~~W~~~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L~~~~~~l~~~d~~~l~k~~e~~  320 (400)
T COG3071         242 DNGSEGLKTWWKNQPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRLCRLIPRLRPGDPEPLIKAAEKW  320 (400)
T ss_pred             cccchHHHHHHHhccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhHHHHHhhcCCCCchHHHHHHHHH
Confidence            44444444455444432 2234555566677777777777777776655443322                         


Q ss_pred             -----CCHHHHHHHHHHHHhcCcHHHHhhhhC
Q 039637          133 -----MCKALHEKILHILISGKLLKDAYIVVK  159 (159)
Q Consensus       133 -----~~~~~~~~l~~~~~~~g~~~~A~~~~~  159 (159)
                           .++..+.++-..|.+.+.|.+|.+.|+
T Consensus       321 l~~h~~~p~L~~tLG~L~~k~~~w~kA~~~le  352 (400)
T COG3071         321 LKQHPEDPLLLSTLGRLALKNKLWGKASEALE  352 (400)
T ss_pred             HHhCCCChhHHHHHHHHHHHhhHHHHHHHHHH
Confidence                 233457888888889999988887764

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

Probab=98.69  E-value=5.1e-06  Score=51.33  Aligned_cols=118  Identities=14%  Similarity=0.070  Sum_probs=90.5

Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCCh--hhHHHHHHHHHccChHH
Q 039637            7 RSGCFEETKQLAGDFEAKYDKYD--VVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDY--NTFHILIKYFCKEKMYM   82 (159)
Q Consensus         7 ~~~~~~~A~~~~~~~~~~~~~~~--~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~--~~~~~ll~~~~~~~~~~   82 (159)
                      ..++...+.+.++.+.+..+.-.  ....-.+...+...|++++|...|++.......|+.  .....+...+...|+++
T Consensus        23 ~~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d  102 (145)
T PF09976_consen   23 QAGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQYD  102 (145)
T ss_pred             HCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHH
Confidence            57899999999999998755421  223334557888999999999999999987633332  23345678888999999


Q ss_pred             HHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHH
Q 039637           83 LAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNML  126 (159)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  126 (159)
                      +|+..++.....  ...+..+......|.+.|+.++|...|+..
T Consensus       103 ~Al~~L~~~~~~--~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen  103 EALATLQQIPDE--AFKALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             HHHHHHHhccCc--chHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            999999775433  345567788899999999999999999863

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

Probab=98.69  E-value=2.3e-08  Score=44.88  Aligned_cols=29  Identities=28%  Similarity=0.676  Sum_probs=17.8

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHhHhcC
Q 039637           32 LLNSMLCAYCRTGDMESVMHVMRKLDELA   60 (159)
Q Consensus        32 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~   60 (159)
                      +||++|++|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            46666666666666666666666666554

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.

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

Probab=98.68  E-value=2.9e-07  Score=65.80  Aligned_cols=111  Identities=13%  Similarity=0.160  Sum_probs=91.7

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccCh
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKY--DKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKM   80 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~   80 (159)
                      +.+.+.-+++.+..++.++....  ...-..+..++++.|.+.|..++++.+++.=..-|+-||..|++.|++.+.+.|+
T Consensus        74 n~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n~Lmd~fl~~~~  153 (429)
T PF10037_consen   74 NNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFNLLMDHFLKKGN  153 (429)
T ss_pred             hhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHHHHHHHHhhccc
Confidence            44455567888999988887652  2223445679999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHcc
Q 039637           81 YMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKM  113 (159)
Q Consensus        81 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~  113 (159)
                      +..|.++...|...+...++.|+...+.+|.+.
T Consensus       154 ~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  154 YKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            999999999988777767777777666666665

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 [].

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

Probab=98.67  E-value=1.6e-06  Score=52.68  Aligned_cols=98  Identities=10%  Similarity=-0.008  Sum_probs=81.6

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYM   82 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   82 (159)
                      ..+.+.|++++|.+.|+...+.++. +...|..+...+.+.|++++|...+++....+ ..+...+..+-.++...|+++
T Consensus        25 ~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~g~~~  102 (135)
T TIGR02552        25 YNLYQQGRYDEALKLFQLLAAYDPY-NSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAECLLALGEPE  102 (135)
T ss_pred             HHHHHcccHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHHcCCHH
Confidence            4677889999999999999887654 88899999999999999999999999987753 335677777888999999999


Q ss_pred             HHHHHHHHHHHcCCCCcHHHHH
Q 039637           83 LAYRTMVDMHRKGHQPEEELCS  104 (159)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~  104 (159)
                      +|...++...+..  |+...+.
T Consensus       103 ~A~~~~~~al~~~--p~~~~~~  122 (135)
T TIGR02552       103 SALKALDLAIEIC--GENPEYS  122 (135)
T ss_pred             HHHHHHHHHHHhc--cccchHH
Confidence            9999999998753  5444433

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

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

Probab=98.66  E-value=1e-05  Score=52.66  Aligned_cols=142  Identities=7%  Similarity=-0.021  Sum_probs=106.7

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYM   82 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   82 (159)
                      -.|...|+++.+....+.+..    |.        ..+...++.+++...+....+.. ..|...|..+...|...|+++
T Consensus        24 ~~Y~~~g~~~~v~~~~~~~~~----~~--------~~~~~~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~   90 (198)
T PRK10370         24 GSYLLSPKWQAVRAEYQRLAD----PL--------HQFASQQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYD   90 (198)
T ss_pred             HHHHHcchHHHHHHHHHHHhC----cc--------ccccCchhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHH
Confidence            367888888887555433321    10        01223667788888888877743 356788899999999999999


Q ss_pred             HHHHHHHHHHHcCCCCcHHHHHHHHHH-HHccCC--HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhhC
Q 039637           83 LAYRTMVDMHRKGHQPEEELCSSLIFH-LGKMRA--HSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVVK  159 (159)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~~li~~-~~~~g~--~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  159 (159)
                      +|...+++..+.. +-+...+..+..+ +...|+  .++|.+++++..... +-+..++..+...+.+.|++++|...++
T Consensus        91 ~A~~a~~~Al~l~-P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~d-P~~~~al~~LA~~~~~~g~~~~Ai~~~~  168 (198)
T PRK10370         91 NALLAYRQALQLR-GENAELYAALATVLYYQAGQHMTPQTREMIDKALALD-ANEVTALMLLASDAFMQADYAQAIELWQ  168 (198)
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHcCCHHHHHHHHH
Confidence            9999999999865 3467788777776 467777  599999999998754 3367788999999999999999998763

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

Probab=98.65  E-value=1.1e-05  Score=57.82  Aligned_cols=119  Identities=13%  Similarity=0.019  Sum_probs=98.1

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCCh-hhHHHHHHHHHccChHHH
Q 039637            5 FCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDY-NTFHILIKYFCKEKMYML   83 (159)
Q Consensus         5 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~-~~~~~ll~~~~~~~~~~~   83 (159)
                      +...|+.++|+..++.+.+.-+. |++.+....+.+.+.++.++|.+.+++++.  ..|+. ...-.+-.++.+.|++.+
T Consensus       316 ~~~~~~~d~A~~~l~~L~~~~P~-N~~~~~~~~~i~~~~nk~~~A~e~~~kal~--l~P~~~~l~~~~a~all~~g~~~e  392 (484)
T COG4783         316 TYLAGQYDEALKLLQPLIAAQPD-NPYYLELAGDILLEANKAKEAIERLKKALA--LDPNSPLLQLNLAQALLKGGKPQE  392 (484)
T ss_pred             HHHhcccchHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHh--cCCCccHHHHHHHHHHHhcCChHH
Confidence            45678999999999998876554 888888999999999999999999999988  46774 444567788999999999


Q ss_pred             HHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHH
Q 039637           84 AYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLR  127 (159)
Q Consensus        84 a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~  127 (159)
                      |..+++...... +-|+..|..|..+|...|+..++..-..+..
T Consensus       393 ai~~L~~~~~~~-p~dp~~w~~LAqay~~~g~~~~a~~A~AE~~  435 (484)
T COG4783         393 AIRILNRYLFND-PEDPNGWDLLAQAYAELGNRAEALLARAEGY  435 (484)
T ss_pred             HHHHHHHHhhcC-CCCchHHHHHHHHHHHhCchHHHHHHHHHHH
Confidence            999999888763 5688899999999999998887776655544

>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=98.65  E-value=2.3e-06  Score=60.92  Aligned_cols=120  Identities=12%  Similarity=0.112  Sum_probs=96.7

Q ss_pred             hhHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChH
Q 039637            2 ISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMY   81 (159)
Q Consensus         2 l~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~   81 (159)
                      ++.+...++++.|.++|+++.+..  |+  ....++..+...++..+|.+++++..+.. +-+......-...+.+.+++
T Consensus       176 l~~l~~t~~~~~ai~lle~L~~~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fLl~k~~~  250 (395)
T PF09295_consen  176 LKYLSLTQRYDEAIELLEKLRERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFLLSKKKY  250 (395)
T ss_pred             HHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCH
Confidence            556677799999999999999765  34  34457888888889999999999988642 23455555566678899999


Q ss_pred             HHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHH
Q 039637           82 MLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLR  127 (159)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~  127 (159)
                      +.|+.+.++..+.. +.+..+|..|..+|.+.|+++.|...++.+.
T Consensus       251 ~lAL~iAk~av~ls-P~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  251 ELALEIAKKAVELS-PSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             HHHHHHHHHHHHhC-chhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            99999999999853 2355699999999999999999999998776

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

>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=98.61  E-value=1.6e-06  Score=59.61  Aligned_cols=118  Identities=9%  Similarity=0.069  Sum_probs=51.6

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHc----cChHHHHHHHHHHHHHcCCCCcHHHHH
Q 039637           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCK----EKMYMLAYRTMVDMHRKGHQPEEELCS  104 (159)
Q Consensus        29 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~m~~~g~~~~~~~~~  104 (159)
                      +.......+..|.+.++++.|.+.++.|.+.  ..| .+...+..++..    ...+.+|..+|+++.+. ..+++.+.+
T Consensus       130 ~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~--~eD-~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~-~~~t~~~ln  205 (290)
T PF04733_consen  130 SLELLALAVQILLKMNRPDLAEKELKNMQQI--DED-SILTQLAEAWVNLATGGEKYQDAFYIFEELSDK-FGSTPKLLN  205 (290)
T ss_dssp             CHHHHHHHHHHHHHTT-HHHHHHHHHHHHCC--SCC-HHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCC-S--SHHHHH
T ss_pred             cccHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCc-HHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhc-cCCCHHHHH
Confidence            3444445555555555555555555555542  222 222223332221    12355555555555433 234555555


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcH
Q 039637          105 SLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLL  151 (159)
Q Consensus       105 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  151 (159)
                      .+..+....|++++|..++++....+ +-+..+...++-+....|+.
T Consensus       206 g~A~~~l~~~~~~eAe~~L~~al~~~-~~~~d~LaNliv~~~~~gk~  251 (290)
T PF04733_consen  206 GLAVCHLQLGHYEEAEELLEEALEKD-PNDPDTLANLIVCSLHLGKP  251 (290)
T ss_dssp             HHHHHHHHCT-HHHHHHHHHHHCCC--CCHHHHHHHHHHHHHHTT-T
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHhc-cCCHHHHHHHHHHHHHhCCC
Confidence            55555555555555555555544322 22333444444444444433

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.

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=98.61  E-value=8.6e-06  Score=59.73  Aligned_cols=156  Identities=12%  Similarity=0.083  Sum_probs=116.0

Q ss_pred             hHHHhcCCHHHHHHHHHHHH---hC--CCC-CCH-HHHHHHHHHHHhcCChHHHHHHHHHhHhc---CCCCC----hhhH
Q 039637            3 SAFCRSGCFEETKQLAGDFE---AK--YDK-YDV-VLLNSMLCAYCRTGDMESVMHVMRKLDEL---AISPD----YNTF   68 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~---~~--~~~-~~~-~~~~~ll~~~~~~~~~~~a~~~~~~m~~~---~~~~~----~~~~   68 (159)
                      .+|++.|++++|...+++..   +.  +.. |.+ ..++.+...++..+++++|..++.+..+.   -..++    ..++
T Consensus       291 ~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~  370 (508)
T KOG1840|consen  291 VLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKIY  370 (508)
T ss_pred             HHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccchHHHHHH
Confidence            46899999999999888643   11  222 232 35677888899999999999998876653   11122    3678


Q ss_pred             HHHHHHHHccChHHHHHHHHHHHHHc-----C-CCC-cHHHHHHHHHHHHccCCHHHHHHHHHHHHh----CC-CCC-CH
Q 039637           69 HILIKYFCKEKMYMLAYRTMVDMHRK-----G-HQP-EEELCSSLIFHLGKMRAHSEALSVYNMLRY----SK-RSM-CK  135 (159)
Q Consensus        69 ~~ll~~~~~~~~~~~a~~~~~~m~~~-----g-~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~----~~-~~~-~~  135 (159)
                      +.|-..|-..|++++|.+++.+.+..     | ..+ .-..++.+...|.+.++..+|.++|.....    -| ..| ..
T Consensus       371 ~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~  450 (508)
T KOG1840|consen  371 ANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDVT  450 (508)
T ss_pred             HHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCchH
Confidence            89999999999999999999888742     2 122 234667899999999999999998875542    22 223 35


Q ss_pred             HHHHHHHHHHHhcCcHHHHhhhh
Q 039637          136 ALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus       136 ~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      .+|..|...|-+.|+++.|.++.
T Consensus       451 ~~~~nL~~~Y~~~g~~e~a~~~~  473 (508)
T KOG1840|consen  451 YTYLNLAALYRAQGNYEAAEELE  473 (508)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHH
Confidence            68999999999999999998864

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

Probab=98.60  E-value=4.2e-06  Score=60.88  Aligned_cols=140  Identities=11%  Similarity=0.059  Sum_probs=112.6

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhc--CC---C-CChhhHHHHHHHHHc
Q 039637            4 AFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDEL--AI---S-PDYNTFHILIKYFCK   77 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~--~~---~-~~~~~~~~ll~~~~~   77 (159)
                      -|.+.++.+.|.++|.....-.|. |+.+.+-+.-.....+.+.+|...|+..++.  .+   + ....+++.|-.+|.+
T Consensus       389 ey~~t~n~kLAe~Ff~~A~ai~P~-Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rk  467 (611)
T KOG1173|consen  389 EYMRTNNLKLAEKFFKQALAIAPS-DPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRK  467 (611)
T ss_pred             HHHHhccHHHHHHHHHHHHhcCCC-cchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHH
Confidence            367789999999999877765444 7888998888888899999999999887732  11   1 134567888899999


Q ss_pred             cChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 039637           78 EKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILIS  147 (159)
Q Consensus        78 ~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  147 (159)
                      .+.+++|+..+++.+... +-+..++.++.-.|...|+++.|...|.+..  ...|+..+-..++..++.
T Consensus       468 l~~~~eAI~~~q~aL~l~-~k~~~~~asig~iy~llgnld~Aid~fhKaL--~l~p~n~~~~~lL~~aie  534 (611)
T KOG1173|consen  468 LNKYEEAIDYYQKALLLS-PKDASTHASIGYIYHLLGNLDKAIDHFHKAL--ALKPDNIFISELLKLAIE  534 (611)
T ss_pred             HhhHHHHHHHHHHHHHcC-CCchhHHHHHHHHHHHhcChHHHHHHHHHHH--hcCCccHHHHHHHHHHHH
Confidence            999999999999998763 4588899999999999999999999999887  456776666666665544

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

Probab=98.58  E-value=1.2e-07  Score=42.38  Aligned_cols=29  Identities=28%  Similarity=0.528  Sum_probs=16.9

Q ss_pred             hHHHHHHHHHccChHHHHHHHHHHHHHcC
Q 039637           67 TFHILIKYFCKEKMYMLAYRTMVDMHRKG   95 (159)
Q Consensus        67 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~g   95 (159)
                      ||+.++++|++.|++++|.+++++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            45555566666666666666655555544

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.

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

Probab=98.57  E-value=1.4e-06  Score=66.72  Aligned_cols=130  Identities=15%  Similarity=0.083  Sum_probs=107.6

Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHH
Q 039637            8 SGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRT   87 (159)
Q Consensus         8 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~   87 (159)
                      .+..++|++.|.......|. |.+.-|-+...++..|++.+|.++|.+..+... -...+|-.+..+|..+|++..|.+.
T Consensus       625 kk~~~KAlq~y~kvL~~dpk-N~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~-~~~dv~lNlah~~~e~~qy~~AIqm  702 (1018)
T KOG2002|consen  625 KKHQEKALQLYGKVLRNDPK-NMYAANGIGIVLAEKGRFSEARDIFSQVREATS-DFEDVWLNLAHCYVEQGQYRLAIQM  702 (1018)
T ss_pred             HHHHHHHHHHHHHHHhcCcc-hhhhccchhhhhhhccCchHHHHHHHHHHHHHh-hCCceeeeHHHHHHHHHHHHHHHHH
Confidence            46788999999999887776 999999999999999999999999999998753 4567888999999999999999999


Q ss_pred             HHHHHHc-CCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHH
Q 039637           88 MVDMHRK-GHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHE  139 (159)
Q Consensus        88 ~~~m~~~-g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  139 (159)
                      |+...+. .-.-++.+.+.|.+++.+.|++.+|...........+.-+...||
T Consensus       703 Ye~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~p~~~~v~FN  755 (1018)
T KOG2002|consen  703 YENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHLAPSNTSVKFN  755 (1018)
T ss_pred             HHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCccchHHhH
Confidence            9888765 334577889999999999999999999887666433332333344

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

Probab=98.57  E-value=9.9e-07  Score=60.48  Aligned_cols=123  Identities=12%  Similarity=0.077  Sum_probs=79.1

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYM   82 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   82 (159)
                      +.|-+-.+++.|+.+|.+-.+.- +-|+.-..-+.+.+-..++.++|.++|+...+.. ..++.....+...|.-.++++
T Consensus       264 kvY~ridQP~~AL~~~~~gld~f-P~~VT~l~g~ARi~eam~~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE  341 (478)
T KOG1129|consen  264 KVYQRIDQPERALLVIGEGLDSF-PFDVTYLLGQARIHEAMEQQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPE  341 (478)
T ss_pred             HHHHHhccHHHHHHHHhhhhhcC-CchhhhhhhhHHHHHHHHhHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChH
Confidence            46677777777877777666542 2244445566666777777777777777766642 234555566666666677777


Q ss_pred             HHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHh
Q 039637           83 LAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRY  128 (159)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  128 (159)
                      -|+.+++++++.|.. ++..|+.+.-+|.-.+++|.+.--|++..+
T Consensus       342 ~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L~sf~RAls  386 (478)
T KOG1129|consen  342 MALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVLPSFQRALS  386 (478)
T ss_pred             HHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhHHHHHHHHh
Confidence            777777777777753 556666666666666666666655555443

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

Probab=98.57  E-value=1.3e-06  Score=66.50  Aligned_cols=88  Identities=15%  Similarity=0.049  Sum_probs=59.9

Q ss_pred             CChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 039637           63 PDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKIL  142 (159)
Q Consensus        63 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~  142 (159)
                      |+..+|..++.+-...|+.+.|..++.+|.+.|.+.+.+-|..|+-+   .++...+..+++-|...|+.|+..|+.--+
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            46666666777767777777777777777777777666666666544   666677777777777777777777777666


Q ss_pred             HHHHhcCcHHH
Q 039637          143 HILISGKLLKD  153 (159)
Q Consensus       143 ~~~~~~g~~~~  153 (159)
                      ..+.++|....
T Consensus       279 ip~l~N~~t~~  289 (1088)
T KOG4318|consen  279 IPQLSNGQTKY  289 (1088)
T ss_pred             Hhhhcchhhhh
Confidence            66666555433

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

Probab=98.56  E-value=2.8e-07  Score=51.47  Aligned_cols=80  Identities=15%  Similarity=0.250  Sum_probs=41.0

Q ss_pred             cCCHHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC-hhhHHHHHHHHHccChHHHHH
Q 039637            8 SGCFEETKQLAGDFEAKYDK-YDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYMLAY   85 (159)
Q Consensus         8 ~~~~~~A~~~~~~~~~~~~~-~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~   85 (159)
                      .|+++.|+.+|+++.+..+. ++...+-.+..+|.+.|++++|..++++ .+  ..|+ ......+..++.+.|++++|+
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            45666666666666655442 2333444456666666666666666655 22  1122 222333455566666666666


Q ss_pred             HHHHH
Q 039637           86 RTMVD   90 (159)
Q Consensus        86 ~~~~~   90 (159)
                      +++++
T Consensus        79 ~~l~~   83 (84)
T PF12895_consen   79 KALEK   83 (84)
T ss_dssp             HHHHH
T ss_pred             HHHhc
Confidence            66543

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

Probab=98.55  E-value=3.6e-05  Score=58.86  Aligned_cols=147  Identities=14%  Similarity=0.109  Sum_probs=113.7

Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCC-ChhhHHHHHHHHHccChHHHHHH
Q 039637            8 SGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP-DYNTFHILIKYFCKEKMYMLAYR   86 (159)
Q Consensus         8 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~   86 (159)
                      .|+.++|.+++.+.++..+. +...|-.|...|-..|+.+++...+  ++.+.+.| |...|..+-.-..+.|+++.|.-
T Consensus       152 rg~~eeA~~i~~EvIkqdp~-~~~ay~tL~~IyEqrGd~eK~l~~~--llAAHL~p~d~e~W~~ladls~~~~~i~qA~~  228 (895)
T KOG2076|consen  152 RGDLEEAEEILMEVIKQDPR-NPIAYYTLGEIYEQRGDIEKALNFW--LLAAHLNPKDYELWKRLADLSEQLGNINQARY  228 (895)
T ss_pred             hCCHHHHHHHHHHHHHhCcc-chhhHHHHHHHHHHcccHHHHHHHH--HHHHhcCCCChHHHHHHHHHHHhcccHHHHHH
Confidence            49999999999999987665 8899999999999999999998876  44444555 46788888888899999999999


Q ss_pred             HHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHH----HHHHHHHHhcCcHHHHhhhh
Q 039637           87 TMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALH----EKILHILISGKLLKDAYIVV  158 (159)
Q Consensus        87 ~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~----~~l~~~~~~~g~~~~A~~~~  158 (159)
                      +|.+.++.. +++.....--...|-+.|+...|...|.++.....+.|..-.    -.+++.+...++-+.|.+.+
T Consensus       229 cy~rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~l  303 (895)
T KOG2076|consen  229 CYSRAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKAL  303 (895)
T ss_pred             HHHHHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            999999875 456556666778899999999999999988865433333322    23455566666666666544

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

Probab=98.53  E-value=3.6e-05  Score=54.32  Aligned_cols=88  Identities=10%  Similarity=0.084  Sum_probs=51.8

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCC-CCCh--hhHHHHHHHHHccCh
Q 039637            4 AFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAI-SPDY--NTFHILIKYFCKEKM   80 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~-~~~~--~~~~~ll~~~~~~~~   80 (159)
                      .+...|++++|.+.++...+..+. +...+..+..++...|++++|...+.+.....- .|+.  ..|..+...+...|+
T Consensus       123 ~~~~~G~~~~A~~~~~~al~~~p~-~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~  201 (355)
T cd05804         123 GLEEAGQYDRAEEAARRALELNPD-DAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGD  201 (355)
T ss_pred             HHHHcCCHHHHHHHHHHHHhhCCC-CcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCC
Confidence            345566677777777666665443 455666666666667777777766666554321 1121  223345566666677


Q ss_pred             HHHHHHHHHHHH
Q 039637           81 YMLAYRTMVDMH   92 (159)
Q Consensus        81 ~~~a~~~~~~m~   92 (159)
                      +++|..++++..
T Consensus       202 ~~~A~~~~~~~~  213 (355)
T cd05804         202 YEAALAIYDTHI  213 (355)
T ss_pred             HHHHHHHHHHHh
Confidence            777777766654

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.

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.51  E-value=2.1e-05  Score=46.46  Aligned_cols=96  Identities=11%  Similarity=0.105  Sum_probs=64.4

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC----hhhHHHHHHHHHccChHHHHHHHHHHHHHcCCC--CcHHHHHH
Q 039637           32 LLNSMLCAYCRTGDMESVMHVMRKLDELAISPD----YNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQ--PEEELCSS  105 (159)
Q Consensus        32 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~--~~~~~~~~  105 (159)
                      ++-.+...+.+.|++++|.+.|.++.+..  |+    ...+..+..++.+.|+++.|.+.++.+......  .....+..
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~   81 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKY--PKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLK   81 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHH
Confidence            44556666777788888888887777642  32    234555777777778888888888777754211  12445666


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHhC
Q 039637          106 LIFHLGKMRAHSEALSVYNMLRYS  129 (159)
Q Consensus       106 li~~~~~~g~~~~a~~~~~~~~~~  129 (159)
                      +..++.+.|+.++|.+.++.+...
T Consensus        82 ~~~~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        82 LGMSLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHHHHHhCChHHHHHHHHHHHHH
Confidence            777777778888888888877754

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.

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.50  E-value=1.6e-05  Score=53.01  Aligned_cols=124  Identities=14%  Similarity=0.088  Sum_probs=93.2

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCH--HHHHHHHHHHHhc--------CChHHHHHHHHHhHhcCCCCChh-hH---
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDV--VLLNSMLCAYCRT--------GDMESVMHVMRKLDELAISPDYN-TF---   68 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~--~~~~~ll~~~~~~--------~~~~~a~~~~~~m~~~~~~~~~~-~~---   68 (159)
                      ..+.+.|++++|...++.+.+..+....  .++..+..++...        |++++|.+.|++....  .|+.. .+   
T Consensus        78 ~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~  155 (235)
T TIGR03302        78 YAYYKSGDYAEAIAAADRFIRLHPNHPDADYAYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR--YPNSEYAPDAK  155 (235)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH--CCCChhHHHHH
Confidence            4677889999999999999876654222  2455555555554        7889999999999875  34432 21   


Q ss_pred             --------------HHHHHHHHccChHHHHHHHHHHHHHcCC--CCcHHHHHHHHHHHHccCCHHHHHHHHHHHHh
Q 039637           69 --------------HILIKYFCKEKMYMLAYRTMVDMHRKGH--QPEEELCSSLIFHLGKMRAHSEALSVYNMLRY  128 (159)
Q Consensus        69 --------------~~ll~~~~~~~~~~~a~~~~~~m~~~g~--~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  128 (159)
                                    ..+...+.+.|++.+|...+....+...  +.....+..+...+.+.|+.++|..+++.+..
T Consensus       156 ~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~  231 (235)
T TIGR03302       156 KRMDYLRNRLAGKELYVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGA  231 (235)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence                          1344567888999999999999987531  22457888999999999999999999998875

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).

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

Probab=98.50  E-value=2.7e-05  Score=55.90  Aligned_cols=144  Identities=13%  Similarity=0.048  Sum_probs=114.7

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYM   82 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   82 (159)
                      +.|-...+..+|.+++-..... ++-|+.+...|.+.|-+.|+-..|.+.+-.--.- ++-+..|..-|...|....-++
T Consensus       566 niye~led~aqaie~~~q~~sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyry-fp~nie~iewl~ayyidtqf~e  643 (840)
T KOG2003|consen  566 NIYELLEDPAQAIELLMQANSL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRY-FPCNIETIEWLAAYYIDTQFSE  643 (840)
T ss_pred             HHHHHhhCHHHHHHHHHHhccc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhcccc-cCcchHHHHHHHHHHHhhHHHH
Confidence            4455667888888888555433 3348899999999999999999998887554331 3446788888888899888999


Q ss_pred             HHHHHHHHHHHcCCCCcHHHHHHHHHHHH-ccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcH
Q 039637           83 LAYRTMVDMHRKGHQPEEELCSSLIFHLG-KMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLL  151 (159)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~-~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  151 (159)
                      +++.+|+...-  ++|+..-|..++..|. +.|++.+|..++++++. .++.+......+++.+...|.-
T Consensus       644 kai~y~ekaal--iqp~~~kwqlmiasc~rrsgnyqka~d~yk~~hr-kfpedldclkflvri~~dlgl~  710 (840)
T KOG2003|consen  644 KAINYFEKAAL--IQPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHR-KFPEDLDCLKFLVRIAGDLGLK  710 (840)
T ss_pred             HHHHHHHHHHh--cCccHHHHHHHHHHHHHhcccHHHHHHHHHHHHH-hCccchHHHHHHHHHhccccch
Confidence            99999987653  6899999998876655 56999999999999986 7888999999999998887753

>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=98.49  E-value=1.1e-05  Score=44.97  Aligned_cols=94  Identities=18%  Similarity=0.153  Sum_probs=57.2

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHc
Q 039637           33 LNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGK  112 (159)
Q Consensus        33 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~  112 (159)
                      +..+...+...|++++|...+.+..+.. ..+...+..+..++...+++++|.+.+....+.. +.+..++..+...+..
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~   80 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYK   80 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHH
Confidence            4445556666677777777776666532 1223455556666666677777777776666543 2233456666666777


Q ss_pred             cCCHHHHHHHHHHHHh
Q 039637          113 MRAHSEALSVYNMLRY  128 (159)
Q Consensus       113 ~g~~~~a~~~~~~~~~  128 (159)
                      .|+.+.|...++....
T Consensus        81 ~~~~~~a~~~~~~~~~   96 (100)
T cd00189          81 LGKYEEALEAYEKALE   96 (100)
T ss_pred             HHhHHHHHHHHHHHHc
Confidence            7777777777666543

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.49  E-value=1.1e-05  Score=47.60  Aligned_cols=91  Identities=15%  Similarity=0.081  Sum_probs=74.9

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCC--CCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC----hhhHHHHHHHHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDK--YDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD----YNTFHILIKYFC   76 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~--~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~----~~~~~~ll~~~~   76 (159)
                      ..+.+.|++++|.+.|+.+.+..+.  .....+..+..++.+.|++++|...|+......  |+    ...+..+..++.
T Consensus        10 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~~~~~~~   87 (119)
T TIGR02795        10 LLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKY--PKSPKAPDALLKLGMSLQ   87 (119)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHC--CCCCcccHHHHHHHHHHH
Confidence            4577889999999999999876443  124567779999999999999999999998743  33    356777888899


Q ss_pred             ccChHHHHHHHHHHHHHcC
Q 039637           77 KEKMYMLAYRTMVDMHRKG   95 (159)
Q Consensus        77 ~~~~~~~a~~~~~~m~~~g   95 (159)
                      ..|++++|.+.++++.+..
T Consensus        88 ~~~~~~~A~~~~~~~~~~~  106 (119)
T TIGR02795        88 ELGDKEKAKATLQQVIKRY  106 (119)
T ss_pred             HhCChHHHHHHHHHHHHHC
Confidence            9999999999999999874

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.

>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=98.48  E-value=9.1e-06  Score=55.90  Aligned_cols=123  Identities=11%  Similarity=0.088  Sum_probs=91.7

Q ss_pred             hhHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHc
Q 039637            2 ISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCR----TGDMESVMHVMRKLDELAISPDYNTFHILIKYFCK   77 (159)
Q Consensus         2 l~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~   77 (159)
                      +..|++.++++.|.+.++.|.+.+  .| .+...+..++..    ...+.+|.-+|+++.+. ..++..+.+.+..+...
T Consensus       138 Vqi~L~~~R~dlA~k~l~~~~~~~--eD-~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~  213 (290)
T PF04733_consen  138 VQILLKMNRPDLAEKELKNMQQID--ED-SILTQLAEAWVNLATGGEKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQ  213 (290)
T ss_dssp             HHHHHHTT-HHHHHHHHHHHHCCS--CC-HHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcC--Cc-HHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHH
Confidence            578999999999999999998753  23 334444444432    34799999999998764 56788889999999999


Q ss_pred             cChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCH-HHHHHHHHHHHhC
Q 039637           78 EKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAH-SEALSVYNMLRYS  129 (159)
Q Consensus        78 ~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~-~~a~~~~~~~~~~  129 (159)
                      .|++++|.+++.+..... +-++.+...++-+..-.|+. +.+.+.+..++..
T Consensus       214 ~~~~~eAe~~L~~al~~~-~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~  265 (290)
T PF04733_consen  214 LGHYEEAEELLEEALEKD-PNDPDTLANLIVCSLHLGKPTEAAERYLSQLKQS  265 (290)
T ss_dssp             CT-HHHHHHHHHHHCCC--CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHHH
T ss_pred             hCCHHHHHHHHHHHHHhc-cCCHHHHHHHHHHHHHhCCChhHHHHHHHHHHHh
Confidence            999999999999987654 34667777788777777877 7788899888753

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

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

Probab=98.46  E-value=7.9e-06  Score=45.52  Aligned_cols=90  Identities=14%  Similarity=0.128  Sum_probs=74.7

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYM   82 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   82 (159)
                      ..+...|++++|.+.++...+..+. +...+..+...+...+++++|.+.+....... ..+..++..+...+...|+++
T Consensus         8 ~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~   85 (100)
T cd00189           8 NLYYKLGDYDEALEYYEKALELDPD-NADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYKLGKYE   85 (100)
T ss_pred             HHHHHHhcHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHHHHhHH
Confidence            4577889999999999998876544 55788889999999999999999999988753 233467788888999999999


Q ss_pred             HHHHHHHHHHHc
Q 039637           83 LAYRTMVDMHRK   94 (159)
Q Consensus        83 ~a~~~~~~m~~~   94 (159)
                      .|...+....+.
T Consensus        86 ~a~~~~~~~~~~   97 (100)
T cd00189          86 EALEAYEKALEL   97 (100)
T ss_pred             HHHHHHHHHHcc
Confidence            999999887754

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

Probab=98.44  E-value=2.9e-05  Score=59.37  Aligned_cols=143  Identities=10%  Similarity=0.012  Sum_probs=111.8

Q ss_pred             HHHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHH
Q 039637           13 ETKQLAGDFEAKY--DKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVD   90 (159)
Q Consensus        13 ~A~~~~~~~~~~~--~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~   90 (159)
                      ....+...+.+..  +.-++..|.-+.++|...|++++|+.+|..+...-..-+...|-.+..+|...|..++|.+.|+.
T Consensus       395 ~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e~A~e~y~k  474 (895)
T KOG2076|consen  395 LLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEYEEAIEFYEK  474 (895)
T ss_pred             hHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhHHHHHHHHHH
Confidence            3333333455555  44456789999999999999999999999999876556678899999999999999999999999


Q ss_pred             HHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHh--------CCCCCCHHHHHHHHHHHHhcCcHHHHhh
Q 039637           91 MHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRY--------SKRSMCKALHEKILHILISGKLLKDAYI  156 (159)
Q Consensus        91 m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~--------~~~~~~~~~~~~l~~~~~~~g~~~~A~~  156 (159)
                      ++... +.+...--.|-..+-+.|+.|+|..++..+..        ....|...........+...|+.++-..
T Consensus       475 vl~~~-p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l~~~gk~E~fi~  547 (895)
T KOG2076|consen  475 VLILA-PDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDILFQVGKREEFIN  547 (895)
T ss_pred             HHhcC-CCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHHHHhhhHHHHHH
Confidence            99863 34556677888899999999999999988542        2345666666777788888888877443

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

Probab=98.43  E-value=1.9e-05  Score=55.98  Aligned_cols=89  Identities=13%  Similarity=-0.010  Sum_probs=75.5

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCC-ChhhHHHHHHHHHccChHH
Q 039637            4 AFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP-DYNTFHILIKYFCKEKMYM   82 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~~~~~   82 (159)
                      .+...|++++|++.|++..+..+. +...|..+..+|.+.|++++|+..+++..+.  .| +...|..+..+|...|+++
T Consensus        11 ~a~~~~~~~~Ai~~~~~Al~~~P~-~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l--~P~~~~a~~~lg~~~~~lg~~~   87 (356)
T PLN03088         11 EAFVDDDFALAVDLYTQAIDLDPN-NAELYADRAQANIKLGNFTEAVADANKAIEL--DPSLAKAYLRKGTACMKLEEYQ   87 (356)
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHhCCHH
Confidence            456789999999999999887765 7888889999999999999999999999884  45 4567778888899999999


Q ss_pred             HHHHHHHHHHHcC
Q 039637           83 LAYRTMVDMHRKG   95 (159)
Q Consensus        83 ~a~~~~~~m~~~g   95 (159)
                      +|+..|++.++..
T Consensus        88 eA~~~~~~al~l~  100 (356)
T PLN03088         88 TAKAALEKGASLA  100 (356)
T ss_pred             HHHHHHHHHHHhC
Confidence            9999999988753

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

Probab=98.43  E-value=2.4e-05  Score=56.39  Aligned_cols=149  Identities=11%  Similarity=0.032  Sum_probs=121.4

Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCC-ChhhHHHHHHHHHccChHHHH
Q 039637            6 CRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP-DYNTFHILIKYFCKEKMYMLA   84 (159)
Q Consensus         6 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~~~~~~a   84 (159)
                      .-.|+.-.|.+-|+..++..+. ++..|--+...|....+.++-...|++...  +.| |..+|..--....-.+++++|
T Consensus       337 fL~g~~~~a~~d~~~~I~l~~~-~~~lyI~~a~~y~d~~~~~~~~~~F~~A~~--ldp~n~dvYyHRgQm~flL~q~e~A  413 (606)
T KOG0547|consen  337 FLKGDSLGAQEDFDAAIKLDPA-FNSLYIKRAAAYADENQSEKMWKDFNKAED--LDPENPDVYYHRGQMRFLLQQYEEA  413 (606)
T ss_pred             hhcCCchhhhhhHHHHHhcCcc-cchHHHHHHHHHhhhhccHHHHHHHHHHHh--cCCCCCchhHhHHHHHHHHHHHHHH
Confidence            3468888899999998887665 334477788889999999999999998877  444 467787777777788999999


Q ss_pred             HHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhhC
Q 039637           85 YRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVVK  159 (159)
Q Consensus        85 ~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  159 (159)
                      ..-|++..... +-+...|-.+.-+..+.++++++...|++.+. ..|-.+..|+.....+...++++.|.+.|+
T Consensus       414 ~aDF~Kai~L~-pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kk-kFP~~~Evy~~fAeiLtDqqqFd~A~k~YD  486 (606)
T KOG0547|consen  414 IADFQKAISLD-PENAYAYIQLCCALYRQHKIAESMKTFEEAKK-KFPNCPEVYNLFAEILTDQQQFDKAVKQYD  486 (606)
T ss_pred             HHHHHHHhhcC-hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hCCCCchHHHHHHHHHhhHHhHHHHHHHHH
Confidence            99999888753 23566777777777888999999999999886 677778899999999999999999988764

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=98.41  E-value=4.6e-06  Score=54.10  Aligned_cols=89  Identities=19%  Similarity=0.326  Sum_probs=61.5

Q ss_pred             CCCHHHHHHHHHHHHh-----cCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHcc----------------ChHHHHH
Q 039637           27 KYDVVLLNSMLCAYCR-----TGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKE----------------KMYMLAY   85 (159)
Q Consensus        27 ~~~~~~~~~ll~~~~~-----~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~----------------~~~~~a~   85 (159)
                      ..|-.+|..+++.|.+     .|..+-....++.|.+-|+.-|..+|+.||+.+-+.                .+-+-|+
T Consensus        44 ~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~i  123 (228)
T PF06239_consen   44 AKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECAI  123 (228)
T ss_pred             cccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHHH
Confidence            3466666666666654     366666777777777777777777777777776442                1234567


Q ss_pred             HHHHHHHHcCCCCcHHHHHHHHHHHHccCC
Q 039637           86 RTMVDMHRKGHQPEEELCSSLIFHLGKMRA  115 (159)
Q Consensus        86 ~~~~~m~~~g~~~~~~~~~~li~~~~~~g~  115 (159)
                      +++++|...|+.||..++..+++.+++.+.
T Consensus       124 ~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  124 DLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             HHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence            777888877777887788777777777664

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

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=98.40  E-value=1.6e-05  Score=51.70  Aligned_cols=100  Identities=14%  Similarity=0.143  Sum_probs=83.1

Q ss_pred             HHHHHHhHhcCCCCChhhHHHHHHHHHcc-----ChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccC----------
Q 039637           50 MHVMRKLDELAISPDYNTFHILIKYFCKE-----KMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMR----------  114 (159)
Q Consensus        50 ~~~~~~m~~~~~~~~~~~~~~ll~~~~~~-----~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g----------  114 (159)
                      .+.|.+...  -..+..+|..+++.+.+.     |+.+-....+..|.+-|++-|..+|+.|++.+-+..          
T Consensus        34 ~~~f~~~~~--~~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~  111 (228)
T PF06239_consen   34 EELFERAPG--QAKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAE  111 (228)
T ss_pred             HHHHHHHhh--ccccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHH
Confidence            444444322  357889999999988654     788888888999999999999999999999987633          


Q ss_pred             ------CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcH
Q 039637          115 ------AHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLL  151 (159)
Q Consensus       115 ------~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  151 (159)
                            +-+-|++++++|...|+-||..++..+++.+.+.+..
T Consensus       112 F~hyp~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~p  154 (228)
T PF06239_consen  112 FMHYPRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSHP  154 (228)
T ss_pred             hccCcHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccHH
Confidence                  4578999999999999999999999999999988753

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

>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A

Probab=98.38  E-value=2.9e-06  Score=45.25  Aligned_cols=63  Identities=14%  Similarity=0.257  Sum_probs=45.2

Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHH
Q 039637            6 CRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHIL   71 (159)
Q Consensus         6 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l   71 (159)
                      .+.|++++|.+.|+.+.+..+. +...+-.+..+|.+.|++++|.++++++...  .|+...|..+
T Consensus         2 l~~~~~~~A~~~~~~~l~~~p~-~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~--~~~~~~~~~l   64 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQRNPD-NPEARLLLAQCYLKQGQYDEAEELLERLLKQ--DPDNPEYQQL   64 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHHTTT-SHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG--GTTHHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCHHHHHHH
Confidence            4677888888888888776655 7777777888888888888888888887774  4664444443

...

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

Probab=98.38  E-value=6.3e-07  Score=68.17  Aligned_cols=91  Identities=13%  Similarity=0.120  Sum_probs=80.6

Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcC
Q 039637           16 QLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKG   95 (159)
Q Consensus        16 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g   95 (159)
                      .++-.+...|+.|+.++|..+|.-||..|+.+.|- +|.-|.......+...|+.++.+....++.+.+.          
T Consensus        11 nfla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk----------   79 (1088)
T KOG4318|consen   11 NFLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK----------   79 (1088)
T ss_pred             hHHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC----------
Confidence            45667888999999999999999999999999998 9999988888888899999999988888877664          


Q ss_pred             CCCcHHHHHHHHHHHHccCCHHH
Q 039637           96 HQPEEELCSSLIFHLGKMRAHSE  118 (159)
Q Consensus        96 ~~~~~~~~~~li~~~~~~g~~~~  118 (159)
                       .|.+.+|..|..+|.++|++..
T Consensus        80 -ep~aDtyt~Ll~ayr~hGDli~  101 (1088)
T KOG4318|consen   80 -EPLADTYTNLLKAYRIHGDLIL  101 (1088)
T ss_pred             -CCchhHHHHHHHHHHhccchHH
Confidence             6888899999999999998765

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

Probab=98.37  E-value=1.9e-06  Score=48.12  Aligned_cols=81  Identities=19%  Similarity=0.209  Sum_probs=48.2

Q ss_pred             cCChHHHHHHHHHhHhcCCC-CChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHH
Q 039637           43 TGDMESVMHVMRKLDELAIS-PDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALS  121 (159)
Q Consensus        43 ~~~~~~a~~~~~~m~~~~~~-~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~  121 (159)
                      .|+++.|+.+++++.+.... |+...+-.+..++.+.|++++|..+++. .+.+. .+....-.+..++.+.|++++|..
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~-~~~~~~~l~a~~~~~l~~y~eAi~   79 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDP-SNPDIHYLLARCLLKLGKYEEAIK   79 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHH-CHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCC-CCHHHHHHHHHHHHHhCCHHHHHH
Confidence            46777777777777764321 1233344467777777777777777776 22211 123344455677777777777777


Q ss_pred             HHHH
Q 039637          122 VYNM  125 (159)
Q Consensus       122 ~~~~  125 (159)
                      ++++
T Consensus        80 ~l~~   83 (84)
T PF12895_consen   80 ALEK   83 (84)
T ss_dssp             HHHH
T ss_pred             HHhc
Confidence            7764

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=98.33  E-value=0.00019  Score=45.65  Aligned_cols=117  Identities=6%  Similarity=-0.072  Sum_probs=84.4

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC--hhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHH
Q 039637           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD--YNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSL  106 (159)
Q Consensus        29 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~--~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~l  106 (159)
                      ....+..+...+...|++++|...|++..+.+..++  ...+..+...+.+.|++++|...+.+..+.. +-+...+..+
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            345678888889999999999999999987543332  3577888889999999999999999988753 2355666677


Q ss_pred             HHHHHccCC--------------HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCc
Q 039637          107 IFHLGKMRA--------------HSEALSVYNMLRYSKRSMCKALHEKILHILISGKL  150 (159)
Q Consensus       107 i~~~~~~g~--------------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  150 (159)
                      ...+...|+              +++|.++++.....  .|+  .|..++..+...|+
T Consensus       113 g~~~~~~g~~~~a~~~~~~A~~~~~~A~~~~~~a~~~--~p~--~~~~~~~~~~~~~~  166 (172)
T PRK02603        113 AVIYHKRGEKAEEAGDQDEAEALFDKAAEYWKQAIRL--APN--NYIEAQNWLKTTGR  166 (172)
T ss_pred             HHHHHHcCChHhHhhCHHHHHHHHHHHHHHHHHHHhh--Cch--hHHHHHHHHHhcCc
Confidence            777777666              45666666665542  233  35666666666554

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

Probab=98.31  E-value=5.5e-05  Score=51.93  Aligned_cols=124  Identities=10%  Similarity=0.038  Sum_probs=76.2

Q ss_pred             hhHHHhcCCHHHHHHHHHHHHhCCC-CCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccCh
Q 039637            2 ISAFCRSGCFEETKQLAGDFEAKYD-KYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKM   80 (159)
Q Consensus         2 l~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~   80 (159)
                      |+..-+.+..+.|..+|.+..+.+. ...++...++|+- .-.++.+.|..+|+...+. +..+...|..-++.+...++
T Consensus         8 m~~~~r~~g~~~aR~vF~~a~~~~~~~~~vy~~~A~~E~-~~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~l~~~~d   85 (280)
T PF05843_consen    8 MRFMRRTEGIEAARKVFKRARKDKRCTYHVYVAYALMEY-YCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDFLIKLND   85 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHCCCCS-THHHHHHHHHHH-HTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHHHHHTT-
T ss_pred             HHHHHHhCChHHHHHHHHHHHcCCCCCHHHHHHHHHHHH-HhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHhCc
Confidence            3445556667778888877775432 2333333333332 2245566678888777764 44556666777777777778


Q ss_pred             HHHHHHHHHHHHHcCCCCc---HHHHHHHHHHHHccCCHHHHHHHHHHHHh
Q 039637           81 YMLAYRTMVDMHRKGHQPE---EELCSSLIFHLGKMRAHSEALSVYNMLRY  128 (159)
Q Consensus        81 ~~~a~~~~~~m~~~g~~~~---~~~~~~li~~~~~~g~~~~a~~~~~~~~~  128 (159)
                      .+.++.+|++.... +.++   ...|...+..=.+.|+++.+.++.+++..
T Consensus        86 ~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~  135 (280)
T PF05843_consen   86 INNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEE  135 (280)
T ss_dssp             HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            88888888777754 3222   24777777777777888877777777765

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.

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=98.29  E-value=5.6e-05  Score=47.83  Aligned_cols=114  Identities=6%  Similarity=-0.048  Sum_probs=80.2

Q ss_pred             HHHHHHHHHHHH-hCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCC--ChhhHHHHHHHHHccChHHHHHHH
Q 039637           11 FEETKQLAGDFE-AKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP--DYNTFHILIKYFCKEKMYMLAYRT   87 (159)
Q Consensus        11 ~~~A~~~~~~~~-~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~--~~~~~~~ll~~~~~~~~~~~a~~~   87 (159)
                      +..+...+..+. ..+...-...|..+...+...|++++|+..|.+.......|  ...++..+-..+...|++++|+..
T Consensus        15 ~~~~~~~l~~~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~   94 (168)
T CHL00033         15 FTIVADILLRILPTTSGEKEAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEY   94 (168)
T ss_pred             cccchhhhhHhccCCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHH
Confidence            444555555553 22222235677888888889999999999999988653222  235788888999999999999999


Q ss_pred             HHHHHHcCCCCcHHHHHHHHHHHH-------ccCCHHHHHHHHHH
Q 039637           88 MVDMHRKGHQPEEELCSSLIFHLG-------KMRAHSEALSVYNM  125 (159)
Q Consensus        88 ~~~m~~~g~~~~~~~~~~li~~~~-------~~g~~~~a~~~~~~  125 (159)
                      +....... +....++..+...+.       +.|+++.|...+++
T Consensus        95 ~~~Al~~~-~~~~~~~~~la~i~~~~~~~~~~~g~~~~A~~~~~~  138 (168)
T CHL00033         95 YFQALERN-PFLPQALNNMAVICHYRGEQAIEQGDSEIAEAWFDQ  138 (168)
T ss_pred             HHHHHHhC-cCcHHHHHHHHHHHHHhhHHHHHcccHHHHHHHHHH
Confidence            99988753 234455666666666       77887766555543

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

Probab=98.29  E-value=7.9e-05  Score=53.60  Aligned_cols=115  Identities=12%  Similarity=0.061  Sum_probs=94.8

Q ss_pred             HHHHHhcCChHHHHHHHHHhHhcCCCCChh-hHHHHHHHHHccChHHHHHHHHHHHHHcCCCCc-HHHHHHHHHHHHccC
Q 039637           37 LCAYCRTGDMESVMHVMRKLDELAISPDYN-TFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPE-EELCSSLIFHLGKMR  114 (159)
Q Consensus        37 l~~~~~~~~~~~a~~~~~~m~~~~~~~~~~-~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~-~~~~~~li~~~~~~g  114 (159)
                      ...+.+.|++++|+..+..+...  .|+.. -.......+.+.++..+|.+.++.+...  .|+ ....-.+..+|.+.|
T Consensus       313 A~~~~~~~~~d~A~~~l~~L~~~--~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~a~all~~g  388 (484)
T COG4783         313 ALQTYLAGQYDEALKLLQPLIAA--QPDNPYYLELAGDILLEANKAKEAIERLKKALAL--DPNSPLLQLNLAQALLKGG  388 (484)
T ss_pred             HHHHHHhcccchHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCCccHHHHHHHHHHHhcC
Confidence            33456788999999999998874  46554 4456667899999999999999999975  354 566678899999999


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhh
Q 039637          115 AHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYI  156 (159)
Q Consensus       115 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  156 (159)
                      ++.+|.+.++.... ..+-|...|..|.++|...|+..+|..
T Consensus       389 ~~~eai~~L~~~~~-~~p~dp~~w~~LAqay~~~g~~~~a~~  429 (484)
T COG4783         389 KPQEAIRILNRYLF-NDPEDPNGWDLLAQAYAELGNRAEALL  429 (484)
T ss_pred             ChHHHHHHHHHHhh-cCCCCchHHHHHHHHHHHhCchHHHHH
Confidence            99999999998875 556688899999999999999888764

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

Probab=98.28  E-value=6.3e-06  Score=43.56  Aligned_cols=55  Identities=9%  Similarity=0.056  Sum_probs=40.0

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHh
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDE   58 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~   58 (159)
                      ..+.+.|++++|.+.|+...+..+. +...|..+..++.+.|++++|...|++..+
T Consensus         5 ~~~~~~g~~~~A~~~~~~~l~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~   59 (65)
T PF13432_consen    5 RALYQQGDYDEAIAAFEQALKQDPD-NPEAWYLLGRILYQQGRYDEALAYYERALE   59 (65)
T ss_dssp             HHHHHCTHHHHHHHHHHHHHCCSTT-HHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3566777778888888777776644 677777777777777888887777777765

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

Probab=98.28  E-value=0.00019  Score=48.16  Aligned_cols=85  Identities=13%  Similarity=0.122  Sum_probs=42.6

Q ss_pred             HHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHc----cChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCC
Q 039637           40 YCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCK----EKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRA  115 (159)
Q Consensus        40 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~  115 (159)
                      +.+..+.+-|...+++|.+-   -+..|.+.|..++.+    .+....|.-+|++|-++ ..|++.+.+-...++...|+
T Consensus       147 ~lk~~r~d~A~~~lk~mq~i---ded~tLtQLA~awv~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~  222 (299)
T KOG3081|consen  147 LLKMHRFDLAEKELKKMQQI---DEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGR  222 (299)
T ss_pred             HHHHHHHHHHHHHHHHHHcc---chHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcC
Confidence            33444455555555555541   233444444444332    23455555555555542 34555555555555555566


Q ss_pred             HHHHHHHHHHHHh
Q 039637          116 HSEALSVYNMLRY  128 (159)
Q Consensus       116 ~~~a~~~~~~~~~  128 (159)
                      +++|..+++....
T Consensus       223 ~eeAe~lL~eaL~  235 (299)
T KOG3081|consen  223 YEEAESLLEEALD  235 (299)
T ss_pred             HHHHHHHHHHHHh
Confidence            6666665555554

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

Probab=98.26  E-value=0.00028  Score=52.33  Aligned_cols=128  Identities=13%  Similarity=0.019  Sum_probs=102.4

Q ss_pred             CCHH--HHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC-hhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHH
Q 039637           28 YDVV--LLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCS  104 (159)
Q Consensus        28 ~~~~--~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~  104 (159)
                      |+..  ++.-+...|-..|++++|++..++..+.  .|+ +..|..-.+.+-+.|++.+|.+.++....... -|..+-+
T Consensus       190 p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~h--tPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~-~DRyiNs  266 (517)
T PF12569_consen  190 PSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEH--TPTLVELYMTKARILKHAGDLKEAAEAMDEARELDL-ADRYINS  266 (517)
T ss_pred             chHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCCh-hhHHHHH
Confidence            4553  4466678888999999999999998884  577 57777888889999999999999999988753 4777888


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHH--------HHHHHHHHHhcCcHHHHhhhh
Q 039637          105 SLIFHLGKMRAHSEALSVYNMLRYSKRSMCKAL--------HEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus       105 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~--------~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      -.+..+.+.|++++|.+++......+..|....        ......+|.+.|++..|++.|
T Consensus       267 K~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~  328 (517)
T PF12569_consen  267 KCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLALKRF  328 (517)
T ss_pred             HHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHH
Confidence            889999999999999999998876554333322        245568899999999998765

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 [], [].

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

Probab=98.26  E-value=0.0001  Score=49.31  Aligned_cols=133  Identities=14%  Similarity=0.112  Sum_probs=96.9

Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCC
Q 039637           17 LAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGH   96 (159)
Q Consensus        17 ~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~   96 (159)
                      +.+.+..+...-+......-...|+..+++++|++.....      -+......=+..+.+..+.+-|.+.++.|.+-  
T Consensus        95 l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~------~~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~i--  166 (299)
T KOG3081|consen   95 LYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLG------ENLEAAALNVQILLKMHRFDLAEKELKKMQQI--  166 (299)
T ss_pred             HHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhcc------chHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc--
Confidence            3344444334434444555567789999999999988762      23344444455667778889999999999864  


Q ss_pred             CCcHHHHHHHHHHHHc----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhhC
Q 039637           97 QPEEELCSSLIFHLGK----MRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVVK  159 (159)
Q Consensus        97 ~~~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  159 (159)
                       .+-.|.+.|..++.+    .+.+..|.-+|++|.. ..+|++.+.+-..-++...|++++|..+++
T Consensus       167 -ded~tLtQLA~awv~la~ggek~qdAfyifeE~s~-k~~~T~~llnG~Av~~l~~~~~eeAe~lL~  231 (299)
T KOG3081|consen  167 -DEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSE-KTPPTPLLLNGQAVCHLQLGRYEEAESLLE  231 (299)
T ss_pred             -chHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhc-ccCCChHHHccHHHHHHHhcCHHHHHHHHH
Confidence             244566656666554    4679999999999985 678899999999999999999999998763

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

Probab=98.26  E-value=0.00039  Score=51.62  Aligned_cols=139  Identities=13%  Similarity=0.036  Sum_probs=97.4

Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhc----C----------CCCChh--hHHHHHHHHHc
Q 039637           14 TKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDEL----A----------ISPDYN--TFHILIKYFCK   77 (159)
Q Consensus        14 A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~----------~~~~~~--~~~~ll~~~~~   77 (159)
                      +.+.+..+...|++   .+|+.+-..|....+..-..+++......    +          -.|+..  ++.-+...|-.
T Consensus       130 ~~~yl~~~l~KgvP---slF~~lk~Ly~d~~K~~~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~  206 (517)
T PF12569_consen  130 LDEYLRPQLRKGVP---SLFSNLKPLYKDPEKAAIIESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDY  206 (517)
T ss_pred             HHHHHHHHHhcCCc---hHHHHHHHHHcChhHHHHHHHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHH
Confidence            33444444555543   34566666666555555555666555432    1          123332  33455666888


Q ss_pred             cChHHHHHHHHHHHHHcCCCCc-HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhh
Q 039637           78 EKMYMLAYRTMVDMHRKGHQPE-EELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYI  156 (159)
Q Consensus        78 ~~~~~~a~~~~~~m~~~g~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  156 (159)
                      .|++++|++++++.++.  .|+ +..|..-.+.+-..|++++|...++..+.-. .-|..+-+..+..+.++|+.++|.+
T Consensus       207 ~g~~~~Al~~Id~aI~h--tPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD-~~DRyiNsK~aKy~LRa~~~e~A~~  283 (517)
T PF12569_consen  207 LGDYEKALEYIDKAIEH--TPTLVELYMTKARILKHAGDLKEAAEAMDEARELD-LADRYINSKCAKYLLRAGRIEEAEK  283 (517)
T ss_pred             hCCHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCC-hhhHHHHHHHHHHHHHCCCHHHHHH
Confidence            99999999999988875  455 6788888999999999999999999988643 4477777888899999999999988


Q ss_pred             hh
Q 039637          157 VV  158 (159)
Q Consensus       157 ~~  158 (159)
                      ++
T Consensus       284 ~~  285 (517)
T PF12569_consen  284 TA  285 (517)
T ss_pred             HH
Confidence            65

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 [], [].

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

Probab=98.25  E-value=0.00016  Score=52.29  Aligned_cols=142  Identities=11%  Similarity=-0.048  Sum_probs=63.3

Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCCh-hhHHHHHHHHHccChHHHHHHH
Q 039637            9 GCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDY-NTFHILIKYFCKEKMYMLAYRT   87 (159)
Q Consensus         9 ~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~-~~~~~ll~~~~~~~~~~~a~~~   87 (159)
                      +++..|..+|++...-. ..+...|-..+..=.++.....|..+|++.+.  +-|.+ ..|---+..-...|+...|.++
T Consensus        87 ~e~~RARSv~ERALdvd-~r~itLWlkYae~Emknk~vNhARNv~dRAvt--~lPRVdqlWyKY~ymEE~LgNi~gaRqi  163 (677)
T KOG1915|consen   87 KEIQRARSVFERALDVD-YRNITLWLKYAEFEMKNKQVNHARNVWDRAVT--ILPRVDQLWYKYIYMEEMLGNIAGARQI  163 (677)
T ss_pred             HHHHHHHHHHHHHHhcc-cccchHHHHHHHHHHhhhhHhHHHHHHHHHHH--hcchHHHHHHHHHHHHHHhcccHHHHHH
Confidence            44556666666655433 23555555555555555555555555555444  12221 1222222222333444444444


Q ss_pred             HHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhh
Q 039637           88 MVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIV  157 (159)
Q Consensus        88 ~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  157 (159)
                      |+.-..  .+|+...|++.|..=.+...++.|..++++..-  +.|+..+|-.....=.++|....|..+
T Consensus       164 ferW~~--w~P~eqaW~sfI~fElRykeieraR~IYerfV~--~HP~v~~wikyarFE~k~g~~~~aR~V  229 (677)
T KOG1915|consen  164 FERWME--WEPDEQAWLSFIKFELRYKEIERARSIYERFVL--VHPKVSNWIKYARFEEKHGNVALARSV  229 (677)
T ss_pred             HHHHHc--CCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhe--ecccHHHHHHHHHHHHhcCcHHHHHHH
Confidence            443332  234444444444444444444444444444431  234444444444444444444444333

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.24  E-value=0.00035  Score=46.58  Aligned_cols=83  Identities=13%  Similarity=0.034  Sum_probs=36.2

Q ss_pred             cCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHH
Q 039637           43 TGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSV  122 (159)
Q Consensus        43 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~  122 (159)
                      .|.+++|+++++.+.+.. +-|..++-.=+...-.+|+..+|++-+....+. +..|...|.-+...|...|++++|...
T Consensus        99 ~~~~~~A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fC  176 (289)
T KOG3060|consen   99 TGNYKEAIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFC  176 (289)
T ss_pred             hhchhhHHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHH
Confidence            344555555555554433 122333333333333334434444444444433 233444555555555555555555555


Q ss_pred             HHHHH
Q 039637          123 YNMLR  127 (159)
Q Consensus       123 ~~~~~  127 (159)
                      ++++.
T Consensus       177 lEE~l  181 (289)
T KOG3060|consen  177 LEELL  181 (289)
T ss_pred             HHHHH
Confidence            54444

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.22  E-value=0.00048  Score=45.95  Aligned_cols=143  Identities=15%  Similarity=0.059  Sum_probs=61.6

Q ss_pred             CCHHHHHHHHHHHHhC---C-CCCCHH-HHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHH-HHHHccChHH
Q 039637            9 GCFEETKQLAGDFEAK---Y-DKYDVV-LLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILI-KYFCKEKMYM   82 (159)
Q Consensus         9 ~~~~~A~~~~~~~~~~---~-~~~~~~-~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll-~~~~~~~~~~   82 (159)
                      .+.++.++++.++...   | ..++.+ .|..++-+....|+...|..+++.+... + |...-...|= --+...|+++
T Consensus        26 rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~-f-p~S~RV~~lkam~lEa~~~~~  103 (289)
T KOG3060|consen   26 RNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDR-F-PGSKRVGKLKAMLLEATGNYK  103 (289)
T ss_pred             cCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHh-C-CCChhHHHHHHHHHHHhhchh
Confidence            4445555555544321   2 222322 3334444444455555555555554443 1 2211111000 0122334555


Q ss_pred             HHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHh
Q 039637           83 LAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAY  155 (159)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  155 (159)
                      +|+++++.+++.. +.|..++..=+...-..|+.-+|++-+++..+ .+..|...|.-+...|...|+++.|.
T Consensus       104 ~A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~-~F~~D~EAW~eLaeiY~~~~~f~kA~  174 (289)
T KOG3060|consen  104 EAIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLD-KFMNDQEAWHELAEIYLSEGDFEKAA  174 (289)
T ss_pred             hHHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHH-HhcCcHHHHHHHHHHHHhHhHHHHHH
Confidence            5555555555443 23444444444444444444455554444443 33445555555555555555555543

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.22  E-value=7e-05  Score=46.45  Aligned_cols=97  Identities=6%  Similarity=-0.108  Sum_probs=75.7

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCCh-hhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHH
Q 039637           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDY-NTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLI  107 (159)
Q Consensus        29 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~-~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li  107 (159)
                      +....-.+..-+...|++++|..+|+-+..  +.|.. .-|-.|--++-..|++.+|++.|........ -|+..+-.+.
T Consensus        34 ~l~~lY~~A~~ly~~G~l~~A~~~f~~L~~--~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~-ddp~~~~~ag  110 (157)
T PRK15363         34 PLNTLYRYAMQLMEVKEFAGAARLFQLLTI--YDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKI-DAPQAPWAAA  110 (157)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCchHHHHHH
Confidence            344555666677889999999999998887  45654 3444677777778999999999998887763 5777888889


Q ss_pred             HHHHccCCHHHHHHHHHHHHh
Q 039637          108 FHLGKMRAHSEALSVYNMLRY  128 (159)
Q Consensus       108 ~~~~~~g~~~~a~~~~~~~~~  128 (159)
                      .++...|+.+.|.+.|+....
T Consensus       111 ~c~L~lG~~~~A~~aF~~Ai~  131 (157)
T PRK15363        111 ECYLACDNVCYAIKALKAVVR  131 (157)
T ss_pred             HHHHHcCCHHHHHHHHHHHHH
Confidence            999999999999999997664

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

Probab=98.22  E-value=0.00021  Score=57.54  Aligned_cols=147  Identities=13%  Similarity=-0.016  Sum_probs=100.1

Q ss_pred             hhHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC---hhhHHHHHHHHHcc
Q 039637            2 ISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD---YNTFHILIKYFCKE   78 (159)
Q Consensus         2 l~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~---~~~~~~ll~~~~~~   78 (159)
                      ...|-+.++.++|-++++.|.+.= .....+|...++.+.+.++-++|.+++.+..+.  .|.   .....-....-.+.
T Consensus      1537 ~~iy~k~ek~~~A~ell~~m~KKF-~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~--lPk~eHv~~IskfAqLEFk~ 1613 (1710)
T KOG1070|consen 1537 LGIYEKSEKNDEADELLRLMLKKF-GQTRKVWIMYADFLLRQNEAEAARELLKRALKS--LPKQEHVEFISKFAQLEFKY 1613 (1710)
T ss_pred             HHHHHHhhcchhHHHHHHHHHHHh-cchhhHHHHHHHHHhcccHHHHHHHHHHHHHhh--cchhhhHHHHHHHHHHHhhc
Confidence            345667778888888888887542 236677888888888888888888888777763  344   23334444555677


Q ss_pred             ChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCH--HHHHHHHHHHHhcCcHH
Q 039637           79 KMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCK--ALHEKILHILISGKLLK  152 (159)
Q Consensus        79 ~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~g~~~  152 (159)
                      |+.+.++.+|+..+..- +--...|+.+|+.-.++|+.+.+..+|++....+.+|-.  ..|...+..=-+.|+-+
T Consensus      1614 GDaeRGRtlfEgll~ay-PKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde~ 1688 (1710)
T KOG1070|consen 1614 GDAERGRTLFEGLLSAY-PKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDEK 1688 (1710)
T ss_pred             CCchhhHHHHHHHHhhC-ccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCchh
Confidence            88888888888777652 335568888888888888888888888888876665542  34444444444444433

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

Probab=98.18  E-value=0.00014  Score=51.66  Aligned_cols=90  Identities=8%  Similarity=-0.104  Sum_probs=77.1

Q ss_pred             HHHHHhcCChHHHHHHHHHhHhcCCCC-ChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCC
Q 039637           37 LCAYCRTGDMESVMHVMRKLDELAISP-DYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRA  115 (159)
Q Consensus        37 l~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~  115 (159)
                      ...+...|++++|+++|.+..+.  .| +...|..+..++.+.|++++|+..+++.++.. +.+...|..+..+|...|+
T Consensus         9 a~~a~~~~~~~~Ai~~~~~Al~~--~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~   85 (356)
T PLN03088          9 AKEAFVDDDFALAVDLYTQAIDL--DPNNAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEE   85 (356)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCC
Confidence            45667889999999999999984  34 46777788889999999999999999999864 3467788899999999999


Q ss_pred             HHHHHHHHHHHHhC
Q 039637          116 HSEALSVYNMLRYS  129 (159)
Q Consensus       116 ~~~a~~~~~~~~~~  129 (159)
                      +++|...|++....
T Consensus        86 ~~eA~~~~~~al~l   99 (356)
T PLN03088         86 YQTAKAALEKGASL   99 (356)
T ss_pred             HHHHHHHHHHHHHh
Confidence            99999999988864

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

Probab=98.17  E-value=9.1e-05  Score=50.86  Aligned_cols=125  Identities=13%  Similarity=0.076  Sum_probs=94.7

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHH-HHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHH
Q 039637           31 VLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKY-FCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFH  109 (159)
Q Consensus        31 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~-~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~  109 (159)
                      .+|..+|+..-+.+..+.|..+|.+..+.+ ..+...|...... +...++.+.|.++|+...+. ...+...|...+..
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~   79 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHH
Confidence            579999999999999999999999998643 2234444433333 33357788899999999876 45677889999999


Q ss_pred             HHccCCHHHHHHHHHHHHhCCCCCC---HHHHHHHHHHHHhcCcHHHHhhhh
Q 039637          110 LGKMRAHSEALSVYNMLRYSKRSMC---KALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus       110 ~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      +.+.++.+.|..+|++.... .++.   ..+|...+..=.+.|+++....+.
T Consensus        80 l~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~  130 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVE  130 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            99999999999999999864 3322   358999999999999998877664

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.

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=98.15  E-value=0.00074  Score=45.46  Aligned_cols=152  Identities=11%  Similarity=0.079  Sum_probs=103.0

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHH---HHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHc---
Q 039637            4 AFCRSGCFEETKQLAGDFEAKYDKYDVVLL---NSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCK---   77 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~---~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~---   77 (159)
                      .+.+.|++++|.+.|+.+....+.. ...-   -.+..++.+.+++++|...+++..+..-.-...-|...+.+.+.   
T Consensus        41 ~~~~~g~y~~Ai~~f~~l~~~yP~s-~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y~~g~~~~~~  119 (243)
T PRK10866         41 QKLQDGNWKQAITQLEALDNRYPFG-PYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLYMRGLTNMAL  119 (243)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCCCC-hHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHHHHHHhhhhc
Confidence            3567899999999999999876653 3333   35567888999999999999999885321122334444444331   


Q ss_pred             --------------cCh---HHHHHHHHHHHHHcCCCCcH------HH------------HHHHHHHHHccCCHHHHHHH
Q 039637           78 --------------EKM---YMLAYRTMVDMHRKGHQPEE------EL------------CSSLIFHLGKMRAHSEALSV  122 (159)
Q Consensus        78 --------------~~~---~~~a~~~~~~m~~~g~~~~~------~~------------~~~li~~~~~~g~~~~a~~~  122 (159)
                                    .+|   ..+|...|+.+++.  -|++      ..            --.+.+.|.+.|.+..|..-
T Consensus       120 ~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~--yP~S~ya~~A~~rl~~l~~~la~~e~~ia~~Y~~~~~y~AA~~r  197 (243)
T PRK10866        120 DDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRG--YPNSQYTTDATKRLVFLKDRLAKYELSVAEYYTKRGAYVAVVNR  197 (243)
T ss_pred             chhhhhhccCCCccccCHHHHHHHHHHHHHHHHH--CcCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCchHHHHHH
Confidence                          112   23566777777764  2331      00            01344668889999999999


Q ss_pred             HHHHHhC--CCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637          123 YNMLRYS--KRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus       123 ~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      ++.+...  +.+........++.+|.+.|..++|..+.
T Consensus       198 ~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~  235 (243)
T PRK10866        198 VEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVA  235 (243)
T ss_pred             HHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHH
Confidence            9988853  34445667778889999999999997653

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

Probab=98.14  E-value=0.00075  Score=50.79  Aligned_cols=124  Identities=10%  Similarity=-0.052  Sum_probs=54.0

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHH
Q 039637           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIF  108 (159)
Q Consensus        29 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~  108 (159)
                      ....|-.....+...|+...|..++.+..+..- -+...|-.-++.-.....++.|..+|.+...  ..|+..+|.--+.
T Consensus       583 ae~lwlM~ake~w~agdv~~ar~il~~af~~~p-nseeiwlaavKle~en~e~eraR~llakar~--~sgTeRv~mKs~~  659 (913)
T KOG0495|consen  583 AEILWLMYAKEKWKAGDVPAARVILDQAFEANP-NSEEIWLAAVKLEFENDELERARDLLAKARS--ISGTERVWMKSAN  659 (913)
T ss_pred             chhHHHHHHHHHHhcCCcHHHHHHHHHHHHhCC-CcHHHHHHHHHHhhccccHHHHHHHHHHHhc--cCCcchhhHHHhH
Confidence            333444444444444444444444444444221 1234444444444444455555555544443  2234444444444


Q ss_pred             HHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhh
Q 039637          109 HLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYI  156 (159)
Q Consensus       109 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  156 (159)
                      .---.++.++|.+++++..+ .++.-...|..+-+.+-..++++.|.+
T Consensus       660 ~er~ld~~eeA~rllEe~lk-~fp~f~Kl~lmlGQi~e~~~~ie~aR~  706 (913)
T KOG0495|consen  660 LERYLDNVEEALRLLEEALK-SFPDFHKLWLMLGQIEEQMENIEMARE  706 (913)
T ss_pred             HHHHhhhHHHHHHHHHHHHH-hCCchHHHHHHHhHHHHHHHHHHHHHH
Confidence            44444455555555544443 222233344444444444444444443

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

Probab=98.13  E-value=0.00065  Score=50.02  Aligned_cols=151  Identities=10%  Similarity=0.090  Sum_probs=96.7

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC-hhhHHHHHHHHHccChHH
Q 039637            4 AFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYM   82 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~~   82 (159)
                      .+.+.|++.+|.-.|+..++.+|. +...|--|-..-..+++-..|+..+.+..+  +.|+ ....-.|.-.|...|.-.
T Consensus       294 ~lm~nG~L~~A~LafEAAVkqdP~-haeAW~~LG~~qaENE~E~~ai~AL~rcl~--LdP~NleaLmaLAVSytNeg~q~  370 (579)
T KOG1125|consen  294 NLMKNGDLSEAALAFEAAVKQDPQ-HAEAWQKLGITQAENENEQNAISALRRCLE--LDPTNLEALMALAVSYTNEGLQN  370 (579)
T ss_pred             HHHhcCCchHHHHHHHHHHhhChH-HHHHHHHhhhHhhhccchHHHHHHHHHHHh--cCCccHHHHHHHHHHHhhhhhHH
Confidence            457888899999999988887765 777888888887777777777777777766  4453 333333334443333333


Q ss_pred             HHHHHHHHH-----------------------------------------H-HcCCCCcHHHHHHHHHHHHccCCHHHHH
Q 039637           83 LAYRTMVDM-----------------------------------------H-RKGHQPEEELCSSLIFHLGKMRAHSEAL  120 (159)
Q Consensus        83 ~a~~~~~~m-----------------------------------------~-~~g~~~~~~~~~~li~~~~~~g~~~~a~  120 (159)
                      .|.+.+..-                                         . ..+..+|+.+...|--.|.-.|.+++|.
T Consensus       371 ~Al~~L~~Wi~~~p~y~~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdrai  450 (579)
T KOG1125|consen  371 QALKMLDKWIRNKPKYVHLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAV  450 (579)
T ss_pred             HHHHHHHHHHHhCccchhccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHH
Confidence            333333222                                         1 2222355666777777777777778888


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637          121 SVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus       121 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      ..|+.... .-|-|..+||.|-..+....+-++|...|
T Consensus       451 Dcf~~AL~-v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY  487 (579)
T KOG1125|consen  451 DCFEAALQ-VKPNDYLLWNRLGATLANGNRSEEAISAY  487 (579)
T ss_pred             HHHHHHHh-cCCchHHHHHHhhHHhcCCcccHHHHHHH
Confidence            87777664 23345567777777777777777776544

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.13  E-value=0.00017  Score=49.32  Aligned_cols=151  Identities=14%  Similarity=0.116  Sum_probs=102.3

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCC-------------Ch------
Q 039637            5 FCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP-------------DY------   65 (159)
Q Consensus         5 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-------------~~------   65 (159)
                      ..+.|+.+.|++-|+...+-+--.+...||..+..| +.++++.|+++..+..+.|++.             |.      
T Consensus       154 lykegqyEaAvqkFqaAlqvsGyqpllAYniALaHy-~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt  232 (459)
T KOG4340|consen  154 LYKEGQYEAAVQKFQAALQVSGYQPLLAYNLALAHY-SSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNT  232 (459)
T ss_pred             eeccccHHHHHHHHHHHHhhcCCCchhHHHHHHHHH-hhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccch
Confidence            357899999999999877654333677888777654 6678999999999999887542             11      


Q ss_pred             hh--HHHHHHH-------HHccChHHHHHHHHHHHH-HcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCH
Q 039637           66 NT--FHILIKY-------FCKEKMYMLAYRTMVDMH-RKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCK  135 (159)
Q Consensus        66 ~~--~~~ll~~-------~~~~~~~~~a~~~~~~m~-~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~  135 (159)
                      .+  -+.++.+       +.+.|+++.|.+.+-.|- +.....|+.|...+.-. ...+++-+..+-+.-+.... |...
T Consensus       233 ~~lh~Sal~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~-n~~~~p~~g~~KLqFLL~~n-PfP~  310 (459)
T KOG4340|consen  233 LVLHQSALVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALM-NMDARPTEGFEKLQFLLQQN-PFPP  310 (459)
T ss_pred             HHHHHHHHHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHh-cccCCccccHHHHHHHHhcC-CCCh
Confidence            11  1233333       456788888888777775 33345677777655422 22344444444455444433 3566


Q ss_pred             HHHHHHHHHHHhcCcHHHHhhhh
Q 039637          136 ALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus       136 ~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      .||..++-.|||+.-++.|-+++
T Consensus       311 ETFANlLllyCKNeyf~lAADvL  333 (459)
T KOG4340|consen  311 ETFANLLLLYCKNEYFDLAADVL  333 (459)
T ss_pred             HHHHHHHHHHhhhHHHhHHHHHH
Confidence            79999999999999999988775

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

Probab=98.12  E-value=0.00061  Score=51.25  Aligned_cols=149  Identities=11%  Similarity=0.017  Sum_probs=93.6

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHH
Q 039637            5 FCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLA   84 (159)
Q Consensus         5 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   84 (159)
                      +-..|++..|..++....+..+. +...|-.-+..-.++..++.|..+|.+...  ..|+...|.-=++.---.+..++|
T Consensus       594 ~w~agdv~~ar~il~~af~~~pn-seeiwlaavKle~en~e~eraR~llakar~--~sgTeRv~mKs~~~er~ld~~eeA  670 (913)
T KOG0495|consen  594 KWKAGDVPAARVILDQAFEANPN-SEEIWLAAVKLEFENDELERARDLLAKARS--ISGTERVWMKSANLERYLDNVEEA  670 (913)
T ss_pred             HHhcCCcHHHHHHHHHHHHhCCC-cHHHHHHHHHHhhccccHHHHHHHHHHHhc--cCCcchhhHHHhHHHHHhhhHHHH
Confidence            34557777777777777666555 667777777777777777777777776665  345555554333333334555555


Q ss_pred             HHHHHHHHHc------------------------------C--CCC-cHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCC
Q 039637           85 YRTMVDMHRK------------------------------G--HQP-EEELCSSLIFHLGKMRAHSEALSVYNMLRYSKR  131 (159)
Q Consensus        85 ~~~~~~m~~~------------------------------g--~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  131 (159)
                      ++++++.++.                              |  ..| .+..|-.|...=.+.|++-.|..++++....+ 
T Consensus       671 ~rllEe~lk~fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~cP~~ipLWllLakleEk~~~~~rAR~ildrarlkN-  749 (913)
T KOG0495|consen  671 LRLLEEALKSFPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKKCPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKN-  749 (913)
T ss_pred             HHHHHHHHHhCCchHHHHHHHhHHHHHHHHHHHHHHHHHhccccCCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcC-
Confidence            5555444321                              1  223 34455555555566677778888887776543 


Q ss_pred             CCCHHHHHHHHHHHHhcCcHHHHhhh
Q 039637          132 SMCKALHEKILHILISGKLLKDAYIV  157 (159)
Q Consensus       132 ~~~~~~~~~l~~~~~~~g~~~~A~~~  157 (159)
                      |-+...|...|++=.+.|..+.|..+
T Consensus       750 Pk~~~lwle~Ir~ElR~gn~~~a~~l  775 (913)
T KOG0495|consen  750 PKNALLWLESIRMELRAGNKEQAELL  775 (913)
T ss_pred             CCcchhHHHHHHHHHHcCCHHHHHHH
Confidence            33566788888888888888887654

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

Probab=98.12  E-value=0.00014  Score=56.88  Aligned_cols=59  Identities=8%  Similarity=0.062  Sum_probs=34.4

Q ss_pred             hHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHH
Q 039637           67 TFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLR  127 (159)
Q Consensus        67 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~  127 (159)
                      .+..+..+|-+.|+.+++..+++++++.. +-|+.+.|.+...|... ++++|..++.+..
T Consensus       118 Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV  176 (906)
T PRK14720        118 ALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAITYLKKAI  176 (906)
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHHHHHHHH
Confidence            44445555555666666666666666554 33555666666666666 6666666555443

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

Probab=98.12  E-value=0.00035  Score=51.59  Aligned_cols=145  Identities=17%  Similarity=0.197  Sum_probs=98.4

Q ss_pred             hhHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHH--HHHHH--Hc
Q 039637            2 ISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHI--LIKYF--CK   77 (159)
Q Consensus         2 l~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~--ll~~~--~~   77 (159)
                      ++.+.+.+++++|.+..+.+...++. |...+.+-+-+..+.+++++|+.+.+.-..      ..+++.  +=.+|  .+
T Consensus        19 ln~~~~~~e~e~a~k~~~Kil~~~pd-d~~a~~cKvValIq~~ky~~ALk~ikk~~~------~~~~~~~~fEKAYc~Yr   91 (652)
T KOG2376|consen   19 LNRHGKNGEYEEAVKTANKILSIVPD-DEDAIRCKVVALIQLDKYEDALKLIKKNGA------LLVINSFFFEKAYCEYR   91 (652)
T ss_pred             HHHhccchHHHHHHHHHHHHHhcCCC-cHhhHhhhHhhhhhhhHHHHHHHHHHhcch------hhhcchhhHHHHHHHHH
Confidence            45677889999999999999987754 677777788888999999999966544221      112221  23444  46


Q ss_pred             cChHHHHHHHHHHHHHcCCCC-cHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCC------------------------
Q 039637           78 EKMYMLAYRTMVDMHRKGHQP-EEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRS------------------------  132 (159)
Q Consensus        78 ~~~~~~a~~~~~~m~~~g~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~------------------------  132 (159)
                      .+..++|+..+.     |..+ +..+...-...+.+.|++++|..+|+.+..++.+                        
T Consensus        92 lnk~Dealk~~~-----~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~l~~~~~q~  166 (652)
T KOG2376|consen   92 LNKLDEALKTLK-----GLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAALQVQLLQS  166 (652)
T ss_pred             cccHHHHHHHHh-----cccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhhhHHHHHh
Confidence            788888888877     3333 3335666677788889999999999888544321                        


Q ss_pred             ---CCHHHHHHH---HHHHHhcCcHHHHhhhh
Q 039637          133 ---MCKALHEKI---LHILISGKLLKDAYIVV  158 (159)
Q Consensus       133 ---~~~~~~~~l---~~~~~~~g~~~~A~~~~  158 (159)
                         ....+|..+   ...++..|++.+|++++
T Consensus       167 v~~v~e~syel~yN~Ac~~i~~gky~qA~elL  198 (652)
T KOG2376|consen  167 VPEVPEDSYELLYNTACILIENGKYNQAIELL  198 (652)
T ss_pred             ccCCCcchHHHHHHHHHHHHhcccHHHHHHHH
Confidence               011133333   35567788888888876

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=98.12  E-value=5.1e-05  Score=40.93  Aligned_cols=62  Identities=18%  Similarity=0.142  Sum_probs=46.7

Q ss_pred             hhHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChh
Q 039637            2 ISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYN   66 (159)
Q Consensus         2 l~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~   66 (159)
                      -+.|.+.+++++|.++++.+.+.++. ++..|......+.+.|++.+|.+.|++..+.  .|+..
T Consensus         2 ~~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~--~p~~~   63 (73)
T PF13371_consen    2 KQIYLQQEDYEEALEVLERALELDPD-DPELWLQRARCLFQLGRYEEALEDLERALEL--SPDDP   63 (73)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHhCcc-cchhhHHHHHHHHHhccHHHHHHHHHHHHHH--CCCcH
Confidence            45677888888888888888877665 7777777888888888888888888887764  35443

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.09  E-value=0.00027  Score=43.89  Aligned_cols=88  Identities=6%  Similarity=-0.070  Sum_probs=61.4

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHH
Q 039637            5 FCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLA   84 (159)
Q Consensus         5 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   84 (159)
                      +...|++++|..+|+.+....+. +..-|-.|.-++-..|++++|+..|........ -|...+..+-.++...|+.+.|
T Consensus        45 ly~~G~l~~A~~~f~~L~~~Dp~-~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~-ddp~~~~~ag~c~L~lG~~~~A  122 (157)
T PRK15363         45 LMEVKEFAGAARLFQLLTIYDAW-SFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKI-DAPQAPWAAAECYLACDNVCYA  122 (157)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCchHHHHHHHHHHHcCCHHHH
Confidence            45667777777777777766554 666666777777777777777777777776442 3456666677777777777777


Q ss_pred             HHHHHHHHHc
Q 039637           85 YRTMVDMHRK   94 (159)
Q Consensus        85 ~~~~~~m~~~   94 (159)
                      ++.|+.....
T Consensus       123 ~~aF~~Ai~~  132 (157)
T PRK15363        123 IKALKAVVRI  132 (157)
T ss_pred             HHHHHHHHHH
Confidence            7777766653

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

Probab=98.09  E-value=0.00053  Score=55.38  Aligned_cols=120  Identities=13%  Similarity=0.016  Sum_probs=60.3

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCC-CC---CCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccC
Q 039637            4 AFCRSGCFEETKQLAGDFEAKY-DK---YDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEK   79 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~-~~---~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~   79 (159)
                      -..+.++.++|.+++++....- +.   --...|.++++.-..-|.-+...++|++..+  ..-....|..|...|.+.+
T Consensus      1467 f~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcq--ycd~~~V~~~L~~iy~k~e 1544 (1710)
T KOG1070|consen 1467 FHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQ--YCDAYTVHLKLLGIYEKSE 1544 (1710)
T ss_pred             HHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHH--hcchHHHHHHHHHHHHHhh
Confidence            3455566666666666655331 10   0123455555555555555555555555554  2233344555555555555


Q ss_pred             hHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHH
Q 039637           80 MYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNML  126 (159)
Q Consensus        80 ~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  126 (159)
                      .+++|.++++.|.+.= .-....|...+..+.++.+-+.|..++++.
T Consensus      1545 k~~~A~ell~~m~KKF-~q~~~vW~~y~~fLl~~ne~~aa~~lL~rA 1590 (1710)
T KOG1070|consen 1545 KNDEADELLRLMLKKF-GQTRKVWIMYADFLLRQNEAEAARELLKRA 1590 (1710)
T ss_pred             cchhHHHHHHHHHHHh-cchhhHHHHHHHHHhcccHHHHHHHHHHHH
Confidence            5555656655555431 123344555555555555544444444433

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

Probab=98.09  E-value=0.00038  Score=54.10  Aligned_cols=119  Identities=11%  Similarity=0.015  Sum_probs=64.6

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC--hhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHH
Q 039637           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD--YNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSL  106 (159)
Q Consensus        29 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~--~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~l  106 (159)
                      |+.+.+.|.+.|.-.|+++.|.++...+......-.  ...|-.+-++|-..|++++|..+|.+-.+....-....+--+
T Consensus       269 nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~~~l~~~Gl  348 (1018)
T KOG2002|consen  269 NPVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKADNDNFVLPLVGL  348 (1018)
T ss_pred             CcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCCCCccccccch
Confidence            555566666666666666666666666665432111  233555666666667777776666655543211112233345


Q ss_pred             HHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 039637          107 IFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISG  148 (159)
Q Consensus       107 i~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  148 (159)
                      ...|.+.|+++.+...|+.+... .+-+..+...+-..|...
T Consensus       349 gQm~i~~~dle~s~~~fEkv~k~-~p~~~etm~iLG~Lya~~  389 (1018)
T KOG2002|consen  349 GQMYIKRGDLEESKFCFEKVLKQ-LPNNYETMKILGCLYAHS  389 (1018)
T ss_pred             hHHHHHhchHHHHHHHHHHHHHh-CcchHHHHHHHHhHHHhh
Confidence            66666667777777766666642 222334444444444443

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=98.07  E-value=0.001  Score=49.62  Aligned_cols=130  Identities=8%  Similarity=-0.134  Sum_probs=85.7

Q ss_pred             CCCCCHHHHHHHHHHHHhcC-----ChHHHHHHHHHhHhcCCCCCh-hhHHHHHHHHHcc--------ChHHHHHHHHHH
Q 039637           25 YDKYDVVLLNSMLCAYCRTG-----DMESVMHVMRKLDELAISPDY-NTFHILIKYFCKE--------KMYMLAYRTMVD   90 (159)
Q Consensus        25 ~~~~~~~~~~~ll~~~~~~~-----~~~~a~~~~~~m~~~~~~~~~-~~~~~ll~~~~~~--------~~~~~a~~~~~~   90 (159)
                      +.+.|...|...+++.....     +...|.++|++..+  ..|+- ..|..+..++...        .++..+.+...+
T Consensus       332 ~~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~--ldP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~  409 (517)
T PRK10153        332 GLPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILK--SEPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDN  409 (517)
T ss_pred             cCCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH--hCCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHH
Confidence            45568888888888755422     36678889988888  45763 3444433333222        123333444443


Q ss_pred             HHHc-CCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637           91 MHRK-GHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus        91 m~~~-g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      .... ....++.+|.++.-.....|++++|...+++....+  |+...|..+...+...|+.++|.+.+
T Consensus       410 a~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~  476 (517)
T PRK10153        410 IVALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAY  476 (517)
T ss_pred             hhhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            3332 233455677777666667799999999999888654  57778888889999999999888765

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

Probab=98.07  E-value=0.00063  Score=49.38  Aligned_cols=148  Identities=12%  Similarity=0.021  Sum_probs=102.6

Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHH
Q 039637            6 CRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAY   85 (159)
Q Consensus         6 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~   85 (159)
                      .+++++..|..+|++.+..=|. -...|-..+..=-..|+...|.++|.+=.+  ..|+...|.+.++.-.+-+.++.|.
T Consensus       118 mknk~vNhARNv~dRAvt~lPR-VdqlWyKY~ymEE~LgNi~gaRqiferW~~--w~P~eqaW~sfI~fElRykeieraR  194 (677)
T KOG1915|consen  118 MKNKQVNHARNVWDRAVTILPR-VDQLWYKYIYMEEMLGNIAGARQIFERWME--WEPDEQAWLSFIKFELRYKEIERAR  194 (677)
T ss_pred             HhhhhHhHHHHHHHHHHHhcch-HHHHHHHHHHHHHHhcccHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHhhHHHHHH
Confidence            4567777788888777653222 123555555555567888888888877665  5788888888888888888888888


Q ss_pred             HHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhC--CCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637           86 RTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYS--KRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus        86 ~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      .+++..+-  +.|++..|--....=.++|++..|..+|+.....  +...+...+.++...=.+++.++.|..+|
T Consensus       195 ~IYerfV~--~HP~v~~wikyarFE~k~g~~~~aR~VyerAie~~~~d~~~e~lfvaFA~fEe~qkE~ERar~iy  267 (677)
T KOG1915|consen  195 SIYERFVL--VHPKVSNWIKYARFEEKHGNVALARSVYERAIEFLGDDEEAEILFVAFAEFEERQKEYERARFIY  267 (677)
T ss_pred             HHHHHHhe--ecccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            88887774  4588888888888888888888888888866542  22223445556666656666666666554

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

Probab=98.06  E-value=0.0002  Score=48.67  Aligned_cols=99  Identities=14%  Similarity=0.127  Sum_probs=72.5

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC-hhhHHHHHHHHHccChHHH
Q 039637            5 FCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYML   83 (159)
Q Consensus         5 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~~~   83 (159)
                      ..+.+++++|+..|...++..+. |.+-|..-..+|++.|.++.|.+=-+..++  +.|. ..+|..|-.+|...|++.+
T Consensus        91 ~m~~~~Y~eAv~kY~~AI~l~P~-nAVyycNRAAAy~~Lg~~~~AVkDce~Al~--iDp~yskay~RLG~A~~~~gk~~~  167 (304)
T KOG0553|consen   91 LMKNKDYQEAVDKYTEAIELDPT-NAVYYCNRAAAYSKLGEYEDAVKDCESALS--IDPHYSKAYGRLGLAYLALGKYEE  167 (304)
T ss_pred             HHHhhhHHHHHHHHHHHHhcCCC-cchHHHHHHHHHHHhcchHHHHHHHHHHHh--cChHHHHHHHHHHHHHHccCcHHH
Confidence            45678888888888888877665 777788888888888888888777666665  4454 4678888888888888888


Q ss_pred             HHHHHHHHHHcCCCCcHHHHHHHHH
Q 039637           84 AYRTMVDMHRKGHQPEEELCSSLIF  108 (159)
Q Consensus        84 a~~~~~~m~~~g~~~~~~~~~~li~  108 (159)
                      |.+.|...++  +.|+-.+|..=+.
T Consensus       168 A~~aykKaLe--ldP~Ne~~K~nL~  190 (304)
T KOG0553|consen  168 AIEAYKKALE--LDPDNESYKSNLK  190 (304)
T ss_pred             HHHHHHhhhc--cCCCcHHHHHHHH
Confidence            8888877765  4566556644433

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=98.05  E-value=0.00021  Score=45.24  Aligned_cols=86  Identities=9%  Similarity=-0.072  Sum_probs=62.8

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCC--CHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC-hhhHHHHHHHHH---
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKY--DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFC---   76 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~--~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~---   76 (159)
                      ..+...|++++|...|+......+.+  ...+|..+...+...|++++|+..+.+....  .|+ ..++..+...+.   
T Consensus        43 ~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~--~~~~~~~~~~la~i~~~~~  120 (168)
T CHL00033         43 MSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALER--NPFLPQALNNMAVICHYRG  120 (168)
T ss_pred             HHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcCcHHHHHHHHHHHHHhh
Confidence            34567899999999999987654332  2358899999999999999999999998874  343 455666666666   


Q ss_pred             ----ccChHHHHHHHHHH
Q 039637           77 ----KEKMYMLAYRTMVD   90 (159)
Q Consensus        77 ----~~~~~~~a~~~~~~   90 (159)
                          ..|+++.|+..+.+
T Consensus       121 ~~~~~~g~~~~A~~~~~~  138 (168)
T CHL00033        121 EQAIEQGDSEIAEAWFDQ  138 (168)
T ss_pred             HHHHHcccHHHHHHHHHH
Confidence                56666655444443

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=98.04  E-value=0.00062  Score=43.26  Aligned_cols=75  Identities=13%  Similarity=0.168  Sum_probs=59.1

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC-hhhHHHHHHHHHccCh
Q 039637            4 AFCRSGCFEETKQLAGDFEAKYDKYD--VVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKM   80 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~~~~~--~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~   80 (159)
                      .+...|++++|...|++..+..+.++  ...+..+...+.+.|++++|...+.+..+.  .|+ ...+..+..++...|+
T Consensus        44 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~  121 (172)
T PRK02603         44 SAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALEL--NPKQPSALNNIAVIYHKRGE  121 (172)
T ss_pred             HHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcCC
Confidence            56778999999999999887654432  468899999999999999999999998874  353 4556666667777665

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

Probab=98.03  E-value=3.3e-05  Score=47.67  Aligned_cols=73  Identities=18%  Similarity=0.261  Sum_probs=54.1

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHH-----HcCCCCcHHHHH
Q 039637           31 VLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMH-----RKGHQPEEELCS  104 (159)
Q Consensus        31 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~-----~~g~~~~~~~~~  104 (159)
                      .+...++..+...|++++|..+...+.... +.+...|..+|.++...|+...|.++|+++.     +.|+.|++.+-.
T Consensus        63 ~~~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~~  140 (146)
T PF03704_consen   63 DALERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETRA  140 (146)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHHH
T ss_pred             HHHHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHHH
Confidence            466778888889999999999999998853 3467889999999999999999999998875     358888876654

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

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.00  E-value=0.00043  Score=48.50  Aligned_cols=149  Identities=11%  Similarity=0.041  Sum_probs=91.3

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC-------ChHHHHHHHHHhHhcCCCCCh-hhHHHHHHHH
Q 039637            4 AFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTG-------DMESVMHVMRKLDELAISPDY-NTFHILIKYF   75 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~-------~~~~a~~~~~~m~~~~~~~~~-~~~~~ll~~~   75 (159)
                      -|.+.+++.+|..+.+.+.   |. ++.-|-.-.-.+++.|       ..+-|...|.-.-+++..-|+ .--..+.+++
T Consensus       294 YyL~q~dVqeA~~L~Kdl~---Pt-tP~EyilKgvv~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~f  369 (557)
T KOG3785|consen  294 YYLNQNDVQEAISLCKDLD---PT-TPYEYILKGVVFAALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQSMASYF  369 (557)
T ss_pred             eecccccHHHHHHHHhhcC---CC-ChHHHHHHHHHHHHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHHHHHHH
Confidence            4678899999988865553   22 3433332222233333       344566666665555554433 3344566666


Q ss_pred             HccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHH-HHHHHHHhcCcHHHH
Q 039637           76 CKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHE-KILHILISGKLLKDA  154 (159)
Q Consensus        76 ~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~g~~~~A  154 (159)
                      .-..++++++-+++.+...-..-|.+-+ .+..+++..|+..+|+++|-.+....++ +..+|. .+.++|++.+..+.|
T Consensus       370 FL~~qFddVl~YlnSi~sYF~NdD~Fn~-N~AQAk~atgny~eaEelf~~is~~~ik-n~~~Y~s~LArCyi~nkkP~lA  447 (557)
T KOG3785|consen  370 FLSFQFDDVLTYLNSIESYFTNDDDFNL-NLAQAKLATGNYVEAEELFIRISGPEIK-NKILYKSMLARCYIRNKKPQLA  447 (557)
T ss_pred             HHHHHHHHHHHHHHHHHHHhcCcchhhh-HHHHHHHHhcChHHHHHHHhhhcChhhh-hhHHHHHHHHHHHHhcCCchHH
Confidence            6677778888777777765433344444 3677778888888888888776654444 445554 445778888887777


Q ss_pred             hhhh
Q 039637          155 YIVV  158 (159)
Q Consensus       155 ~~~~  158 (159)
                      .+++
T Consensus       448 W~~~  451 (557)
T KOG3785|consen  448 WDMM  451 (557)
T ss_pred             HHHH
Confidence            7664

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

Probab=97.99  E-value=0.00022  Score=52.39  Aligned_cols=143  Identities=11%  Similarity=0.041  Sum_probs=99.7

Q ss_pred             CCHHHHHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC-hhhHHHHHHHHHccChHHHHHH
Q 039637            9 GCFEETKQLAGDFEAK-YDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYMLAYR   86 (159)
Q Consensus         9 ~~~~~A~~~~~~~~~~-~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~   86 (159)
                      ..+....+.|-.+... +.++|+.+...|--.|.-.|+++.|.+.|+..+.  ++|+ ..+||.|-..++...+..+|+.
T Consensus       408 ~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiDcf~~AL~--v~Pnd~~lWNRLGAtLAN~~~s~EAIs  485 (579)
T KOG1125|consen  408 SHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVDCFEAALQ--VKPNDYLLWNRLGATLANGNRSEEAIS  485 (579)
T ss_pred             HHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHHHHHHHHh--cCCchHHHHHHhhHHhcCCcccHHHHH
Confidence            3445566666665544 3347888888888888899999999999998887  5675 5778888888888888899999


Q ss_pred             HHHHHHHcCCCCc-HHHHHHHHHHHHccCCHHHHHHHHHHHH---hC------CCCCCHHHHHHHHHHHHhcCcHHHHh
Q 039637           87 TMVDMHRKGHQPE-EELCSSLIFHLGKMRAHSEALSVYNMLR---YS------KRSMCKALHEKILHILISGKLLKDAY  155 (159)
Q Consensus        87 ~~~~m~~~g~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~---~~------~~~~~~~~~~~l~~~~~~~g~~~~A~  155 (159)
                      .|.+.++.  .|+ +.+.-.|.-.|...|.+++|...|-...   ..      ...++..+|..|=.++...++.|.+.
T Consensus       486 AY~rALqL--qP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~mq~ks~~~~~~~~~se~iw~tLR~als~~~~~D~l~  562 (579)
T KOG1125|consen  486 AYNRALQL--QPGYVRVRYNLGISCMNLGAYKEAVKHLLEALSMQRKSRNHNKAPMASENIWQTLRLALSAMNRSDLLQ  562 (579)
T ss_pred             HHHHHHhc--CCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHHhhhcccccccCCcchHHHHHHHHHHHHHcCCchHHH
Confidence            99988875  454 2333446667888888888887765332   22      12234566666666666666666443

>PLN02789 farnesyltranstransferase

Probab=97.98  E-value=0.0022  Score=44.92  Aligned_cols=141  Identities=9%  Similarity=-0.004  Sum_probs=103.7

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC-ChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChH-
Q 039637            4 AFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTG-DMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMY-   81 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~-~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~-   81 (159)
                      .+...++.++|+...+...+..+. +..+|+..-.++...| +++++++.++++.+..- .+..+|+..-..+.+.++. 
T Consensus        46 ~l~~~e~serAL~lt~~aI~lnP~-~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~np-knyqaW~~R~~~l~~l~~~~  123 (320)
T PLN02789         46 VYASDERSPRALDLTADVIRLNPG-NYTVWHFRRLCLEALDADLEEELDFAEDVAEDNP-KNYQIWHHRRWLAEKLGPDA  123 (320)
T ss_pred             HHHcCCCCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCC-cchHHhHHHHHHHHHcCchh
Confidence            345567889999999998886655 6667877777777777 68999999999988542 3445676555455555553 


Q ss_pred             -HHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 039637           82 -MLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISG  148 (159)
Q Consensus        82 -~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  148 (159)
                       +++..+++.+.+.. +-+..+|+-....+...|++++++..++++.+.+.. +..+|+.....+.+.
T Consensus       124 ~~~el~~~~kal~~d-pkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~-N~sAW~~R~~vl~~~  189 (320)
T PLN02789        124 ANKELEFTRKILSLD-AKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVR-NNSAWNQRYFVITRS  189 (320)
T ss_pred             hHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCC-chhHHHHHHHHHHhc
Confidence             67788888888764 357889998888899999999999999999876544 445565555444443

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

Probab=97.98  E-value=0.0014  Score=48.31  Aligned_cols=145  Identities=12%  Similarity=0.096  Sum_probs=108.2

Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCC-ChhhHHHHHHHHHccChHHHHHHHH
Q 039637           10 CFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP-DYNTFHILIKYFCKEKMYMLAYRTM   88 (159)
Q Consensus        10 ~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~   88 (159)
                      +.+...+.++++...-..--+.+|..+|+.--|..-.+.|..+|.+..+.+..+ .+...++++..+|. ++..-|.++|
T Consensus       346 ~~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~cs-kD~~~AfrIF  424 (656)
T KOG1914|consen  346 KEKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYCS-KDKETAFRIF  424 (656)
T ss_pred             hhhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHhc-CChhHHHHHH
Confidence            345555566655543222234578888888888888999999999999988877 67778888888876 6778888888


Q ss_pred             HHHHHcCCCCcHHHH-HHHHHHHHccCCHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhcCcHHHHhhh
Q 039637           89 VDMHRKGHQPEEELC-SSLIFHLGKMRAHSEALSVYNMLRYSKRSMC--KALHEKILHILISGKLLKDAYIV  157 (159)
Q Consensus        89 ~~m~~~g~~~~~~~~-~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~  157 (159)
                      +-=++.  .+|...| ...++.+...++-..|..+|++....+.+|+  ..+|..++..=..-|++..+.++
T Consensus       425 eLGLkk--f~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~l  494 (656)
T KOG1914|consen  425 ELGLKK--FGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSILKL  494 (656)
T ss_pred             HHHHHh--cCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHHHH
Confidence            765443  2333333 5788888889999999999999987755544  56899999999999998887765

>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=97.97  E-value=0.00067  Score=41.83  Aligned_cols=70  Identities=20%  Similarity=0.125  Sum_probs=52.8

Q ss_pred             hHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHH-----hCCCCCCHHH
Q 039637           67 TFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLR-----YSKRSMCKAL  137 (159)
Q Consensus        67 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~-----~~~~~~~~~~  137 (159)
                      +...++..+...|++++|..+...+.... +.+...|..+|.+|...|+...|.++|+.+.     .-|++|+..+
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~  138 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPET  138 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHH
Confidence            34566677788999999999999999864 4688899999999999999999999998775     2488999876

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

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

Probab=97.91  E-value=0.0016  Score=46.63  Aligned_cols=148  Identities=6%  Similarity=-0.043  Sum_probs=89.9

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHH-HHHHcc-ChHH
Q 039637            5 FCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILI-KYFCKE-KMYM   82 (159)
Q Consensus         5 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll-~~~~~~-~~~~   82 (159)
                      +...|++++|.-.|+..+...|. +..+|.-|+..|...|++.+|.-+-++.... +.-+..+.+.+- ..|.-. .--+
T Consensus       344 L~~~~R~~~A~IaFR~Aq~Lap~-rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rE  421 (564)
T KOG1174|consen  344 LIALERHTQAVIAFRTAQMLAPY-RLEIYRGLFHSYLAQKRFKEANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMRE  421 (564)
T ss_pred             HHhccchHHHHHHHHHHHhcchh-hHHHHHHHHHHHHhhchHHHHHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHH
Confidence            44556667777676666554332 5667777777777777777765555443332 222334444321 122211 2224


Q ss_pred             HHHHHHHHHHHcCCCCc-HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637           83 LAYRTMVDMHRKGHQPE-EELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus        83 ~a~~~~~~m~~~g~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      +|.++++.-++.  .|+ ...-+.+...+...|..+.+..++++...  .-||....+.+-+.+...+.+.+|++-|
T Consensus       422 KAKkf~ek~L~~--~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~--~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y  494 (564)
T KOG1174|consen  422 KAKKFAEKSLKI--NPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLI--IFPDVNLHNHLGDIMRAQNEPQKAMEYY  494 (564)
T ss_pred             HHHHHHHhhhcc--CCccHHHHHHHHHHHHhhCccchHHHHHHHHHh--hccccHHHHHHHHHHHHhhhHHHHHHHH
Confidence            555555554442  343 33456667778888888899988887764  3467778888888888888888887754

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

Probab=97.91  E-value=0.00039  Score=52.52  Aligned_cols=152  Identities=10%  Similarity=-0.007  Sum_probs=94.9

Q ss_pred             hhHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHH----------------------------H
Q 039637            2 ISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHV----------------------------M   53 (159)
Q Consensus         2 l~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~----------------------------~   53 (159)
                      |-.|+..|+..+|.++.....+  -+||+..|..+.+..-...-+++|.++                            |
T Consensus       431 i~CY~~lg~~~kaeei~~q~le--k~~d~~lyc~LGDv~~d~s~yEkawElsn~~sarA~r~~~~~~~~~~~fs~~~~hl  508 (777)
T KOG1128|consen  431 ILCYLLLGQHGKAEEINRQELE--KDPDPRLYCLLGDVLHDPSLYEKAWELSNYISARAQRSLALLILSNKDFSEADKHL  508 (777)
T ss_pred             HHHHHHhcccchHHHHHHHHhc--CCCcchhHHHhhhhccChHHHHHHHHHhhhhhHHHHHhhccccccchhHHHHHHHH
Confidence            4567777888888777766665  245667776666654443334444444                            4


Q ss_pred             HHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCC
Q 039637           54 RKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSM  133 (159)
Q Consensus        54 ~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~  133 (159)
                      +.-.+.. .....+|-.+--+..+.+++..+.+.|..-... -+-+...||.+-.+|.+.++-.+|...+++..+-+ .-
T Consensus       509 e~sl~~n-plq~~~wf~~G~~ALqlek~q~av~aF~rcvtL-~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn-~~  585 (777)
T KOG1128|consen  509 ERSLEIN-PLQLGTWFGLGCAALQLEKEQAAVKAFHRCVTL-EPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN-YQ  585 (777)
T ss_pred             HHHhhcC-ccchhHHHhccHHHHHHhhhHHHHHHHHHHhhc-CCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC-CC
Confidence            3332211 112355555555556667777777777666543 22355678888888888888888888887776655 34


Q ss_pred             CHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637          134 CKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus       134 ~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      +..+|..-+....+.|.+++|.+.+
T Consensus       586 ~w~iWENymlvsvdvge~eda~~A~  610 (777)
T KOG1128|consen  586 HWQIWENYMLVSVDVGEFEDAIKAY  610 (777)
T ss_pred             CCeeeechhhhhhhcccHHHHHHHH
Confidence            5556667777777778887777654

>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=97.88  E-value=0.00066  Score=40.88  Aligned_cols=99  Identities=15%  Similarity=0.167  Sum_probs=56.1

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHH
Q 039637           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIF  108 (159)
Q Consensus        29 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~  108 (159)
                      |..++..+|.++++.|+.+....+.+..-.  +.++...-.         +.         --......|+..+..+++.
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~Wg--I~~~~~~~~---------~~---------~~~~spl~Pt~~lL~AIv~   60 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSVWG--IDVNGKKKE---------GD---------YPPSSPLYPTSRLLIAIVH   60 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHhcC--CCCCCcccc---------Cc---------cCCCCCCCCCHHHHHHHHH
Confidence            345667777777777777777666654332  222110000         00         0012234566777777777


Q ss_pred             HHHccCCHHHHHHHHHHHHh-CCCCCCHHHHHHHHHHHHh
Q 039637          109 HLGKMRAHSEALSVYNMLRY-SKRSMCKALHEKILHILIS  147 (159)
Q Consensus       109 ~~~~~g~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~  147 (159)
                      +|+..|++..|.++.+.... -+++.+..+|..|++....
T Consensus        61 sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~v  100 (126)
T PF12921_consen   61 SFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWAYV  100 (126)
T ss_pred             HHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Confidence            77777777777777776553 3566666677776655443

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

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.88  E-value=0.00095  Score=39.83  Aligned_cols=108  Identities=13%  Similarity=0.008  Sum_probs=78.1

Q ss_pred             HHHHHHhcCChHHHHHHHHHhHhcCCCCC--hhhHHHHHHHHHccChHHHHHHHHHHHHHcCCC--CcHHHHHHHHHHHH
Q 039637           36 MLCAYCRTGDMESVMHVMRKLDELAISPD--YNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQ--PEEELCSSLIFHLG  111 (159)
Q Consensus        36 ll~~~~~~~~~~~a~~~~~~m~~~~~~~~--~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~--~~~~~~~~li~~~~  111 (159)
                      +..++-..|+.++|+.+|.+....|+...  ...+-.+-+.+...|++++|..++++.......  .+......+.-++.
T Consensus         7 ~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L~   86 (120)
T PF12688_consen    7 LAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALALY   86 (120)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHH
Confidence            34566678999999999999999887665  345566778889999999999999988865211  12233334455677


Q ss_pred             ccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 039637          112 KMRAHSEALSVYNMLRYSKRSMCKALHEKILHILIS  147 (159)
Q Consensus       112 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  147 (159)
                      ..|+.++|...+-....    ++..-|..-|..|..
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            88999999998876554    244477777777754

>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=97.85  E-value=0.00016  Score=38.33  Aligned_cols=51  Identities=18%  Similarity=0.008  Sum_probs=30.0

Q ss_pred             ccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHh
Q 039637           77 KEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRY  128 (159)
Q Consensus        77 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  128 (159)
                      ..|++++|+++++++.... +-+....-.+..+|.+.|++++|..+++.+..
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            4566666666666666542 22455555666666666666666666666554

...

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.85  E-value=0.0022  Score=47.82  Aligned_cols=118  Identities=8%  Similarity=-0.093  Sum_probs=84.9

Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC--------ChHHHHHHHHHhHhc-CCCCChhhHHHHHHHHHccC
Q 039637            9 GCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTG--------DMESVMHVMRKLDEL-AISPDYNTFHILIKYFCKEK   79 (159)
Q Consensus         9 ~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~--------~~~~a~~~~~~m~~~-~~~~~~~~~~~ll~~~~~~~   79 (159)
                      ++.++|.++|++..+..|. ....|..+..++....        +...+.+...+.... ....+...|.++--.....|
T Consensus       356 ~~~~~A~~lle~Ai~ldP~-~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a~al~~~~~~~~~~~ala~~~~~~g  434 (517)
T PRK10153        356 KSLNKASDLLEEILKSEPD-FTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNIVALPELNVLPRIYEILAVQALVKG  434 (517)
T ss_pred             HHHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhhhcccCcCChHHHHHHHHHHHhcC
Confidence            3477999999999987655 5566666555544321        123344444443332 12334567777766666789


Q ss_pred             hHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 039637           80 MYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYS  129 (159)
Q Consensus        80 ~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  129 (159)
                      ++++|...+++.....  |+...|..+...+...|+.++|...+++....
T Consensus       435 ~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L  482 (517)
T PRK10153        435 KTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTAFNL  482 (517)
T ss_pred             CHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            9999999999999875  68889999999999999999999999887654

>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=97.84  E-value=0.00031  Score=37.34  Aligned_cols=62  Identities=19%  Similarity=0.190  Sum_probs=32.7

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCC-ChhhHHHHHHHHHccC-hHHHHHHHHHHHHH
Q 039637           30 VVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP-DYNTFHILIKYFCKEK-MYMLAYRTMVDMHR   93 (159)
Q Consensus        30 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~~-~~~~a~~~~~~m~~   93 (159)
                      ..+|..+...+.+.|++++|+..|.+..+.  .| +...|..+-.++...| ++++|++.+++.++
T Consensus         3 a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~--~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~   66 (69)
T PF13414_consen    3 AEAWYNLGQIYFQQGDYEEAIEYFEKAIEL--DPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALK   66 (69)
T ss_dssp             HHHHHHHHHHHHHTTHHHHHHHHHHHHHHH--STTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            345555555555555555555555555553  23 2344455555555555 45555555555443

...

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

Probab=97.83  E-value=0.002  Score=45.07  Aligned_cols=100  Identities=12%  Similarity=0.068  Sum_probs=49.0

Q ss_pred             HHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCC
Q 039637           36 MLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRA  115 (159)
Q Consensus        36 ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~  115 (159)
                      -|.-+...|+...|..+-++.+    .|+..-|-..+.+++..++|++..++-..    .  -++..|..++..|.+.|+
T Consensus       183 Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s----k--KsPIGyepFv~~~~~~~~  252 (319)
T PF04840_consen  183 TIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS----K--KSPIGYEPFVEACLKYGN  252 (319)
T ss_pred             HHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC----C--CCCCChHHHHHHHHHCCC
Confidence            3444445555555555544332    25555555555666655555554443221    1  123455555555555555


Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHh
Q 039637          116 HSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAY  155 (159)
Q Consensus       116 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  155 (159)
                      ..+|..+..++.      +    ..-+..|++.|++.+|.
T Consensus       253 ~~eA~~yI~k~~------~----~~rv~~y~~~~~~~~A~  282 (319)
T PF04840_consen  253 KKEASKYIPKIP------D----EERVEMYLKCGDYKEAA  282 (319)
T ss_pred             HHHHHHHHHhCC------h----HHHHHHHHHCCCHHHHH
Confidence            555555554411      1    23445555555555554

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

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

Probab=97.82  E-value=0.0017  Score=47.88  Aligned_cols=116  Identities=17%  Similarity=0.042  Sum_probs=83.1

Q ss_pred             HHhcCChHHHHHHHHHhHhcCCCCC-hhhHHHHHHHHHccChHHHHHHHHHHHHHc----C--CCCcHHHHHHHHHHHHc
Q 039637           40 YCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYMLAYRTMVDMHRK----G--HQPEEELCSSLIFHLGK  112 (159)
Q Consensus        40 ~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----g--~~~~~~~~~~li~~~~~  112 (159)
                      |.+.+..+-|...|.+...  +.|+ +...+-+--.....+.+.+|..+|+..+..    +  ......+++.|...|.+
T Consensus       390 y~~t~n~kLAe~Ff~~A~a--i~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rk  467 (611)
T KOG1173|consen  390 YMRTNNLKLAEKFFKQALA--IAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRK  467 (611)
T ss_pred             HHHhccHHHHHHHHHHHHh--cCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHH
Confidence            3444555555666555444  4454 344454444455567888999888877621    1  11245578899999999


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637          113 MRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus       113 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      .+..++|+..+++... -.+.+..+|.++.-.|...|+++.|.+.|
T Consensus       468 l~~~~eAI~~~q~aL~-l~~k~~~~~asig~iy~llgnld~Aid~f  512 (611)
T KOG1173|consen  468 LNKYEEAIDYYQKALL-LSPKDASTHASIGYIYHLLGNLDKAIDHF  512 (611)
T ss_pred             HhhHHHHHHHHHHHHH-cCCCchhHHHHHHHHHHHhcChHHHHHHH
Confidence            9999999999998876 44668889999999999999999998876

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.80  E-value=0.002  Score=38.50  Aligned_cols=103  Identities=14%  Similarity=-0.017  Sum_probs=73.4

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC---hhhHH-HHHHHHHc
Q 039637            4 AFCRSGCFEETKQLAGDFEAKYDKYD--VVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD---YNTFH-ILIKYFCK   77 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~~~~~--~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~---~~~~~-~ll~~~~~   77 (159)
                      ++-..|+.++|..+|+...+.|...+  ...+-.+...+...|++++|..+|++.....  |+   ..... .+.-++..
T Consensus        10 a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~--p~~~~~~~l~~f~Al~L~~   87 (120)
T PF12688_consen   10 AHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEF--PDDELNAALRVFLALALYN   87 (120)
T ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCccccHHHHHHHHHHHHH
Confidence            45667999999999999998887644  3456667778888999999999999888742  44   22222 22345677


Q ss_pred             cChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHc
Q 039637           78 EKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGK  112 (159)
Q Consensus        78 ~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~  112 (159)
                      .|+.++|..++-....    ++...|..-|..|..
T Consensus        88 ~gr~~eAl~~~l~~la----~~~~~y~ra~~~ya~  118 (120)
T PF12688_consen   88 LGRPKEALEWLLEALA----ETLPRYRRAIRFYAD  118 (120)
T ss_pred             CCCHHHHHHHHHHHHH----HHHHHHHHHHHHHHh
Confidence            8999999988876654    344477766666653

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.80  E-value=0.0013  Score=44.70  Aligned_cols=97  Identities=9%  Similarity=-0.003  Sum_probs=75.0

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCCh----hhHHHHHHHHHccChHHHHHHHHHHHHHcC--CCCcHHHHH
Q 039637           31 VLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDY----NTFHILIKYFCKEKMYMLAYRTMVDMHRKG--HQPEEELCS  104 (159)
Q Consensus        31 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~----~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g--~~~~~~~~~  104 (159)
                      ..|+..+....+.|++++|...|+...+.  -|+.    ..+-.+..+|...|++++|...|..+.+.-  .+.....+-
T Consensus       144 ~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~--yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~  221 (263)
T PRK10803        144 TDYNAAIALVQDKSRQDDAIVAFQNFVKK--YPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMF  221 (263)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHH--CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHH
Confidence            45666666667789999999999999985  3543    466678888999999999999999998642  112344555


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHhC
Q 039637          105 SLIFHLGKMRAHSEALSVYNMLRYS  129 (159)
Q Consensus       105 ~li~~~~~~g~~~~a~~~~~~~~~~  129 (159)
                      .+...+...|+.++|..+|+.+...
T Consensus       222 klg~~~~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        222 KVGVIMQDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            5677788899999999999988863

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

Probab=97.80  E-value=0.00054  Score=47.13  Aligned_cols=153  Identities=12%  Similarity=0.042  Sum_probs=94.5

Q ss_pred             HHHhcCCHHHHHHHHHHHHh----CCCC-CCHHHHHHHHHHHHhcCChHHHHHHHHHhHhc----CCCCC--hhhHHHHH
Q 039637            4 AFCRSGCFEETKQLAGDFEA----KYDK-YDVVLLNSMLCAYCRTGDMESVMHVMRKLDEL----AISPD--YNTFHILI   72 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~----~~~~-~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~~~~~--~~~~~~ll   72 (159)
                      .|-..|++++|.+.|.+.-.    .+-. .-...|......|.+. ++++|.+.+.+....    |- |+  ...+..+-
T Consensus        44 ~fk~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~Aa~~~k~~-~~~~Ai~~~~~A~~~y~~~G~-~~~aA~~~~~lA  121 (282)
T PF14938_consen   44 CFKLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEEAANCYKKG-DPDEAIECYEKAIEIYREAGR-FSQAAKCLKELA  121 (282)
T ss_dssp             HHHHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHT-THHHHHHHHHHHHHHHHHCT--HHHHHHHHHHHH
T ss_pred             HHHHHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhh-CHHHHHHHHHHHHHHHHhcCc-HHHHHHHHHHHH
Confidence            45566778888777776421    1211 1223455555555444 888888888776642    32 33  34666777


Q ss_pred             HHHHcc-ChHHHHHHHHHHHHH----cCCCC-cHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCC-----CCCH-HHHHH
Q 039637           73 KYFCKE-KMYMLAYRTMVDMHR----KGHQP-EEELCSSLIFHLGKMRAHSEALSVYNMLRYSKR-----SMCK-ALHEK  140 (159)
Q Consensus        73 ~~~~~~-~~~~~a~~~~~~m~~----~g~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~-----~~~~-~~~~~  140 (159)
                      ..|... |++++|.+.|.+..+    .|.+. -...+..+...+.+.|++++|..+|+++.....     ..+. ..+-.
T Consensus       122 ~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~  201 (282)
T PF14938_consen  122 EIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLK  201 (282)
T ss_dssp             HHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHH
Confidence            888888 899999999988764    23211 234667888999999999999999998875322     1222 13344


Q ss_pred             HHHHHHhcCcHHHHhhhh
Q 039637          141 ILHILISGKLLKDAYIVV  158 (159)
Q Consensus       141 l~~~~~~~g~~~~A~~~~  158 (159)
                      .+-++...|+...|...|
T Consensus       202 a~l~~L~~~D~v~A~~~~  219 (282)
T PF14938_consen  202 AILCHLAMGDYVAARKAL  219 (282)
T ss_dssp             HHHHHHHTT-HHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHH
Confidence            455777788888887655

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

Probab=97.79  E-value=0.00033  Score=36.84  Aligned_cols=55  Identities=16%  Similarity=0.040  Sum_probs=33.3

Q ss_pred             HHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHh
Q 039637           73 KYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRY  128 (159)
Q Consensus        73 ~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  128 (159)
                      ..+...|++++|.+.|+++++.. +-+...+..+..++...|++++|..+|++...
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            44556666666666666666553 22555666666666666666666666666553

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

Probab=97.78  E-value=0.0066  Score=47.21  Aligned_cols=149  Identities=16%  Similarity=0.121  Sum_probs=80.8

Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHH
Q 039637            6 CRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAY   85 (159)
Q Consensus         6 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~   85 (159)
                      .+.|+.++|..+++.....+.. |..+...+-..|.+.++.++|..+|++..+  ..|+..-...+..+|.+.+.+.+-.
T Consensus        54 ~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~~~~~Ye~~~~--~~P~eell~~lFmayvR~~~yk~qQ  130 (932)
T KOG2053|consen   54 FRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDEAVHLYERANQ--KYPSEELLYHLFMAYVREKSYKKQQ  130 (932)
T ss_pred             HHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhHHHHHHHHHHh--hCCcHHHHHHHHHHHHHHHHHHHHH
Confidence            4556666666666666555554 666666666677777777777777766655  3466555666666666666665544


Q ss_pred             HHHHHHHHcCCCCcHHHHHHHHHHHHccC----------CHHHHHHHHHHHHhCC-CCCCHHHHHHHHHHHHhcCcHHHH
Q 039637           86 RTMVDMHRKGHQPEEELCSSLIFHLGKMR----------AHSEALSVYNMLRYSK-RSMCKALHEKILHILISGKLLKDA  154 (159)
Q Consensus        86 ~~~~~m~~~g~~~~~~~~~~li~~~~~~g----------~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A  154 (159)
                      +.--+|-+. .+-++..|.++++.+.+.-          -..-|.+.++.+...+ .--+..-...-...+-..|.+++|
T Consensus       131 kaa~~LyK~-~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~ea  209 (932)
T KOG2053|consen  131 KAALQLYKN-FPKRAYYFWSVISLILQSIFSENELLDPILLALAEKMVQKLLEKKGKIESEAEIILYLLILELQGKYQEA  209 (932)
T ss_pred             HHHHHHHHh-CCcccchHHHHHHHHHHhccCCcccccchhHHHHHHHHHHHhccCCccchHHHHHHHHHHHHhcccHHHH
Confidence            444444332 2334455555555554331          1223445555555433 111222222233444556667777


Q ss_pred             hhhh
Q 039637          155 YIVV  158 (159)
Q Consensus       155 ~~~~  158 (159)
                      .+++
T Consensus       210 l~~l  213 (932)
T KOG2053|consen  210 LEFL  213 (932)
T ss_pred             HHHH
Confidence            6664

>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=97.77  E-value=0.00042  Score=36.86  Aligned_cols=64  Identities=13%  Similarity=0.047  Sum_probs=53.5

Q ss_pred             ChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccC-CHHHHHHHHHHHHh
Q 039637           64 DYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMR-AHSEALSVYNMLRY  128 (159)
Q Consensus        64 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g-~~~~a~~~~~~~~~  128 (159)
                      +..+|..+-..+...|++++|+..|.+..+.. +.++..+..+..+|.+.| ++++|.+.+++..+
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            34677888888999999999999999998874 346778888999999999 79999999987764

...

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.77  E-value=0.0015  Score=44.54  Aligned_cols=87  Identities=8%  Similarity=-0.046  Sum_probs=70.9

Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC----hhhHHHHHHHHHccC
Q 039637            6 CRSGCFEETKQLAGDFEAKYDKYD--VVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD----YNTFHILIKYFCKEK   79 (159)
Q Consensus         6 ~~~~~~~~A~~~~~~~~~~~~~~~--~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~----~~~~~~ll~~~~~~~   79 (159)
                      .+.|++++|...|+.+.+..|...  ...+-.+..+|...|++++|...|..+.+.-  |+    ...+-.+..++...|
T Consensus       154 ~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~y--P~s~~~~dAl~klg~~~~~~g  231 (263)
T PRK10803        154 QDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNY--PKSPKAADAMFKVGVIMQDKG  231 (263)
T ss_pred             HhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCCcchhHHHHHHHHHHHHcC
Confidence            557999999999999998765422  4678888999999999999999999998742  33    344555667788899


Q ss_pred             hHHHHHHHHHHHHHc
Q 039637           80 MYMLAYRTMVDMHRK   94 (159)
Q Consensus        80 ~~~~a~~~~~~m~~~   94 (159)
                      +.++|..+++.+.+.
T Consensus       232 ~~~~A~~~~~~vi~~  246 (263)
T PRK10803        232 DTAKAKAVYQQVIKK  246 (263)
T ss_pred             CHHHHHHHHHHHHHH
Confidence            999999999999875

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

Probab=97.76  E-value=0.0028  Score=49.93  Aligned_cols=139  Identities=8%  Similarity=0.058  Sum_probs=82.6

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHH---HH--c
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKY---FC--K   77 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~---~~--~   77 (159)
                      .+|-+.|+.++|.++|+++.+..+. |+.+.|.+...|+.. +.++|.+++.+.+..-  .+..-|+.+...   ++  .
T Consensus       124 ~~Ydk~g~~~ka~~~yer~L~~D~~-n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~~~--i~~kq~~~~~e~W~k~~~~~  199 (906)
T PRK14720        124 EAYAKLNENKKLKGVWERLVKADRD-NPEIVKKLATSYEEE-DKEKAITYLKKAIYRF--IKKKQYVGIEEIWSKLVHYN  199 (906)
T ss_pred             HHHHHcCChHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHh-hHHHHHHHHHHHHHHH--HhhhcchHHHHHHHHHHhcC
Confidence            4566678888888888888877755 778888888888887 8888888877776641  111122222211   11  1


Q ss_pred             cChHHHHHHHHHHHHHc-CCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 039637           78 EKMYMLAYRTMVDMHRK-GHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILI  146 (159)
Q Consensus        78 ~~~~~~a~~~~~~m~~~-g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  146 (159)
                      ..+.+.-..+.+.+... |..--+.++..+-..|-+.++++++..+++.+.+.... |.....-++.+|.
T Consensus       200 ~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~~~~-n~~a~~~l~~~y~  268 (906)
T PRK14720        200 SDDFDFFLRIERKVLGHREFTRLVGLLEDLYEPYKALEDWDEVIYILKKILEHDNK-NNKAREELIRFYK  268 (906)
T ss_pred             cccchHHHHHHHHHHhhhccchhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcCCc-chhhHHHHHHHHH
Confidence            12222333333333322 22223445555667777888899999999988875444 4445555555554

>PRK04841 transcriptional regulator MalT; Provisional

Probab=97.75  E-value=0.0049  Score=49.10  Aligned_cols=155  Identities=14%  Similarity=-0.001  Sum_probs=102.5

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCH----HHHHHHHHHHHhcCChHHHHHHHHHhHhcCCC---CC--hhhHHHHHHH
Q 039637            4 AFCRSGCFEETKQLAGDFEAKYDKYDV----VLLNSMLCAYCRTGDMESVMHVMRKLDELAIS---PD--YNTFHILIKY   74 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~~~~~~----~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~---~~--~~~~~~ll~~   74 (159)
                      .+...|++++|...++...+.-...+.    ...+.+...+...|++++|...+.+.....-.   +.  ..+...+...
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            345789999999999887653222222    34566667778899999999999887753111   11  2344455667


Q ss_pred             HHccChHHHHHHHHHHHHHc----CCC--C-cHHHHHHHHHHHHccCCHHHHHHHHHHHHhC--CCCC--CHHHHHHHHH
Q 039637           75 FCKEKMYMLAYRTMVDMHRK----GHQ--P-EEELCSSLIFHLGKMRAHSEALSVYNMLRYS--KRSM--CKALHEKILH  143 (159)
Q Consensus        75 ~~~~~~~~~a~~~~~~m~~~----g~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~--~~~~--~~~~~~~l~~  143 (159)
                      +...|++++|...+++....    +..  + ....+..+...+...|++++|...+++....  ...+  ....+..+..
T Consensus       541 ~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~  620 (903)
T PRK04841        541 LFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAK  620 (903)
T ss_pred             HHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHH
Confidence            78899999999998876642    221  1 2233445566677789999999998876532  1112  2334455667


Q ss_pred             HHHhcCcHHHHhhhh
Q 039637          144 ILISGKLLKDAYIVV  158 (159)
Q Consensus       144 ~~~~~g~~~~A~~~~  158 (159)
                      .+...|+.++|.+.+
T Consensus       621 ~~~~~G~~~~A~~~l  635 (903)
T PRK04841        621 ISLARGDLDNARRYL  635 (903)
T ss_pred             HHHHcCCHHHHHHHH
Confidence            888899999887654

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

Probab=97.74  E-value=0.0017  Score=44.34  Aligned_cols=100  Identities=11%  Similarity=0.009  Sum_probs=79.4

Q ss_pred             HHHhcCChHHHHHHHHHhHhcCCCCC-hhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHH
Q 039637           39 AYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHS  117 (159)
Q Consensus        39 ~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~  117 (159)
                      -..+.+++++|+..|.+.++  +.|+ .+-|..-..+|++.|.++.|++-.+..+.-. +....+|..|-.+|...|+++
T Consensus        90 ~~m~~~~Y~eAv~kY~~AI~--l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iD-p~yskay~RLG~A~~~~gk~~  166 (304)
T KOG0553|consen   90 KLMKNKDYQEAVDKYTEAIE--LDPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSID-PHYSKAYGRLGLAYLALGKYE  166 (304)
T ss_pred             HHHHhhhHHHHHHHHHHHHh--cCCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcC-hHHHHHHHHHHHHHHccCcHH
Confidence            35678899999999999988  5665 4556677888999999999988887777653 235679999999999999999


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHH
Q 039637          118 EALSVYNMLRYSKRSMCKALHEKILH  143 (159)
Q Consensus       118 ~a~~~~~~~~~~~~~~~~~~~~~l~~  143 (159)
                      +|...|++...  +.|+..+|-.=+.
T Consensus       167 ~A~~aykKaLe--ldP~Ne~~K~nL~  190 (304)
T KOG0553|consen  167 EAIEAYKKALE--LDPDNESYKSNLK  190 (304)
T ss_pred             HHHHHHHhhhc--cCCCcHHHHHHHH
Confidence            99999998874  5667666654443

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.73  E-value=0.0041  Score=39.97  Aligned_cols=126  Identities=12%  Similarity=-0.005  Sum_probs=95.3

Q ss_pred             CCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcC---CCCcHHH
Q 039637           26 DKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKG---HQPEEEL  102 (159)
Q Consensus        26 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g---~~~~~~~  102 (159)
                      ..|++...-.|.++..+.|+..+|...|.+...-=..-|....-.+.++....+++..|...++.+.+..   .+||  +
T Consensus        85 ~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd--~  162 (251)
T COG4700          85 IAPTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPD--G  162 (251)
T ss_pred             hchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCC--c
Confidence            4577777888889999999999999999887764345567777778888888899999999998888753   3344  4


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHh
Q 039637          103 CSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAY  155 (159)
Q Consensus       103 ~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  155 (159)
                      .-.+.+.|...|..+.|..-|+...+.  -|+...-..--.++.+.|+.++|.
T Consensus       163 ~Ll~aR~laa~g~~a~Aesafe~a~~~--ypg~~ar~~Y~e~La~qgr~~ea~  213 (251)
T COG4700         163 HLLFARTLAAQGKYADAESAFEVAISY--YPGPQARIYYAEMLAKQGRLREAN  213 (251)
T ss_pred             hHHHHHHHHhcCCchhHHHHHHHHHHh--CCCHHHHHHHHHHHHHhcchhHHH
Confidence            456778888889999999999887753  455555555566778888777664

>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=97.71  E-value=0.0022  Score=38.59  Aligned_cols=93  Identities=15%  Similarity=0.073  Sum_probs=57.4

Q ss_pred             ChhHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccCh
Q 039637            1 MISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKM   80 (159)
Q Consensus         1 ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~   80 (159)
                      +|.++++.|+++....+++..  .|+.++.         -...+.         --....+.|+..+..+++.+|+..++
T Consensus         8 ii~al~r~g~~~~i~~~i~~~--WgI~~~~---------~~~~~~---------~~~~spl~Pt~~lL~AIv~sf~~n~~   67 (126)
T PF12921_consen    8 IIYALGRSGQLDSIKSYIKSV--WGIDVNG---------KKKEGD---------YPPSSPLYPTSRLLIAIVHSFGYNGD   67 (126)
T ss_pred             HHHHHhhcCCHHHHHHHHHHh--cCCCCCC---------ccccCc---------cCCCCCCCCCHHHHHHHHHHHHhccc
Confidence            367889999999998888654  2333221         000111         22234456777777777777777777


Q ss_pred             HHHHHHHHHHHHH-cCCCCcHHHHHHHHHHHHcc
Q 039637           81 YMLAYRTMVDMHR-KGHQPEEELCSSLIFHLGKM  113 (159)
Q Consensus        81 ~~~a~~~~~~m~~-~g~~~~~~~~~~li~~~~~~  113 (159)
                      +..|.++.+...+ .+++.+..+|..|+......
T Consensus        68 i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~v~  101 (126)
T PF12921_consen   68 IFSALKLVDFFSRKYPIPIPKEFWRRLLEWAYVL  101 (126)
T ss_pred             HHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHh
Confidence            7777777776664 35555666777776665544

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

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

Probab=97.70  E-value=0.0053  Score=45.39  Aligned_cols=146  Identities=9%  Similarity=0.008  Sum_probs=98.5

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH---hcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHH
Q 039637           11 FEETKQLAGDFEAKYDKYDVVLLNSMLCAYC---RTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRT   87 (159)
Q Consensus        11 ~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~---~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~   87 (159)
                      -+++..+++.....-...+..+|..+.+-=-   +..+.+.....++++...-..--+-+|...++.-.+..-+..|+.+
T Consensus       309 t~e~~~~yEr~I~~l~~~~~~Ly~~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~i  388 (656)
T KOG1914|consen  309 TDEAASIYERAIEGLLKENKLLYFALADYEESRYDDNKEKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKI  388 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHhcccchhhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHH
Confidence            3455566655543322234444444443221   1223677788888877653333345777889998888889999999


Q ss_pred             HHHHHHcCCCC-cHHHHHHHHHHHHccCCHHHHHHHHHHH-HhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhhC
Q 039637           88 MVDMHRKGHQP-EEELCSSLIFHLGKMRAHSEALSVYNML-RYSKRSMCKALHEKILHILISGKLLKDAYIVVK  159 (159)
Q Consensus        88 ~~~m~~~g~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  159 (159)
                      |.+..+.+..+ ++.+.++++..|| .++.+.|.++|+-- +..|.  ++.--...+..+...++-..|..+|+
T Consensus       389 F~kaR~~~r~~hhVfVa~A~mEy~c-skD~~~AfrIFeLGLkkf~d--~p~yv~~YldfL~~lNdd~N~R~LFE  459 (656)
T KOG1914|consen  389 FKKAREDKRTRHHVFVAAALMEYYC-SKDKETAFRIFELGLKKFGD--SPEYVLKYLDFLSHLNDDNNARALFE  459 (656)
T ss_pred             HHHHhhccCCcchhhHHHHHHHHHh-cCChhHHHHHHHHHHHhcCC--ChHHHHHHHHHHHHhCcchhHHHHHH
Confidence            99999988877 7778888888776 57889999999944 44332  33444677888888888887777764

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

Probab=97.69  E-value=0.003  Score=48.00  Aligned_cols=143  Identities=12%  Similarity=0.076  Sum_probs=106.1

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYM   82 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   82 (159)
                      ..+.+.|-...|..+|+++.         -|...+.+|+..|+..+|..+..+..+  -+|+...|..+.+......-++
T Consensus       406 ell~slGitksAl~I~Erle---------mw~~vi~CY~~lg~~~kaeei~~q~le--k~~d~~lyc~LGDv~~d~s~yE  474 (777)
T KOG1128|consen  406 ELLLSLGITKSALVIFERLE---------MWDPVILCYLLLGQHGKAEEINRQELE--KDPDPRLYCLLGDVLHDPSLYE  474 (777)
T ss_pred             HHHHHcchHHHHHHHHHhHH---------HHHHHHHHHHHhcccchHHHHHHHHhc--CCCcchhHHHhhhhccChHHHH
Confidence            45677888888888887665         366779999999999999999988877  3577888877777765555555


Q ss_pred             HHHHHHHHH----------------------------HHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCC
Q 039637           83 LAYRTMVDM----------------------------HRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMC  134 (159)
Q Consensus        83 ~a~~~~~~m----------------------------~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~  134 (159)
                      +|+++.+..                            .+.. +....+|-.+--+..+.+++..|.+.|..-.. ..+-+
T Consensus       475 kawElsn~~sarA~r~~~~~~~~~~~fs~~~~hle~sl~~n-plq~~~wf~~G~~ALqlek~q~av~aF~rcvt-L~Pd~  552 (777)
T KOG1128|consen  475 KAWELSNYISARAQRSLALLILSNKDFSEADKHLERSLEIN-PLQLGTWFGLGCAALQLEKEQAAVKAFHRCVT-LEPDN  552 (777)
T ss_pred             HHHHHhhhhhHHHHHhhccccccchhHHHHHHHHHHHhhcC-ccchhHHHhccHHHHHHhhhHHHHHHHHHHhh-cCCCc
Confidence            555555433                            2211 12345666666666778899999999987774 44556


Q ss_pred             HHHHHHHHHHHHhcCcHHHHhhhh
Q 039637          135 KALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus       135 ~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      ...||.+-.+|.+.|+-.+|...+
T Consensus       553 ~eaWnNls~ayi~~~~k~ra~~~l  576 (777)
T KOG1128|consen  553 AEAWNNLSTAYIRLKKKKRAFRKL  576 (777)
T ss_pred             hhhhhhhhHHHHHHhhhHHHHHHH
Confidence            788999999999999999988765

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

Probab=97.69  E-value=0.00094  Score=46.70  Aligned_cols=106  Identities=11%  Similarity=-0.011  Sum_probs=76.2

Q ss_pred             hhHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChH
Q 039637            2 ISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMY   81 (159)
Q Consensus         2 l~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~   81 (159)
                      |.-+...|+...|.++-..+.    .|+..-|-..+.++++.++|++...+-..      +-++.-|..++.+|.+.|+.
T Consensus       184 i~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~~~~~~  253 (319)
T PF04840_consen  184 IRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACLKYGNK  253 (319)
T ss_pred             HHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHHHCCCH
Confidence            345667788888877765554    46888888888888888888877765322      23458888888888888888


Q ss_pred             HHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHH
Q 039637           82 MLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLR  127 (159)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~  127 (159)
                      .+|..+...     +     .+..-+..|.++|++.+|.+.--+.+
T Consensus       254 ~eA~~yI~k-----~-----~~~~rv~~y~~~~~~~~A~~~A~~~k  289 (319)
T PF04840_consen  254 KEASKYIPK-----I-----PDEERVEMYLKCGDYKEAAQEAFKEK  289 (319)
T ss_pred             HHHHHHHHh-----C-----ChHHHHHHHHHCCCHHHHHHHHHHcC
Confidence            888877766     2     12456777888888888877654443

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

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

Probab=97.67  E-value=0.0073  Score=41.34  Aligned_cols=115  Identities=14%  Similarity=0.014  Sum_probs=87.9

Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCC-ChhhHHHHHHHHHcc---ChHHHHHHH
Q 039637           12 EETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP-DYNTFHILIKYFCKE---KMYMLAYRT   87 (159)
Q Consensus        12 ~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~---~~~~~a~~~   87 (159)
                      +....-++.=...++. |...|-.|..+|...|++..|..-|.+..+  +.| |...+..+-.++..+   .+..++..+
T Consensus       139 ~~l~a~Le~~L~~nP~-d~egW~~Lg~~ym~~~~~~~A~~AY~~A~r--L~g~n~~~~~g~aeaL~~~a~~~~ta~a~~l  215 (287)
T COG4235         139 EALIARLETHLQQNPG-DAEGWDLLGRAYMALGRASDALLAYRNALR--LAGDNPEILLGLAEALYYQAGQQMTAKARAL  215 (287)
T ss_pred             HHHHHHHHHHHHhCCC-CchhHHHHHHHHHHhcchhHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHhcCCcccHHHHHH
Confidence            3333334433444555 899999999999999999999999999887  334 445555555554333   456789999


Q ss_pred             HHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCC
Q 039637           88 MVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSK  130 (159)
Q Consensus        88 ~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  130 (159)
                      ++++++.. +-|+.+...|...+...|++.+|...|+.|.+..
T Consensus       216 l~~al~~D-~~~iral~lLA~~afe~g~~~~A~~~Wq~lL~~l  257 (287)
T COG4235         216 LRQALALD-PANIRALSLLAFAAFEQGDYAEAAAAWQMLLDLL  257 (287)
T ss_pred             HHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcC
Confidence            99999875 3578888888999999999999999999999754

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

Probab=97.62  E-value=0.011  Score=42.62  Aligned_cols=148  Identities=12%  Similarity=0.073  Sum_probs=90.3

Q ss_pred             HhcCCHHHHHHHHHHHHhCC-CCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCCh----hhHHHHHHH------
Q 039637            6 CRSGCFEETKQLAGDFEAKY-DKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDY----NTFHILIKY------   74 (159)
Q Consensus         6 ~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~----~~~~~ll~~------   74 (159)
                      +-.++...|.+.+-.+.... +.-|+.....+...+...|+.++|...|++...  +.|+.    ..|..|+.-      
T Consensus       207 ~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~--~dpy~i~~MD~Ya~LL~~eg~~e~  284 (564)
T KOG1174|consen  207 MFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLC--ANPDNVEAMDLYAVLLGQEGGCEQ  284 (564)
T ss_pred             HHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhh--CChhhhhhHHHHHHHHHhccCHhh
Confidence            33455555555554444333 334677778888888888888888888887765  33432    223322221      


Q ss_pred             -------------------------HHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 039637           75 -------------------------FCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYS  129 (159)
Q Consensus        75 -------------------------~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  129 (159)
                                               ....++++.|+.+-++-.+.. +-+...+-.-...+...|++++|.=-|+..+. 
T Consensus       285 ~~~L~~~Lf~~~~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~-~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~-  362 (564)
T KOG1174|consen  285 DSALMDYLFAKVKYTASHWFVHAQLLYDEKKFERALNFVEKCIDSE-PRNHEALILKGRLLIALERHTQAVIAFRTAQM-  362 (564)
T ss_pred             HHHHHHHHHhhhhcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccC-cccchHHHhccHHHHhccchHHHHHHHHHHHh-
Confidence                                     112234444444444444332 12334444344566777889999888887764 


Q ss_pred             CCCCCHHHHHHHHHHHHhcCcHHHHhhh
Q 039637          130 KRSMCKALHEKILHILISGKLLKDAYIV  157 (159)
Q Consensus       130 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~  157 (159)
                      --|-+...|.-++++|...|.+.+|..+
T Consensus       363 Lap~rL~~Y~GL~hsYLA~~~~kEA~~~  390 (564)
T KOG1174|consen  363 LAPYRLEIYRGLFHSYLAQKRFKEANAL  390 (564)
T ss_pred             cchhhHHHHHHHHHHHHhhchHHHHHHH
Confidence            2234678999999999999999998753

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=97.62  E-value=0.0048  Score=37.76  Aligned_cols=124  Identities=13%  Similarity=0.088  Sum_probs=89.0

Q ss_pred             hhHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChH
Q 039637            2 ISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMY   81 (159)
Q Consensus         2 l~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~   81 (159)
                      +..+.+.+.+.....+++.+...+. .+...+|.++..|++.+ ..+.++.+..      ..+......+++.|.+.+.+
T Consensus        14 v~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~~~-~~~ll~~l~~------~~~~yd~~~~~~~c~~~~l~   85 (140)
T smart00299       14 VELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAKYD-PQKEIERLDN------KSNHYDIEKVGKLCEKAKLY   85 (140)
T ss_pred             HHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHHHC-HHHHHHHHHh------ccccCCHHHHHHHHHHcCcH
Confidence            5677778899999999999988875 58889999999999764 4555566553      24455666788889998999


Q ss_pred             HHHHHHHHHHHHcCCCCcHHHHHHHHHHHHcc-CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 039637           82 MLAYRTMVDMHRKGHQPEEELCSSLIFHLGKM-RAHSEALSVYNMLRYSKRSMCKALHEKILHILISG  148 (159)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~-g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  148 (159)
                      +++..++..+..     .    ...+..+... ++++.|.+++.+-      .+...|..++..+...
T Consensus        86 ~~~~~l~~k~~~-----~----~~Al~~~l~~~~d~~~a~~~~~~~------~~~~lw~~~~~~~l~~  138 (140)
T smart00299       86 EEAVELYKKDGN-----F----KDAIVTLIEHLGNYEKAIEYFVKQ------NNPELWAEVLKALLDK  138 (140)
T ss_pred             HHHHHHHHhhcC-----H----HHHHHHHHHcccCHHHHHHHHHhC------CCHHHHHHHHHHHHcc
Confidence            888888876632     2    2233333334 8899999888752      2566888888777653

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.61  E-value=0.0065  Score=39.06  Aligned_cols=122  Identities=13%  Similarity=0.038  Sum_probs=95.9

Q ss_pred             hhHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCC-CCChhhHHHHHHHHHccCh
Q 039637            2 ISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAI-SPDYNTFHILIKYFCKEKM   80 (159)
Q Consensus         2 l~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~-~~~~~~~~~ll~~~~~~~~   80 (159)
                      -++..+.|+..+|...|.+-..--+.-|....-.+.++....+++..|...++.+.+... ..++.+.-.+-..+...|+
T Consensus        96 a~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~Ll~aR~laa~g~  175 (251)
T COG4700          96 ANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGHLLFARTLAAQGK  175 (251)
T ss_pred             HHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCchHHHHHHHHhcCC
Confidence            356788899999999999887655667888888999999999999999999999887531 1123455567788999999


Q ss_pred             HHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHH
Q 039637           81 YMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNM  125 (159)
Q Consensus        81 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  125 (159)
                      +..|+.-|+.....  -|+...--.....+.++|+.+++..-+..
T Consensus       176 ~a~Aesafe~a~~~--ypg~~ar~~Y~e~La~qgr~~ea~aq~~~  218 (251)
T COG4700         176 YADAESAFEVAISY--YPGPQARIYYAEMLAKQGRLREANAQYVA  218 (251)
T ss_pred             chhHHHHHHHHHHh--CCCHHHHHHHHHHHHHhcchhHHHHHHHH
Confidence            99999999999874  57766666677778889988777654433

>PLN02789 farnesyltranstransferase

Probab=97.60  E-value=0.011  Score=41.52  Aligned_cols=134  Identities=9%  Similarity=0.030  Sum_probs=78.4

Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCh--HHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHH
Q 039637           10 CFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDM--ESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRT   87 (159)
Q Consensus        10 ~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~--~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~   87 (159)
                      +++++++.++.+.+.+++ +..+|+..-..+.+.|+.  ++++++++++.+.. .-|..+|+....++...|+++++++.
T Consensus        87 ~l~eeL~~~~~~i~~npk-nyqaW~~R~~~l~~l~~~~~~~el~~~~kal~~d-pkNy~AW~~R~w~l~~l~~~~eeL~~  164 (320)
T PLN02789         87 DLEEELDFAEDVAEDNPK-NYQIWHHRRWLAEKLGPDAANKELEFTRKILSLD-AKNYHAWSHRQWVLRTLGGWEDELEY  164 (320)
T ss_pred             hHHHHHHHHHHHHHHCCc-chHHhHHHHHHHHHcCchhhHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhhhHHHHHHH
Confidence            467788888777776655 666676555555555542  56677777777643 23567777777777777778888888


Q ss_pred             HHHHHHcCCCCcHHHHHHHHHHHHcc---CC----HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 039637           88 MVDMHRKGHQPEEELCSSLIFHLGKM---RA----HSEALSVYNMLRYSKRSMCKALHEKILHILIS  147 (159)
Q Consensus        88 ~~~m~~~g~~~~~~~~~~li~~~~~~---g~----~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  147 (159)
                      +.++++.+. -+..+|+.....+.+.   |.    .+++..+..+.... .+-+...|+.+...+..
T Consensus       165 ~~~~I~~d~-~N~sAW~~R~~vl~~~~~l~~~~~~~e~el~y~~~aI~~-~P~N~SaW~Yl~~ll~~  229 (320)
T PLN02789        165 CHQLLEEDV-RNNSAWNQRYFVITRSPLLGGLEAMRDSELKYTIDAILA-NPRNESPWRYLRGLFKD  229 (320)
T ss_pred             HHHHHHHCC-CchhHHHHHHHHHHhccccccccccHHHHHHHHHHHHHh-CCCCcCHHHHHHHHHhc
Confidence            887777653 3445555444333332   22    23455555444432 22344455555555544

>PRK15331 chaperone protein SicA; Provisional

Probab=97.59  E-value=0.0022  Score=40.16  Aligned_cols=88  Identities=10%  Similarity=-0.058  Sum_probs=48.1

Q ss_pred             HHHHhcCChHHHHHHHHHhHhcCCCCCh-hhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCH
Q 039637           38 CAYCRTGDMESVMHVMRKLDELAISPDY-NTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAH  116 (159)
Q Consensus        38 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~-~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~  116 (159)
                      --+...|++++|..+|.-+...+  |.. .-|..|-.++-..+++++|...|......+. -|+..+--...+|...|+.
T Consensus        45 y~~y~~Gk~~eA~~~F~~L~~~d--~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~-~dp~p~f~agqC~l~l~~~  121 (165)
T PRK15331         45 YEFYNQGRLDEAETFFRFLCIYD--FYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLK-NDYRPVFFTGQCQLLMRKA  121 (165)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC--cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc-CCCCccchHHHHHHHhCCH
Confidence            33445666777777776665532  222 2233344445555667777766665554332 2222333355666666777


Q ss_pred             HHHHHHHHHHHh
Q 039637          117 SEALSVYNMLRY  128 (159)
Q Consensus       117 ~~a~~~~~~~~~  128 (159)
                      +.|...|+....
T Consensus       122 ~~A~~~f~~a~~  133 (165)
T PRK15331        122 AKARQCFELVNE  133 (165)
T ss_pred             HHHHHHHHHHHh
Confidence            777777666654

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=97.59  E-value=0.0036  Score=45.37  Aligned_cols=64  Identities=8%  Similarity=0.001  Sum_probs=54.5

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChh----hHHHHHHHHHccChHHHHHHHHHHHHHc
Q 039637           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYN----TFHILIKYFCKEKMYMLAYRTMVDMHRK   94 (159)
Q Consensus        29 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~----~~~~ll~~~~~~~~~~~a~~~~~~m~~~   94 (159)
                      +...|+.+..+|.+.|++++|+..|++..+  +.|+..    +|..+-.+|...|+.++|+..+++..+.
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALe--L~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALE--LNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--hCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            567899999999999999999999999887  467743    5788999999999999999999888874

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.59  E-value=0.001  Score=46.74  Aligned_cols=121  Identities=16%  Similarity=0.161  Sum_probs=72.8

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHH-HHHHHHHccChHHH
Q 039637            5 FCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFH-ILIKYFCKEKMYML   83 (159)
Q Consensus         5 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~-~ll~~~~~~~~~~~   83 (159)
                      +.-..++++++-.++.++..=..-|...+ .+..+++..|.+.+|+++|-......+ .|..+|. .|.++|.++++++.
T Consensus       369 fFL~~qFddVl~YlnSi~sYF~NdD~Fn~-N~AQAk~atgny~eaEelf~~is~~~i-kn~~~Y~s~LArCyi~nkkP~l  446 (557)
T KOG3785|consen  369 FFLSFQFDDVLTYLNSIESYFTNDDDFNL-NLAQAKLATGNYVEAEELFIRISGPEI-KNKILYKSMLARCYIRNKKPQL  446 (557)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhcCcchhhh-HHHHHHHHhcChHHHHHHHhhhcChhh-hhhHHHHHHHHHHHHhcCCchH
Confidence            33445566666666666544333233222 467788888888888888866554333 3455665 45577888888887


Q ss_pred             HHHHHHHHHHcCCCCcHHH-HHHHHHHHHccCCHHHHHHHHHHHHhCC
Q 039637           84 AYRTMVDMHRKGHQPEEEL-CSSLIFHLGKMRAHSEALSVYNMLRYSK  130 (159)
Q Consensus        84 a~~~~~~m~~~g~~~~~~~-~~~li~~~~~~g~~~~a~~~~~~~~~~~  130 (159)
                      |++++-.+   .-+.+... ...+..-|.+.+.+--|.+.|+.+...+
T Consensus       447 AW~~~lk~---~t~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~lD  491 (557)
T KOG3785|consen  447 AWDMMLKT---NTPSERFSLLQLIANDCYKANEFYYAAKAFDELEILD  491 (557)
T ss_pred             HHHHHHhc---CCchhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHccC
Confidence            77665433   22223332 3444566777787777777777766443

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=97.56  E-value=0.0008  Score=51.53  Aligned_cols=78  Identities=12%  Similarity=0.181  Sum_probs=50.8

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYM   82 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   82 (159)
                      .+-...+.|.+|+.+++.+...+.  -..-|.-+.+.|+..|+++-|.++|-+.         ..++-.|..|.+.|+|.
T Consensus       740 eaai~akew~kai~ildniqdqk~--~s~yy~~iadhyan~~dfe~ae~lf~e~---------~~~~dai~my~k~~kw~  808 (1636)
T KOG3616|consen  740 EAAIGAKEWKKAISILDNIQDQKT--ASGYYGEIADHYANKGDFEIAEELFTEA---------DLFKDAIDMYGKAGKWE  808 (1636)
T ss_pred             HHHhhhhhhhhhHhHHHHhhhhcc--ccccchHHHHHhccchhHHHHHHHHHhc---------chhHHHHHHHhccccHH
Confidence            345566777777777777765432  2234666777777888888888777542         24555667777777777


Q ss_pred             HHHHHHHHH
Q 039637           83 LAYRTMVDM   91 (159)
Q Consensus        83 ~a~~~~~~m   91 (159)
                      .|.++-.+.
T Consensus       809 da~kla~e~  817 (1636)
T KOG3616|consen  809 DAFKLAEEC  817 (1636)
T ss_pred             HHHHHHHHh
Confidence            776665544

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=97.54  E-value=0.0074  Score=46.22  Aligned_cols=121  Identities=14%  Similarity=0.046  Sum_probs=86.8

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC-hhhHHHHHHHHHccChH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMY   81 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~   81 (159)
                      ..+.+.++.++|.-.+.+..+-.+ .....|......+...|.+.+|.+.|.....  +.|+ +.+.+.+-.++.+.|+.
T Consensus       658 ~~~~~~~~~~~a~~CL~Ea~~~~~-l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~--ldP~hv~s~~Ala~~lle~G~~  734 (799)
T KOG4162|consen  658 DLFLLSGNDDEARSCLLEASKIDP-LSASVYYLRGLLLEVKGQLEEAKEAFLVALA--LDPDHVPSMTALAELLLELGSP  734 (799)
T ss_pred             HHHHhcCCchHHHHHHHHHHhcch-hhHHHHHHhhHHHHHHHhhHHHHHHHHHHHh--cCCCCcHHHHHHHHHHHHhCCc
Confidence            345666777777766666554332 3666777777777778888888888877766  4565 46667777888888877


Q ss_pred             HHHHH--HHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHH
Q 039637           82 MLAYR--TMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLR  127 (159)
Q Consensus        82 ~~a~~--~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~  127 (159)
                      .-+..  ++..+.+.+ +.++..|..+...+-+.|+.+.|...|+...
T Consensus       735 ~la~~~~~L~dalr~d-p~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~  781 (799)
T KOG4162|consen  735 RLAEKRSLLSDALRLD-PLNHEAWYYLGEVFKKLGDSKQAAECFQAAL  781 (799)
T ss_pred             chHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHccchHHHHHHHHHHH
Confidence            76666  778887765 3577788888888888888888888887554

>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=97.53  E-value=0.00076  Score=36.80  Aligned_cols=62  Identities=18%  Similarity=0.223  Sum_probs=32.0

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHhHhcC--CC---CC-hhhHHHHHHHHHccChHHHHHHHHHHHH
Q 039637           31 VLLNSMLCAYCRTGDMESVMHVMRKLDELA--IS---PD-YNTFHILIKYFCKEKMYMLAYRTMVDMH   92 (159)
Q Consensus        31 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~--~~---~~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~   92 (159)
                      .+|+.+...|.+.|++++|++.|++..+..  ..   |. ..++..+-.++...|++++|++++++..
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            355566666666666666666666555320  11   11 2344455555555566666665555443

...

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=97.51  E-value=0.0037  Score=49.26  Aligned_cols=148  Identities=11%  Similarity=-0.002  Sum_probs=98.2

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCC-ChhhHH--HHHHHHHccCh
Q 039637            4 AFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP-DYNTFH--ILIKYFCKEKM   80 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~--~ll~~~~~~~~   80 (159)
                      .|+..-+..+|.+.|+...+.+.. +...+....+.|++..+++.|..+.-...+.  .| -...++  ..--.|...++
T Consensus       501 iYrd~~Dm~RA~kCf~KAFeLDat-daeaaaa~adtyae~~~we~a~~I~l~~~qk--a~a~~~k~nW~~rG~yyLea~n  577 (1238)
T KOG1127|consen  501 IYRDSDDMKRAKKCFDKAFELDAT-DAEAAAASADTYAEESTWEEAFEICLRAAQK--APAFACKENWVQRGPYYLEAHN  577 (1238)
T ss_pred             HHHHHHHHHHHHHHHHHHhcCCch-hhhhHHHHHHHhhccccHHHHHHHHHHHhhh--chHHHHHhhhhhccccccCccc
Confidence            344445677788888777766554 6777888888888888888887773322221  11 112222  23333666777


Q ss_pred             HHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHH--HHHHhcCcHHHHhhhh
Q 039637           81 YMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKIL--HILISGKLLKDAYIVV  158 (159)
Q Consensus        81 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~--~~~~~~g~~~~A~~~~  158 (159)
                      ...+...|+...+.. +-|...|..+..+|.++|....|.++|++...  .+|+. +|....  -.-+..|...+|.+.+
T Consensus       578 ~h~aV~~fQsALR~d-PkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~--LrP~s-~y~~fk~A~~ecd~GkYkeald~l  653 (1238)
T KOG1127|consen  578 LHGAVCEFQSALRTD-PKDYNLWLGLGEAYPESGRYSHALKVFTKASL--LRPLS-KYGRFKEAVMECDNGKYKEALDAL  653 (1238)
T ss_pred             hhhHHHHHHHHhcCC-chhHHHHHHHHHHHHhcCceehHHHhhhhhHh--cCcHh-HHHHHHHHHHHHHhhhHHHHHHHH
Confidence            888888888877753 34778899999999999999999999988764  34443 344332  3455667777776543

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

Probab=97.50  E-value=0.022  Score=43.07  Aligned_cols=59  Identities=20%  Similarity=0.102  Sum_probs=38.4

Q ss_pred             CcHHHH--HHHHHHHHccCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCcHHHHhhhh
Q 039637           98 PEEELC--SSLIFHLGKMRAHSEALSVYNMLRYSKRSMC-KALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus        98 ~~~~~~--~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      |++..|  -.++..|-+.|+++.|..+++....+  .|+ ...|..-.+.+...|++++|...+
T Consensus       367 PttllWt~y~laqh~D~~g~~~~A~~yId~AIdH--TPTliEly~~KaRI~kH~G~l~eAa~~l  428 (700)
T KOG1156|consen  367 PTTLLWTLYFLAQHYDKLGDYEVALEYIDLAIDH--TPTLIELYLVKARIFKHAGLLDEAAAWL  428 (700)
T ss_pred             chHHHHHHHHHHHHHHHcccHHHHHHHHHHHhcc--CchHHHHHHHHHHHHHhcCChHHHHHHH
Confidence            444444  34566777778888888887776643  343 445666667777777777776654

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

Probab=97.49  E-value=0.015  Score=45.44  Aligned_cols=112  Identities=19%  Similarity=0.182  Sum_probs=85.8

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH--HhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHH
Q 039637            5 FCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAY--CRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYM   82 (159)
Q Consensus         5 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~--~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   82 (159)
                      ....+++.+|++....+.+..|.   ..|...+.++  .|.|+.++|..+++.....+.. |..|...+-.+|...++.+
T Consensus        19 ~ld~~qfkkal~~~~kllkk~Pn---~~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d   94 (932)
T KOG2053|consen   19 LLDSSQFKKALAKLGKLLKKHPN---ALYAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLD   94 (932)
T ss_pred             HhhhHHHHHHHHHHHHHHHHCCC---cHHHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhh
Confidence            35678899999999988876433   2344444443  4889999999888887765543 7889999999999999999


Q ss_pred             HHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHH
Q 039637           83 LAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSV  122 (159)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~  122 (159)
                      ++..+|++..+.  -|+......+.-+|.|.+.+.+-.++
T Consensus        95 ~~~~~Ye~~~~~--~P~eell~~lFmayvR~~~yk~qQka  132 (932)
T KOG2053|consen   95 EAVHLYERANQK--YPSEELLYHLFMAYVREKSYKKQQKA  132 (932)
T ss_pred             HHHHHHHHHHhh--CCcHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999998865  46677777788888888877655544

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.48  E-value=0.0011  Score=35.65  Aligned_cols=54  Identities=15%  Similarity=0.033  Sum_probs=28.3

Q ss_pred             HHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHh
Q 039637           74 YFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRY  128 (159)
Q Consensus        74 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  128 (159)
                      .+.+.+++++|.++++.+...+ +.++..+.....++.+.|++++|...|+....
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            4455555555555555555542 22444444555555555555555555555553

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.41  E-value=0.0095  Score=40.39  Aligned_cols=124  Identities=10%  Similarity=0.070  Sum_probs=91.6

Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHH-----HHHccChHH
Q 039637            8 SGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIK-----YFCKEKMYM   82 (159)
Q Consensus         8 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~-----~~~~~~~~~   82 (159)
                      .|.+.-....+++..+..++.++.....+++.-.+.||.+.|...|+...+..-+.|..+++.++.     .+.-++++.
T Consensus       190 ~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a~i~lg~nn~a  269 (366)
T KOG2796|consen  190 MKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSAFLHLGQNNFA  269 (366)
T ss_pred             chhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhhhheecccchH
Confidence            355666677788888877777899999999999999999999999997776555566666665543     345567788


Q ss_pred             HHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCC
Q 039637           83 LAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRS  132 (159)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  132 (159)
                      .+...+.++.+... -|+..-|.-.-+..-.|+..+|.++++.|......
T Consensus       270 ~a~r~~~~i~~~D~-~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~~P~  318 (366)
T KOG2796|consen  270 EAHRFFTEILRMDP-RNAVANNNKALCLLYLGKLKDALKQLEAMVQQDPR  318 (366)
T ss_pred             HHHHHHhhccccCC-CchhhhchHHHHHHHHHHHHHHHHHHHHHhccCCc
Confidence            88888887877642 35555555555556678999999999999865433

>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=97.41  E-value=0.00056  Score=37.33  Aligned_cols=62  Identities=18%  Similarity=0.164  Sum_probs=48.1

Q ss_pred             hhHHHHHHHHHccChHHHHHHHHHHHHHc----CCC-Cc-HHHHHHHHHHHHccCCHHHHHHHHHHHH
Q 039637           66 NTFHILIKYFCKEKMYMLAYRTMVDMHRK----GHQ-PE-EELCSSLIFHLGKMRAHSEALSVYNMLR  127 (159)
Q Consensus        66 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----g~~-~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~  127 (159)
                      .+++.+-..|...|++++|++.+++..+.    |.. |+ ..++..+...|...|++++|.+++++..
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            56788888999999999999999887743    211 22 5577888899999999999999988764

...

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

Probab=97.37  E-value=0.004  Score=42.55  Aligned_cols=90  Identities=18%  Similarity=0.288  Sum_probs=71.3

Q ss_pred             CCCHHHHHHHHHHHHhc-----CChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccC----------------hHHHHH
Q 039637           27 KYDVVLLNSMLCAYCRT-----GDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEK----------------MYMLAY   85 (159)
Q Consensus        27 ~~~~~~~~~ll~~~~~~-----~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~----------------~~~~a~   85 (159)
                      ..|-.+|-..+..+...     +..+-....++.|.+-|+..|..+|..||+.+-+..                .-+=++
T Consensus        64 ~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~I  143 (406)
T KOG3941|consen   64 KRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAI  143 (406)
T ss_pred             cccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHH
Confidence            45777788888777653     456667778889999999999999999998875532                113468


Q ss_pred             HHHHHHHHcCCCCcHHHHHHHHHHHHccCCH
Q 039637           86 RTMVDMHRKGHQPEEELCSSLIFHLGKMRAH  116 (159)
Q Consensus        86 ~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~  116 (159)
                      +++++|...|+.||..+-..|+.++++.+..
T Consensus       144 ~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p  174 (406)
T KOG3941|consen  144 KVLEQMEWHGVMPDKEIEDILVNAFGRWNFP  174 (406)
T ss_pred             HHHHHHHHcCCCCchHHHHHHHHHhcccccc
Confidence            8999999999999999999999999998764

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=97.30  E-value=0.0076  Score=46.52  Aligned_cols=109  Identities=9%  Similarity=0.079  Sum_probs=82.9

Q ss_pred             HHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCH
Q 039637           37 LCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAH  116 (159)
Q Consensus        37 l~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~  116 (159)
                      +.+......|.+|+.+++.+....  ....-|..+.+-|+..|+++.|+++|-+-         ..++-.|.+|.+.|++
T Consensus       739 ieaai~akew~kai~ildniqdqk--~~s~yy~~iadhyan~~dfe~ae~lf~e~---------~~~~dai~my~k~~kw  807 (1636)
T KOG3616|consen  739 IEAAIGAKEWKKAISILDNIQDQK--TASGYYGEIADHYANKGDFEIAEELFTEA---------DLFKDAIDMYGKAGKW  807 (1636)
T ss_pred             HHHHhhhhhhhhhHhHHHHhhhhc--cccccchHHHHHhccchhHHHHHHHHHhc---------chhHHHHHHHhccccH
Confidence            344556678888999988887643  33455677888999999999998887532         2466789999999999


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637          117 SEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus       117 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      +.|.++-++..  |.......|-+-..-+-+.|++.+|..++
T Consensus       808 ~da~kla~e~~--~~e~t~~~yiakaedldehgkf~eaeqly  847 (1636)
T KOG3616|consen  808 EDAFKLAEECH--GPEATISLYIAKAEDLDEHGKFAEAEQLY  847 (1636)
T ss_pred             HHHHHHHHHhc--CchhHHHHHHHhHHhHHhhcchhhhhhee
Confidence            99998876654  55556667777788888888888887764

>PRK04841 transcriptional regulator MalT; Provisional

Probab=97.28  E-value=0.06  Score=43.08  Aligned_cols=154  Identities=10%  Similarity=-0.120  Sum_probs=97.6

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCC------CCCH--HHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCCh----hhHHHHH
Q 039637            5 FCRSGCFEETKQLAGDFEAKYD------KYDV--VLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDY----NTFHILI   72 (159)
Q Consensus         5 ~~~~~~~~~A~~~~~~~~~~~~------~~~~--~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~----~~~~~ll   72 (159)
                      +...|++++|...+....+.-.      .+..  .....+...+...|++++|...+.+..+.--..+.    ...+.+.
T Consensus       419 ~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg  498 (903)
T PRK04841        419 AQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAINDGDPEEAERLAELALAELPLTWYYSRIVATSVLG  498 (903)
T ss_pred             HHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHH
Confidence            4567899999998887654211      1111  12223334556789999999999887763111111    2334555


Q ss_pred             HHHHccChHHHHHHHHHHHHHcCC---CCc--HHHHHHHHHHHHccCCHHHHHHHHHHHHh----CCCC--C-CHHHHHH
Q 039637           73 KYFCKEKMYMLAYRTMVDMHRKGH---QPE--EELCSSLIFHLGKMRAHSEALSVYNMLRY----SKRS--M-CKALHEK  140 (159)
Q Consensus        73 ~~~~~~~~~~~a~~~~~~m~~~g~---~~~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~----~~~~--~-~~~~~~~  140 (159)
                      ..+...|++++|...+.+......   .+.  ..+...+...+...|+++.|...+++...    .+..  + ....+..
T Consensus       499 ~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~  578 (903)
T PRK04841        499 EVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRI  578 (903)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHH
Confidence            667788999999999988774311   111  23445667778889999999999886553    2221  1 2233445


Q ss_pred             HHHHHHhcCcHHHHhhhh
Q 039637          141 ILHILISGKLLKDAYIVV  158 (159)
Q Consensus       141 l~~~~~~~g~~~~A~~~~  158 (159)
                      +...+...|++++|...+
T Consensus       579 la~~~~~~G~~~~A~~~~  596 (903)
T PRK04841        579 RAQLLWEWARLDEAEQCA  596 (903)
T ss_pred             HHHHHHHhcCHHHHHHHH
Confidence            566777889999997654

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.24  E-value=0.024  Score=37.13  Aligned_cols=147  Identities=14%  Similarity=0.144  Sum_probs=94.7

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCC--CCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCCh--hhHHHHHHHHHc--
Q 039637            4 AFCRSGCFEETKQLAGDFEAKYDK--YDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDY--NTFHILIKYFCK--   77 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~~~--~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~--~~~~~ll~~~~~--   77 (159)
                      .+.+.|++.+|.+.|+.+....+.  ......-.++.++.+.|++.+|...+++..+.-  |+.  .-+...+.+.+.  
T Consensus        14 ~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~y--P~~~~~~~A~Y~~g~~~~~   91 (203)
T PF13525_consen   14 EALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLY--PNSPKADYALYMLGLSYYK   91 (203)
T ss_dssp             HHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH---TT-TTHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCCcchhhHHHHHHHHHHH
Confidence            467889999999999999976543  234566677889999999999999999988752  432  222222222221  


Q ss_pred             -----------cChHHHHHHHHHHHHHcCCCCcH------------------HHHHHHHHHHHccCCHHHHHHHHHHHHh
Q 039637           78 -----------EKMYMLAYRTMVDMHRKGHQPEE------------------ELCSSLIFHLGKMRAHSEALSVYNMLRY  128 (159)
Q Consensus        78 -----------~~~~~~a~~~~~~m~~~g~~~~~------------------~~~~~li~~~~~~g~~~~a~~~~~~~~~  128 (159)
                                 .+...+|...|+.+++.-  |++                  ..--.+...|.+.|.+..|..-++.+..
T Consensus        92 ~~~~~~~~~~D~~~~~~A~~~~~~li~~y--P~S~y~~~A~~~l~~l~~~la~~e~~ia~~Y~~~~~y~aA~~r~~~v~~  169 (203)
T PF13525_consen   92 QIPGILRSDRDQTSTRKAIEEFEELIKRY--PNSEYAEEAKKRLAELRNRLAEHELYIARFYYKRGKYKAAIIRFQYVIE  169 (203)
T ss_dssp             HHHHHH-TT---HHHHHHHHHHHHHHHH---TTSTTHHHHHHHHHHHHHHHHHHHHHHHHHHHCTT-HHHHHHHHHHHHH
T ss_pred             hCccchhcccChHHHHHHHHHHHHHHHHC--cCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence                       123457788888887652  321                  0011346778899999999999998886


Q ss_pred             CCCCCC---HHHHHHHHHHHHhcCcHHHHh
Q 039637          129 SKRSMC---KALHEKILHILISGKLLKDAY  155 (159)
Q Consensus       129 ~~~~~~---~~~~~~l~~~~~~~g~~~~A~  155 (159)
                      . .+-+   ......++.+|.+.|..+.|.
T Consensus       170 ~-yp~t~~~~~al~~l~~~y~~l~~~~~a~  198 (203)
T PF13525_consen  170 N-YPDTPAAEEALARLAEAYYKLGLKQAAD  198 (203)
T ss_dssp             H-STTSHHHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             H-CCCCchHHHHHHHHHHHHHHhCChHHHH
Confidence            3 2222   335567889999999887554

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

Probab=97.22  E-value=0.016  Score=40.01  Aligned_cols=141  Identities=14%  Similarity=0.072  Sum_probs=89.6

Q ss_pred             HhcCCHHHHHHHHHHHH----hCCCC-CCHHHHHHHHHHHHhc-CChHHHHHHHHHhHhc----CCCCC--hhhHHHHHH
Q 039637            6 CRSGCFEETKQLAGDFE----AKYDK-YDVVLLNSMLCAYCRT-GDMESVMHVMRKLDEL----AISPD--YNTFHILIK   73 (159)
Q Consensus         6 ~~~~~~~~A~~~~~~~~----~~~~~-~~~~~~~~ll~~~~~~-~~~~~a~~~~~~m~~~----~~~~~--~~~~~~ll~   73 (159)
                      .+..++++|.+.++...    +.|-. .-..++..+...|-.. |++++|++.|.+..+.    | .+.  ..++..+..
T Consensus        85 ~k~~~~~~Ai~~~~~A~~~y~~~G~~~~aA~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~-~~~~a~~~~~~~A~  163 (282)
T PF14938_consen   85 YKKGDPDEAIECYEKAIEIYREAGRFSQAAKCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEG-SPHSAAECLLKAAD  163 (282)
T ss_dssp             HHHTTHHHHHHHHHHHHHHHHHCT-HHHHHHHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHH
T ss_pred             HHhhCHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCC-ChhhHHHHHHHHHH
Confidence            34458888888877654    33322 1234677888888888 8999999999887653    2 221  345567778


Q ss_pred             HHHccChHHHHHHHHHHHHHcCCC-----CcHH-HHHHHHHHHHccCCHHHHHHHHHHHHhC--CCCCC--HHHHHHHHH
Q 039637           74 YFCKEKMYMLAYRTMVDMHRKGHQ-----PEEE-LCSSLIFHLGKMRAHSEALSVYNMLRYS--KRSMC--KALHEKILH  143 (159)
Q Consensus        74 ~~~~~~~~~~a~~~~~~m~~~g~~-----~~~~-~~~~li~~~~~~g~~~~a~~~~~~~~~~--~~~~~--~~~~~~l~~  143 (159)
                      .+.+.|++++|.++|+++...-..     ++.. .+-..+-++...|++..|.+.+++....  +...+  -.....++.
T Consensus       164 l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~  243 (282)
T PF14938_consen  164 LYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLE  243 (282)
T ss_dssp             HHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHH
Confidence            899999999999999998865322     2222 2223344666779999999999998754  33333  234455666


Q ss_pred             HHHh
Q 039637          144 ILIS  147 (159)
Q Consensus       144 ~~~~  147 (159)
                      ++-.
T Consensus       244 A~~~  247 (282)
T PF14938_consen  244 AYEE  247 (282)
T ss_dssp             HHHT
T ss_pred             HHHh
Confidence            6544

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

Probab=97.22  E-value=0.052  Score=40.74  Aligned_cols=137  Identities=14%  Similarity=0.021  Sum_probs=94.1

Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHH--------HhHhcCCCCChhhHHHHHHHHHccChH
Q 039637           10 CFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMR--------KLDELAISPDYNTFHILIKYFCKEKMY   81 (159)
Q Consensus        10 ~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~--------~m~~~~~~~~~~~~~~ll~~~~~~~~~   81 (159)
                      ...+|.+++...-+..+.-+..+--.++......|+++.|.+++.        ...+.+-.|  .+...++..+.+.++-
T Consensus       356 ~~~ka~e~L~~~~~~~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~~~~~~ss~~~~~~~P--~~V~aiv~l~~~~~~~  433 (652)
T KOG2376|consen  356 KHKKAIELLLQFADGHPEKSKVVLLLRAQLKISQGNPEVALEILSLFLESWKSSILEAKHLP--GTVGAIVALYYKIKDN  433 (652)
T ss_pred             HHhhhHHHHHHHhccCCchhHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhhhhhhhhccCh--hHHHHHHHHHHhccCC
Confidence            566777777777665555456677788888889999999999998        666655555  4555566667676666


Q ss_pred             HHHHHHHHHHHHc------CCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 039637           82 MLAYRTMVDMHRK------GHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGK  149 (159)
Q Consensus        82 ~~a~~~~~~m~~~------g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  149 (159)
                      +.|..++.+....      +-..-..++.-+...-.+.|+.++|..+++++... -++|..+..-++.+|++..
T Consensus       434 ~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea~s~leel~k~-n~~d~~~l~~lV~a~~~~d  506 (652)
T KOG2376|consen  434 DSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEASSLLEELVKF-NPNDTDLLVQLVTAYARLD  506 (652)
T ss_pred             ccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHHHHHHHHHHHh-CCchHHHHHHHHHHHHhcC
Confidence            6666666555431      11112234444555556779999999999999873 4668888888998888753

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

Probab=97.21  E-value=0.0088  Score=40.96  Aligned_cols=89  Identities=12%  Similarity=0.187  Sum_probs=72.6

Q ss_pred             CCChhhHHHHHHHHHcc-----ChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccC----------------CHHHHH
Q 039637           62 SPDYNTFHILIKYFCKE-----KMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMR----------------AHSEAL  120 (159)
Q Consensus        62 ~~~~~~~~~ll~~~~~~-----~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g----------------~~~~a~  120 (159)
                      ..|..+|-..+..+...     ++.+-.-..+..|.+.|++-|..+|+.|+..+-+..                +-+=++
T Consensus        64 ~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~I  143 (406)
T KOG3941|consen   64 KRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAI  143 (406)
T ss_pred             cccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHH
Confidence            45677787777776443     566666677889999999999999999999887654                234678


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCc
Q 039637          121 SVYNMLRYSKRSMCKALHEKILHILISGKL  150 (159)
Q Consensus       121 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  150 (159)
                      +++++|...|+-||..+-..++.++.+.+.
T Consensus       144 ~vLeqME~hGVmPdkE~e~~lvn~FGr~~~  173 (406)
T KOG3941|consen  144 KVLEQMEWHGVMPDKEIEDILVNAFGRWNF  173 (406)
T ss_pred             HHHHHHHHcCCCCchHHHHHHHHHhccccc
Confidence            899999999999999999999999988775

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

Probab=97.19  E-value=0.039  Score=44.25  Aligned_cols=86  Identities=16%  Similarity=0.173  Sum_probs=61.9

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHH
Q 039637           30 VVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFH  109 (159)
Q Consensus        30 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~  109 (159)
                      +.+|..+..+=.+.|...+|.+-|-+      ..|+..|..+++.+.+.|.|++..+++....+...+|.+.  +.||-+
T Consensus      1104 p~vWsqlakAQL~~~~v~dAieSyik------adDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id--~eLi~A 1175 (1666)
T KOG0985|consen 1104 PAVWSQLAKAQLQGGLVKDAIESYIK------ADDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYID--SELIFA 1175 (1666)
T ss_pred             hHHHHHHHHHHHhcCchHHHHHHHHh------cCCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccch--HHHHHH
Confidence            34566666666666777776665533      2466788888999999999998888888877777666543  468888


Q ss_pred             HHccCCHHHHHHHH
Q 039637          110 LGKMRAHSEALSVY  123 (159)
Q Consensus       110 ~~~~g~~~~a~~~~  123 (159)
                      |++.+++.+.+.++
T Consensus      1176 yAkt~rl~elE~fi 1189 (1666)
T KOG0985|consen 1176 YAKTNRLTELEEFI 1189 (1666)
T ss_pred             HHHhchHHHHHHHh
Confidence            88888877665543

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=97.17  E-value=0.044  Score=38.74  Aligned_cols=54  Identities=7%  Similarity=0.059  Sum_probs=28.1

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHh
Q 039637            4 AFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDE   58 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~   58 (159)
                      .+.-.|++..|+..|...++.++. +-.++-.-...|...|+...|+.=+.+..+
T Consensus        47 ~lla~~Q~sDALt~yHaAve~dp~-~Y~aifrRaT~yLAmGksk~al~Dl~rVle  100 (504)
T KOG0624|consen   47 ELLARGQLSDALTHYHAAVEGDPN-NYQAIFRRATVYLAMGKSKAALQDLSRVLE  100 (504)
T ss_pred             HHHHhhhHHHHHHHHHHHHcCCch-hHHHHHHHHHHHhhhcCCccchhhHHHHHh
Confidence            456678888888888877764332 222322223334444444444444444433

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

Probab=97.14  E-value=0.05  Score=41.25  Aligned_cols=149  Identities=13%  Similarity=-0.001  Sum_probs=107.8

Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHH
Q 039637            6 CRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAY   85 (159)
Q Consensus         6 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~   85 (159)
                      ...|+-++|.+..+.-....+. +.++|..+.-.+-...++++|+..|......+ +-|...+.-+----.+.|+++...
T Consensus        52 ~~lg~~~ea~~~vr~glr~d~~-S~vCwHv~gl~~R~dK~Y~eaiKcy~nAl~~~-~dN~qilrDlslLQ~QmRd~~~~~  129 (700)
T KOG1156|consen   52 NCLGKKEEAYELVRLGLRNDLK-SHVCWHVLGLLQRSDKKYDEAIKCYRNALKIE-KDNLQILRDLSLLQIQMRDYEGYL  129 (700)
T ss_pred             hcccchHHHHHHHHHHhccCcc-cchhHHHHHHHHhhhhhHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHHHhhhhHH
Confidence            4567888888887776654444 88899999988888999999999999988743 234566766655566778888888


Q ss_pred             HHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCC-CCCCHHHHHHHH------HHHHhcCcHHHHhhh
Q 039637           86 RTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSK-RSMCKALHEKIL------HILISGKLLKDAYIV  157 (159)
Q Consensus        86 ~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~-~~~~~~~~~~l~------~~~~~~g~~~~A~~~  157 (159)
                      ....++++.. +.....|-.+..++--.|+...|..+.+...+.. ..|+...|....      ....+.|..++|.+-
T Consensus       130 ~tr~~LLql~-~~~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~  207 (700)
T KOG1156|consen  130 ETRNQLLQLR-PSQRASWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEH  207 (700)
T ss_pred             HHHHHHHHhh-hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHH
Confidence            8888777752 2344566778888888899999999998887654 456666655443      445566666666553

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

Probab=97.09  E-value=0.0077  Score=41.23  Aligned_cols=82  Identities=20%  Similarity=0.221  Sum_probs=65.4

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHH-----cCCCCcHHHHH
Q 039637           30 VVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHR-----KGHQPEEELCS  104 (159)
Q Consensus        30 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~-----~g~~~~~~~~~  104 (159)
                      ..++..++..+...|+.+.+.+.++++.... +-+...|..++.+|.+.|+...|+..|+++.+     .|+.|.+.+..
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            4578888888888899999999988888753 34678888899999999999888888888764     58888888777


Q ss_pred             HHHHHHHc
Q 039637          105 SLIFHLGK  112 (159)
Q Consensus       105 ~li~~~~~  112 (159)
                      .......+
T Consensus       232 ~y~~~~~~  239 (280)
T COG3629         232 LYEEILRQ  239 (280)
T ss_pred             HHHHHhcc
Confidence            77666443

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=97.09  E-value=0.015  Score=42.81  Aligned_cols=104  Identities=19%  Similarity=0.151  Sum_probs=85.2

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC-hhhHHHHHHHHHccChH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMY   81 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~   81 (159)
                      ++.+..|+++.|+..|-......+. |.+.|..-..+|.+.|++++|++=-.+-++  +.|+ .-.|+..-.+..-.|++
T Consensus        10 naa~s~~d~~~ai~~~t~ai~l~p~-nhvlySnrsaa~a~~~~~~~al~da~k~~~--l~p~w~kgy~r~Gaa~~~lg~~   86 (539)
T KOG0548|consen   10 NAAFSSGDFETAIRLFTEAIMLSPT-NHVLYSNRSAAYASLGSYEKALKDATKTRR--LNPDWAKGYSRKGAALFGLGDY   86 (539)
T ss_pred             HhhcccccHHHHHHHHHHHHccCCC-ccchhcchHHHHHHHhhHHHHHHHHHHHHh--cCCchhhHHHHhHHHHHhcccH
Confidence            3567889999999999998887765 999999999999999999999877666655  6787 47899999999999999


Q ss_pred             HHHHHHHHHHHHcCCCCcHHHHHHHHHHH
Q 039637           82 MLAYRTMVDMHRKGHQPEEELCSSLIFHL  110 (159)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~  110 (159)
                      ++|+.-|.+=++.. +.+...++-+..++
T Consensus        87 ~eA~~ay~~GL~~d-~~n~~L~~gl~~a~  114 (539)
T KOG0548|consen   87 EEAILAYSEGLEKD-PSNKQLKTGLAQAY  114 (539)
T ss_pred             HHHHHHHHHHhhcC-CchHHHHHhHHHhh
Confidence            99999998877653 34566666677666

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=97.05  E-value=0.087  Score=40.22  Aligned_cols=83  Identities=13%  Similarity=0.047  Sum_probs=39.5

Q ss_pred             HhcCCHHHHHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHH
Q 039637            6 CRSGCFEETKQLAGDFEAK-YDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLA   84 (159)
Q Consensus         6 ~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   84 (159)
                      .+.|++......|+..... .+..-..+|...+....+.+-++.+..++.+.++    .++..-+--+..+++.+++++|
T Consensus       113 ~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk----~~P~~~eeyie~L~~~d~~~ea  188 (835)
T KOG2047|consen  113 IKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLK----VAPEAREEYIEYLAKSDRLDEA  188 (835)
T ss_pred             HhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHh----cCHHHHHHHHHHHHhccchHHH
Confidence            3445555555555543322 1112223455555555555555555555555544    2222344445555555555555


Q ss_pred             HHHHHHHH
Q 039637           85 YRTMVDMH   92 (159)
Q Consensus        85 ~~~~~~m~   92 (159)
                      -+.+..++
T Consensus       189 a~~la~vl  196 (835)
T KOG2047|consen  189 AQRLATVL  196 (835)
T ss_pred             HHHHHHhc
Confidence            55555443

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.99  E-value=0.036  Score=37.60  Aligned_cols=99  Identities=16%  Similarity=0.153  Sum_probs=74.1

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHhHhcCC--CCChhhHHHHHHHHHccChHHHHHHHHHHHHHcC-CCC-cHHHHHH
Q 039637           30 VVLLNSMLCAYCRTGDMESVMHVMRKLDELAI--SPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKG-HQP-EEELCSS  105 (159)
Q Consensus        30 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~--~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g-~~~-~~~~~~~  105 (159)
                      ...|+.-+..+ +.|++.+|...|..-++..-  ......+--|..++...|++++|..+|..+.+.- -.| -+...--
T Consensus       142 ~~~Y~~A~~~~-ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallK  220 (262)
T COG1729         142 TKLYNAALDLY-KSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLK  220 (262)
T ss_pred             hHHHHHHHHHH-HcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHH
Confidence            44777777664 56669999999998887631  1123455668899999999999999998888652 222 2456667


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHhC
Q 039637          106 LIFHLGKMRAHSEALSVYNMLRYS  129 (159)
Q Consensus       106 li~~~~~~g~~~~a~~~~~~~~~~  129 (159)
                      |..+..+.|+.++|..+|+.+.+.
T Consensus       221 lg~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         221 LGVSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHH
Confidence            888889999999999999988863

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

Probab=96.96  E-value=0.1  Score=42.04  Aligned_cols=132  Identities=10%  Similarity=0.111  Sum_probs=91.0

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHH
Q 039637            5 FCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLA   84 (159)
Q Consensus         5 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   84 (159)
                      ...++-+++|..+|+...     .+....+.|++-   .+..+.|.+.-++.      -.+..|+.+..+-.+.|...+|
T Consensus      1058 ai~~~LyEEAF~ifkkf~-----~n~~A~~VLie~---i~~ldRA~efAe~~------n~p~vWsqlakAQL~~~~v~dA 1123 (1666)
T KOG0985|consen 1058 AIENQLYEEAFAIFKKFD-----MNVSAIQVLIEN---IGSLDRAYEFAERC------NEPAVWSQLAKAQLQGGLVKDA 1123 (1666)
T ss_pred             HhhhhHHHHHHHHHHHhc-----ccHHHHHHHHHH---hhhHHHHHHHHHhh------CChHHHHHHHHHHHhcCchHHH
Confidence            344445556666554442     244444444432   23444454443332      2346788888888888888888


Q ss_pred             HHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637           85 YRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus        85 ~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      ++-|-   +.   -|+..|.-++....+.|.+++-.+++...++....|...  +.+|-+|.+.+++.+-++++
T Consensus      1124 ieSyi---ka---dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id--~eLi~AyAkt~rl~elE~fi 1189 (1666)
T KOG0985|consen 1124 IESYI---KA---DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYID--SELIFAYAKTNRLTELEEFI 1189 (1666)
T ss_pred             HHHHH---hc---CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccch--HHHHHHHHHhchHHHHHHHh
Confidence            76553   22   366689999999999999999999999888777777765  58999999999998887764

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=96.95  E-value=0.064  Score=37.36  Aligned_cols=127  Identities=12%  Similarity=0.116  Sum_probs=82.7

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh--cCC----hHHHHHHHHHhHhcCC---CCChhhHHHHHHHHHccCh-
Q 039637           11 FEETKQLAGDFEAKYDKYDVVLLNSMLCAYCR--TGD----MESVMHVMRKLDELAI---SPDYNTFHILIKYFCKEKM-   80 (159)
Q Consensus        11 ~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~--~~~----~~~a~~~~~~m~~~~~---~~~~~~~~~ll~~~~~~~~-   80 (159)
                      +++..++++.|.+.|+..+..+|-+.......  ..+    ...+.++|+.|++...   .++...+..++..  ...+ 
T Consensus        78 ~~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~~  155 (297)
T PF13170_consen   78 FKEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSEDV  155 (297)
T ss_pred             HHHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--ccccH
Confidence            55677888899999998887776654333333  333    4568999999998743   3455666666655  2233 


Q ss_pred             ---HHHHHHHHHHHHHcCCCCcH--HHHHHHHHHHHccCC--HHHHHHHHHHHHhCCCCCCHHHHH
Q 039637           81 ---YMLAYRTMVDMHRKGHQPEE--ELCSSLIFHLGKMRA--HSEALSVYNMLRYSKRSMCKALHE  139 (159)
Q Consensus        81 ---~~~a~~~~~~m~~~g~~~~~--~~~~~li~~~~~~g~--~~~a~~~~~~~~~~~~~~~~~~~~  139 (159)
                         .+.++.+|+.+.+.|...+-  .....++........  ...+..+++.+.+.++++....|.
T Consensus       156 e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp  221 (297)
T PF13170_consen  156 EELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYP  221 (297)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCcccccccc
Confidence               35778888888887876543  333444444433333  347778888999888887665544

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=96.91  E-value=0.039  Score=33.72  Aligned_cols=87  Identities=11%  Similarity=0.069  Sum_probs=62.9

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHc
Q 039637           33 LNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGK  112 (159)
Q Consensus        33 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~  112 (159)
                      ...++..+.+.+.+..+...++.+...+. .+...++.++..|++.+ ..+..+.+..   .   ++......+++.|.+
T Consensus        10 ~~~vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~~~-~~~ll~~l~~---~---~~~yd~~~~~~~c~~   81 (140)
T smart00299       10 VSEVVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAKYD-PQKEIERLDN---K---SNHYDIEKVGKLCEK   81 (140)
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHHHC-HHHHHHHHHh---c---cccCCHHHHHHHHHH
Confidence            45677788888899999999999988773 67788999999998764 3444455442   1   233344557777778


Q ss_pred             cCCHHHHHHHHHHHH
Q 039637          113 MRAHSEALSVYNMLR  127 (159)
Q Consensus       113 ~g~~~~a~~~~~~~~  127 (159)
                      .+.++++..++.++.
T Consensus        82 ~~l~~~~~~l~~k~~   96 (140)
T smart00299       82 AKLYEEAVELYKKDG   96 (140)
T ss_pred             cCcHHHHHHHHHhhc
Confidence            888888888877664

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=96.89  E-value=0.11  Score=40.26  Aligned_cols=124  Identities=6%  Similarity=-0.098  Sum_probs=98.3

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHH
Q 039637           32 LLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLG  111 (159)
Q Consensus        32 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  111 (159)
                      .|......+.+.+..++|...+.+..+.. .-....|...-..+...|.+.+|.+.|...+... +-++....++..++.
T Consensus       652 lwllaa~~~~~~~~~~~a~~CL~Ea~~~~-~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~ld-P~hv~s~~Ala~~ll  729 (799)
T KOG4162|consen  652 LWLLAADLFLLSGNDDEARSCLLEASKID-PLSASVYYLRGLLLEVKGQLEEAKEAFLVALALD-PDHVPSMTALAELLL  729 (799)
T ss_pred             HHHHHHHHHHhcCCchHHHHHHHHHHhcc-hhhHHHHHHhhHHHHHHHhhHHHHHHHHHHHhcC-CCCcHHHHHHHHHHH
Confidence            56677788888999999998888877642 2334556655567788899999999998777643 235667889999999


Q ss_pred             ccCCHHHHHH--HHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637          112 KMRAHSEALS--VYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus       112 ~~g~~~~a~~--~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      +.|+...|..  ++.++...+ +.+...|..+-..+-+.|+.++|.+.|
T Consensus       730 e~G~~~la~~~~~L~dalr~d-p~n~eaW~~LG~v~k~~Gd~~~Aaecf  777 (799)
T KOG4162|consen  730 ELGSPRLAEKRSLLSDALRLD-PLNHEAWYYLGEVFKKLGDSKQAAECF  777 (799)
T ss_pred             HhCCcchHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHccchHHHHHHH
Confidence            9999888888  888888644 457889999999999999999998876

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=96.88  E-value=0.054  Score=39.66  Aligned_cols=122  Identities=15%  Similarity=0.185  Sum_probs=86.9

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHhHhcC-CCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHH-HHHH
Q 039637           30 VVLLNSMLCAYCRTGDMESVMHVMRKLDELA-ISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELC-SSLI  107 (159)
Q Consensus        30 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~-~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~-~~li  107 (159)
                      ..+|...|+.-.+..-.+.|..+|-+..+.| +.+++..+++++..++. |+..-|.++|+-=...  .||...| +-.+
T Consensus       397 t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~~-~d~~ta~~ifelGl~~--f~d~~~y~~kyl  473 (660)
T COG5107         397 TFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYAT-GDRATAYNIFELGLLK--FPDSTLYKEKYL  473 (660)
T ss_pred             hhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHhc-CCcchHHHHHHHHHHh--CCCchHHHHHHH
Confidence            3467778888777777888899998888888 57778888888887765 6677777777654432  3555555 4677


Q ss_pred             HHHHccCCHHHHHHHHHHHHhCCCC--CCHHHHHHHHHHHHhcCcHHHHh
Q 039637          108 FHLGKMRAHSEALSVYNMLRYSKRS--MCKALHEKILHILISGKLLKDAY  155 (159)
Q Consensus       108 ~~~~~~g~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~  155 (159)
                      ..+.+.++-+.|..+|+..... +.  .-..+|..+|.-=.+-|++..++
T Consensus       474 ~fLi~inde~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~  522 (660)
T COG5107         474 LFLIRINDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVY  522 (660)
T ss_pred             HHHHHhCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHH
Confidence            7788888888888888844321 11  12467888888888888875554

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

Probab=96.87  E-value=0.07  Score=38.22  Aligned_cols=123  Identities=13%  Similarity=0.101  Sum_probs=84.9

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhC-----CCC---------CCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAK-----YDK---------YDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTF   68 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~-----~~~---------~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~   68 (159)
                      +.|.+.|++..|...|++..+.     +..         .-..+++.+.-++.+.+++.+|+..-++.+..+ ++|.-..
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            4678889999999998875432     111         123356777778888888998888888887754 3455555


Q ss_pred             HHHHHHHHccChHHHHHHHHHHHHHcCCCC-cHHHHHHHHHHHHccCCHH-HHHHHHHHHHh
Q 039637           69 HILIKYFCKEKMYMLAYRTMVDMHRKGHQP-EEELCSSLIFHLGKMRAHS-EALSVYNMLRY  128 (159)
Q Consensus        69 ~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~-~~~~~~~li~~~~~~g~~~-~a~~~~~~~~~  128 (159)
                      -.--.++...++++.|+..|+.+++.  .| |..+-+.++.+-.+..... ...++|..|-.
T Consensus       295 yRrG~A~l~~~e~~~A~~df~ka~k~--~P~Nka~~~el~~l~~k~~~~~~kekk~y~~mF~  354 (397)
T KOG0543|consen  295 YRRGQALLALGEYDLARDDFQKALKL--EPSNKAARAELIKLKQKIREYEEKEKKMYANMFA  354 (397)
T ss_pred             HHHHHHHHhhccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            55777888889999999999988875  44 4445556666555554444 34667777764

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=96.79  E-value=0.13  Score=38.17  Aligned_cols=90  Identities=12%  Similarity=-0.001  Sum_probs=63.4

Q ss_pred             HHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHH
Q 039637           38 CAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHS  117 (159)
Q Consensus        38 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~  117 (159)
                      +.+.+.|++..|+..|.+++... +-|...|+...-+|.+.+.+..|++--+...+.. ++....|..=..++.-..+++
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 NEAFKKGDYPEAVKHYTEAIKRD-PEDARLYSNRAACYLKLGEYPEALKDAKKCIELD-PNFIKAYLRKGAALRAMKEYD  443 (539)
T ss_pred             HHHHhccCHHHHHHHHHHHHhcC-CchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-chHHHHHHHHHHHHHHHHHHH
Confidence            45677888888888888887754 3356788888888888888888887766666652 334445544455555566788


Q ss_pred             HHHHHHHHHHhC
Q 039637          118 EALSVYNMLRYS  129 (159)
Q Consensus       118 ~a~~~~~~~~~~  129 (159)
                      +|...|++....
T Consensus       444 kAleay~eale~  455 (539)
T KOG0548|consen  444 KALEAYQEALEL  455 (539)
T ss_pred             HHHHHHHHHHhc
Confidence            888888877754

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=96.78  E-value=0.022  Score=32.37  Aligned_cols=48  Identities=13%  Similarity=0.158  Sum_probs=29.6

Q ss_pred             ChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHH
Q 039637           45 DMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMH   92 (159)
Q Consensus        45 ~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~   92 (159)
                      |..++.+-++.+....+.|++....+.+++|.+.+|+.-|.++++-++
T Consensus        22 D~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK   69 (103)
T cd00923          22 DGWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIK   69 (103)
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            455555666666666666666666666666666666666666666555

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=96.77  E-value=0.054  Score=34.74  Aligned_cols=98  Identities=14%  Similarity=0.120  Sum_probs=70.5

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC--hhhHHHHHHHHHccChHHHHHHHHHHHHHc---CCCCcHHHHHH
Q 039637           31 VLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD--YNTFHILIKYFCKEKMYMLAYRTMVDMHRK---GHQPEEELCSS  105 (159)
Q Consensus        31 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~--~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~---g~~~~~~~~~~  105 (159)
                      ..+..+.+.|++.|+.++|.+.|.++.+....|.  ...+-.++......+++..+.....+....   |..++...--.
T Consensus        37 ~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk  116 (177)
T PF10602_consen   37 MALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLK  116 (177)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHH
Confidence            5788999999999999999999999998765554  356678888889999999999888777643   22222221111


Q ss_pred             HHHH--HHccCCHHHHHHHHHHHHh
Q 039637          106 LIFH--LGKMRAHSEALSVYNMLRY  128 (159)
Q Consensus       106 li~~--~~~~g~~~~a~~~~~~~~~  128 (159)
                      +..+  +...+++..|.+.|-+...
T Consensus       117 ~~~gL~~l~~r~f~~AA~~fl~~~~  141 (177)
T PF10602_consen  117 VYEGLANLAQRDFKEAAELFLDSLS  141 (177)
T ss_pred             HHHHHHHHHhchHHHHHHHHHccCc
Confidence            2222  3346899999988876653

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.

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.77  E-value=0.027  Score=39.02  Aligned_cols=149  Identities=16%  Similarity=0.142  Sum_probs=94.1

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHH-HHHHHHccChHH
Q 039637            4 AFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHI-LIKYFCKEKMYM   82 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~-ll~~~~~~~~~~   82 (159)
                      .+.+..+++.|++++....++.+. +....+.+..+|....++..|-+.++++...  -|...-|.. -....-+.+.+.
T Consensus        19 ~lI~d~ry~DaI~~l~s~~Er~p~-~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql--~P~~~qYrlY~AQSLY~A~i~A   95 (459)
T KOG4340|consen   19 RLIRDARYADAIQLLGSELERSPR-SRAGLSLLGYCYYRLQEFALAAECYEQLGQL--HPELEQYRLYQAQSLYKACIYA   95 (459)
T ss_pred             HHHHHhhHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--ChHHHHHHHHHHHHHHHhcccH
Confidence            347788899999999888777554 8888899999999999999999999998873  454444421 112223334445


Q ss_pred             HHHHHHHHHHHc------------------CCC----------C---cHHHHHHHHHHHHccCCHHHHHHHHHHHHhC-C
Q 039637           83 LAYRTMVDMHRK------------------GHQ----------P---EEELCSSLIFHLGKMRAHSEALSVYNMLRYS-K  130 (159)
Q Consensus        83 ~a~~~~~~m~~~------------------g~~----------~---~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-~  130 (159)
                      .|+++...|...                  +.-          |   +..+.+...-...+.|+.+.|.+-|+...+- |
T Consensus        96 DALrV~~~~~D~~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en~Ad~~in~gCllykegqyEaAvqkFqaAlqvsG  175 (459)
T KOG4340|consen   96 DALRVAFLLLDNPALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSENEADGQINLGCLLYKEGQYEAAVQKFQAALQVSG  175 (459)
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHHhcccccCcchHHHHHhccCCCccchhccchheeeccccHHHHHHHHHHHHhhcC
Confidence            555554444320                  000          1   1222222222334678999999999977654 5


Q ss_pred             CCCCHHHHHHHHHHHHhcCcHHHHhhh
Q 039637          131 RSMCKALHEKILHILISGKLLKDAYIV  157 (159)
Q Consensus       131 ~~~~~~~~~~l~~~~~~~g~~~~A~~~  157 (159)
                      ..| ...|+..+. ..+.|+.+.|.+.
T Consensus       176 yqp-llAYniALa-Hy~~~qyasALk~  200 (459)
T KOG4340|consen  176 YQP-LLAYNLALA-HYSSRQYASALKH  200 (459)
T ss_pred             CCc-hhHHHHHHH-HHhhhhHHHHHHH
Confidence            554 457766554 4456777777764

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.76  E-value=0.12  Score=37.13  Aligned_cols=154  Identities=13%  Similarity=0.014  Sum_probs=93.4

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCC---CCCCHHHHHHHHHHHHh---cCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKY---DKYDVVLLNSMLCAYCR---TGDMESVMHVMRKLDELAISPDYNTFHILIKYFC   76 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~---~~~~~~~~~~ll~~~~~---~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~   76 (159)
                      -.|....+++.-.++.+.+....   +.-.+.+--...-++-+   .|+.++|++++..+....-.++..||..+-..|-
T Consensus       149 lSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL~GRIyK  228 (374)
T PF13281_consen  149 LSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGLLGRIYK  228 (374)
T ss_pred             HHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHHHHHHHH
Confidence            35677788888889988887641   11122333344455666   8899999999998776666788888887776652


Q ss_pred             c---------cChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCC----HHHHHHHH---HH-HHhC---CCCCCHH
Q 039637           77 K---------EKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRA----HSEALSVY---NM-LRYS---KRSMCKA  136 (159)
Q Consensus        77 ~---------~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~----~~~a~~~~---~~-~~~~---~~~~~~~  136 (159)
                      .         ...+++|+.+|.+-.+..  ||...--.++..+...|.    -.+..++-   .. +...   ....+-+
T Consensus       229 D~~~~s~~~d~~~ldkAi~~Y~kgFe~~--~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~~~~dYW  306 (374)
T PF13281_consen  229 DLFLESNFTDRESLDKAIEWYRKGFEIE--PDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLEKMQDYW  306 (374)
T ss_pred             HHHHHcCccchHHHHHHHHHHHHHHcCC--ccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhccccccccHH
Confidence            2         234677888777666543  443222222222333332    12222222   11 1112   2345677


Q ss_pred             HHHHHHHHHHhcCcHHHHhhhh
Q 039637          137 LHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus       137 ~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      .+..++.+.+-.|+.++|.+..
T Consensus       307 d~ATl~Ea~vL~~d~~ka~~a~  328 (374)
T PF13281_consen  307 DVATLLEASVLAGDYEKAIQAA  328 (374)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHH
Confidence            8889999999999998887653

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

Probab=96.75  E-value=0.082  Score=37.89  Aligned_cols=112  Identities=9%  Similarity=-0.024  Sum_probs=82.5

Q ss_pred             HHHHhcCChHHHHHHHHHhHhc-----CCC---------CChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHH
Q 039637           38 CAYCRTGDMESVMHVMRKLDEL-----AIS---------PDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELC  103 (159)
Q Consensus        38 ~~~~~~~~~~~a~~~~~~m~~~-----~~~---------~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~  103 (159)
                      +.|.+.|++..|...|++.+..     +..         .-..++..+.-++.+.+++..|++.-++.+..+ +.|+-..
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            4678899999998888875542     111         224567788889999999999999999999875 4677777


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcH
Q 039637          104 SSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLL  151 (159)
Q Consensus       104 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  151 (159)
                      -.=..+|...|+++.|+..|+++..- .|-|..+-+.++.+-.+....
T Consensus       295 yRrG~A~l~~~e~~~A~~df~ka~k~-~P~Nka~~~el~~l~~k~~~~  341 (397)
T KOG0543|consen  295 YRRGQALLALGEYDLARDDFQKALKL-EPSNKAARAELIKLKQKIREY  341 (397)
T ss_pred             HHHHHHHHhhccHHHHHHHHHHHHHh-CCCcHHHHHHHHHHHHHHHHH
Confidence            77889999999999999999999863 233444544555444444333

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=96.74  E-value=0.061  Score=42.31  Aligned_cols=137  Identities=9%  Similarity=0.004  Sum_probs=84.4

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcC---------CCCChhhHHHHHHH
Q 039637            4 AFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA---------ISPDYNTFHILIKY   74 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~---------~~~~~~~~~~ll~~   74 (159)
                      .|..-|+++.|.+-++.++      +..+|..|...|.+..+.+-|.-.+..|....         -.|+ .+=..+.-.
T Consensus       737 fyvtiG~MD~AfksI~~Ik------S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~-e~eakvAvL  809 (1416)
T KOG3617|consen  737 FYVTIGSMDAAFKSIQFIK------SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGE-EDEAKVAVL  809 (1416)
T ss_pred             EEEEeccHHHHHHHHHHHh------hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCc-chhhHHHHH
Confidence            3566788888877766554      66789999999999888888887777776531         1222 111122222


Q ss_pred             HHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHH
Q 039637           75 FCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDA  154 (159)
Q Consensus        75 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  154 (159)
                      ....|.+++|+.+|.+-.+.         ..|=..|...|.+++|.++-+.--   -..-..||.....-+-..++.+.|
T Consensus       810 AieLgMlEeA~~lYr~ckR~---------DLlNKlyQs~g~w~eA~eiAE~~D---RiHLr~Tyy~yA~~Lear~Di~~A  877 (1416)
T KOG3617|consen  810 AIELGMLEEALILYRQCKRY---------DLLNKLYQSQGMWSEAFEIAETKD---RIHLRNTYYNYAKYLEARRDIEAA  877 (1416)
T ss_pred             HHHHhhHHHHHHHHHHHHHH---------HHHHHHHHhcccHHHHHHHHhhcc---ceehhhhHHHHHHHHHhhccHHHH
Confidence            34557777887777766542         234445666777777776654221   111234666666666667777777


Q ss_pred             hhhhC
Q 039637          155 YIVVK  159 (159)
Q Consensus       155 ~~~~~  159 (159)
                      ++.|+
T Consensus       878 leyyE  882 (1416)
T KOG3617|consen  878 LEYYE  882 (1416)
T ss_pred             HHHHH
Confidence            66653

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=96.73  E-value=0.036  Score=44.12  Aligned_cols=85  Identities=14%  Similarity=0.094  Sum_probs=65.9

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHH--HHccChHH
Q 039637            5 FCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKY--FCKEKMYM   82 (159)
Q Consensus         5 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~--~~~~~~~~   82 (159)
                      |.+.++...|...|+......|+ |...|..+..+|.+.|.+..|..+|.+...  +.|+ .+|.....+  -+..|++.
T Consensus       572 yLea~n~h~aV~~fQsALR~dPk-D~n~W~gLGeAY~~sGry~~AlKvF~kAs~--LrP~-s~y~~fk~A~~ecd~GkYk  647 (1238)
T KOG1127|consen  572 YLEAHNLHGAVCEFQSALRTDPK-DYNLWLGLGEAYPESGRYSHALKVFTKASL--LRPL-SKYGRFKEAVMECDNGKYK  647 (1238)
T ss_pred             ccCccchhhHHHHHHHHhcCCch-hHHHHHHHHHHHHhcCceehHHHhhhhhHh--cCcH-hHHHHHHHHHHHHHhhhHH
Confidence            56678888888888888776665 899999999999999999999999988776  4454 344433333  45668899


Q ss_pred             HHHHHHHHHHH
Q 039637           83 LAYRTMVDMHR   93 (159)
Q Consensus        83 ~a~~~~~~m~~   93 (159)
                      ++.+.++.+..
T Consensus       648 eald~l~~ii~  658 (1238)
T KOG1127|consen  648 EALDALGLIIY  658 (1238)
T ss_pred             HHHHHHHHHHH
Confidence            99888887763

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.73  E-value=0.052  Score=39.63  Aligned_cols=64  Identities=6%  Similarity=-0.153  Sum_probs=55.1

Q ss_pred             ChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcH----HHHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 039637           64 DYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEE----ELCSSLIFHLGKMRAHSEALSVYNMLRYS  129 (159)
Q Consensus        64 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~----~~~~~li~~~~~~g~~~~a~~~~~~~~~~  129 (159)
                      +...++.+-.+|.+.|++++|+..|++.++..  |+.    .+|..+..+|...|+.++|...+++....
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~--Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALELN--PNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            45778899999999999999999999988753  543    35889999999999999999999988764

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

Probab=96.68  E-value=0.11  Score=35.76  Aligned_cols=101  Identities=12%  Similarity=0.016  Sum_probs=77.0

Q ss_pred             hhHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC---ChHHHHHHHHHhHhcCCCCC-hhhHHHHHHHHHc
Q 039637            2 ISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTG---DMESVMHVMRKLDELAISPD-YNTFHILIKYFCK   77 (159)
Q Consensus         2 l~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~---~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~   77 (159)
                      -..|...|+...|..-|....+..++ |+..+..+..++....   +..++..+|+++..  ..|+ ..+-..|-..+..
T Consensus       163 g~~ym~~~~~~~A~~AY~~A~rL~g~-n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~--~D~~~iral~lLA~~afe  239 (287)
T COG4235         163 GRAYMALGRASDALLAYRNALRLAGD-NPEILLGLAEALYYQAGQQMTAKARALLRQALA--LDPANIRALSLLAFAAFE  239 (287)
T ss_pred             HHHHHHhcchhHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHh--cCCccHHHHHHHHHHHHH
Confidence            35789999999999999998876544 7778888887776543   46789999999998  4565 4555566677999


Q ss_pred             cChHHHHHHHHHHHHHcCCCCcHHHHHHHH
Q 039637           78 EKMYMLAYRTMVDMHRKGHQPEEELCSSLI  107 (159)
Q Consensus        78 ~~~~~~a~~~~~~m~~~g~~~~~~~~~~li  107 (159)
                      .|++.+|...|+.|++.. +|+ ..+..+|
T Consensus       240 ~g~~~~A~~~Wq~lL~~l-p~~-~~rr~~i  267 (287)
T COG4235         240 QGDYAEAAAAWQMLLDLL-PAD-DPRRSLI  267 (287)
T ss_pred             cccHHHHHHHHHHHHhcC-CCC-CchHHHH
Confidence            999999999999999874 333 3344444

>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=96.67  E-value=0.071  Score=33.44  Aligned_cols=107  Identities=12%  Similarity=0.107  Sum_probs=55.6

Q ss_pred             HhcCChHHHHHHHHHhHhcCCCCChhhHHHH-HHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHH
Q 039637           41 CRTGDMESVMHVMRKLDELAISPDYNTFHIL-IKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEA  119 (159)
Q Consensus        41 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l-l~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a  119 (159)
                      .+.++.+++..++.-+.-  +.|.......+ ...+.+.|+|.+|+.+|+++....  |.......|+..|....+-..-
T Consensus        21 l~~~~~~D~e~lL~ALrv--LRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~--~~~p~~kALlA~CL~~~~D~~W   96 (160)
T PF09613_consen   21 LRLGDPDDAEALLDALRV--LRPEFPELDLFDGWLHIVRGDWDDALRLLRELEERA--PGFPYAKALLALCLYALGDPSW   96 (160)
T ss_pred             HccCChHHHHHHHHHHHH--hCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccC--CCChHHHHHHHHHHHHcCChHH
Confidence            345677777777777766  45655444322 223566677777777777776543  3333444555444444332223


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHH
Q 039637          120 LSVYNMLRYSKRSMCKALHEKILHILISGKLLKDA  154 (159)
Q Consensus       120 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  154 (159)
                      ..+-+.+...+..|+.   ..++..+.+..+...|
T Consensus        97 r~~A~evle~~~d~~a---~~Lv~~Ll~~~~~~~a  128 (160)
T PF09613_consen   97 RRYADEVLESGADPDA---RALVRALLARADLEPA  128 (160)
T ss_pred             HHHHHHHHhcCCChHH---HHHHHHHHHhccccch
Confidence            3333344444433333   3455555554444433

>PRK15331 chaperone protein SicA; Provisional

Probab=96.63  E-value=0.078  Score=33.41  Aligned_cols=88  Identities=8%  Similarity=-0.033  Sum_probs=70.1

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHH
Q 039637            5 FCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLA   84 (159)
Q Consensus         5 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   84 (159)
                      +...|++++|..+|..+...++. +..-|..|..++-..+++++|.+.|......+. -|+..+-..-.++...|+.+.|
T Consensus        47 ~y~~Gk~~eA~~~F~~L~~~d~~-n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~-~dp~p~f~agqC~l~l~~~~~A  124 (165)
T PRK15331         47 FYNQGRLDEAETFFRFLCIYDFY-NPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLK-NDYRPVFFTGQCQLLMRKAAKA  124 (165)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc-CCCCccchHHHHHHHhCCHHHH
Confidence            45779999999999999887765 666677777788888999999999988776543 3444455577889999999999


Q ss_pred             HHHHHHHHHc
Q 039637           85 YRTMVDMHRK   94 (159)
Q Consensus        85 ~~~~~~m~~~   94 (159)
                      +..|......
T Consensus       125 ~~~f~~a~~~  134 (165)
T PRK15331        125 RQCFELVNER  134 (165)
T ss_pred             HHHHHHHHhC
Confidence            9999888873

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=96.62  E-value=0.18  Score=37.52  Aligned_cols=154  Identities=12%  Similarity=-0.008  Sum_probs=101.6

Q ss_pred             hhHHHhcCCHHHHHHHHHHHHhCCCCCCHH------HHHHHHHHHHh----cCChHHHHHHHHHhHhcCCCCChhhHHHH
Q 039637            2 ISAFCRSGCFEETKQLAGDFEAKYDKYDVV------LLNSMLCAYCR----TGDMESVMHVMRKLDELAISPDYNTFHIL   71 (159)
Q Consensus         2 l~~~~~~~~~~~A~~~~~~~~~~~~~~~~~------~~~~ll~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~l   71 (159)
                      ++..+=.|+-+.+++.+..-.+.+--..+.      .|...+..++.    ..+.+.|.+++..+.+.  -|+...|...
T Consensus       195 l~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~--yP~s~lfl~~  272 (468)
T PF10300_consen  195 LSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR--YPNSALFLFF  272 (468)
T ss_pred             HhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh--CCCcHHHHHH
Confidence            455566789999999988766543221222      35555555544    34678899999999884  5776666533


Q ss_pred             H-HHHHccChHHHHHHHHHHHHHcC---CCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHH-HHHH
Q 039637           72 I-KYFCKEKMYMLAYRTMVDMHRKG---HQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKIL-HILI  146 (159)
Q Consensus        72 l-~~~~~~~~~~~a~~~~~~m~~~g---~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~-~~~~  146 (159)
                      - +.+...|++++|.+.++......   .+.....+--+...+.-.+++++|...|..+.+..-- +..+|..+. .++.
T Consensus       273 ~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s~W-Ska~Y~Y~~a~c~~  351 (468)
T PF10300_consen  273 EGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKESKW-SKAFYAYLAAACLL  351 (468)
T ss_pred             HHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcccc-HHHHHHHHHHHHHH
Confidence            3 44677799999999999765321   1234445556777888999999999999999864322 455555444 4445


Q ss_pred             hcCcH-------HHHhhhh
Q 039637          147 SGKLL-------KDAYIVV  158 (159)
Q Consensus       147 ~~g~~-------~~A~~~~  158 (159)
                      ..|+.       ++|.++|
T Consensus       352 ~l~~~~~~~~~~~~a~~l~  370 (468)
T PF10300_consen  352 MLGREEEAKEHKKEAEELF  370 (468)
T ss_pred             hhccchhhhhhHHHHHHHH
Confidence            56666       6666654

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.

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=96.62  E-value=0.17  Score=37.14  Aligned_cols=140  Identities=14%  Similarity=0.131  Sum_probs=92.0

Q ss_pred             HhcCCHHHHHHHHHHHHhCCCC-C---C-HHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHH--HHcc
Q 039637            6 CRSGCFEETKQLAGDFEAKYDK-Y---D-VVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKY--FCKE   78 (159)
Q Consensus         6 ~~~~~~~~A~~~~~~~~~~~~~-~---~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~--~~~~   78 (159)
                      -+.+++.+|.++|.+..++.-. |   . ...-+.++++|...+ .+.....+....+.  .| ...|-.+..+  +-+.
T Consensus        17 qkq~~~~esEkifskI~~e~~~~~f~lkeEvl~grilnAffl~n-ld~Me~~l~~l~~~--~~-~s~~l~LF~~L~~Y~~   92 (549)
T PF07079_consen   17 QKQKKFQESEKIFSKIYDEKESSPFLLKEEVLGGRILNAFFLNN-LDLMEKQLMELRQQ--FG-KSAYLPLFKALVAYKQ   92 (549)
T ss_pred             HHHhhhhHHHHHHHHHHHHhhcchHHHHHHHHhhHHHHHHHHhh-HHHHHHHHHHHHHh--cC-CchHHHHHHHHHHHHh
Confidence            3568999999999998765322 1   1 334568888887654 55555555555542  24 3445555555  4567


Q ss_pred             ChHHHHHHHHHHHHHc--CCC------------CcHHHHHHHHHHHHccCCHHHHHHHHHHHHhC----CCCCCHHHHHH
Q 039637           79 KMYMLAYRTMVDMHRK--GHQ------------PEEELCSSLIFHLGKMRAHSEALSVYNMLRYS----KRSMCKALHEK  140 (159)
Q Consensus        79 ~~~~~a~~~~~~m~~~--g~~------------~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~~~~~~~~~  140 (159)
                      +++++|.+.+..-...  +-.            +|...-+..+.++.+.|.++++..++++|...    ...-+..+|+.
T Consensus        93 k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd~  172 (549)
T PF07079_consen   93 KEYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMYDR  172 (549)
T ss_pred             hhHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHHH
Confidence            8899998887665543  222            22223366788889999999999999888754    33467888888


Q ss_pred             HHHHHHhcC
Q 039637          141 ILHILISGK  149 (159)
Q Consensus       141 l~~~~~~~g  149 (159)
                      ++-.+.++=
T Consensus       173 ~vlmlsrSY  181 (549)
T PF07079_consen  173 AVLMLSRSY  181 (549)
T ss_pred             HHHHHhHHH
Confidence            777776643

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

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

Probab=96.61  E-value=0.02  Score=32.87  Aligned_cols=50  Identities=14%  Similarity=0.169  Sum_probs=27.7

Q ss_pred             ChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHc
Q 039637           45 DMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRK   94 (159)
Q Consensus        45 ~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~   94 (159)
                      |..+...-++.+....+.|++....+.+++|.+.+++.-|.++++-+..+
T Consensus        25 D~we~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K   74 (108)
T PF02284_consen   25 DGWELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDK   74 (108)
T ss_dssp             -HHHHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            34455555666666666666666666666666666666666666666543

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 ....

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=96.59  E-value=0.12  Score=34.97  Aligned_cols=125  Identities=12%  Similarity=0.113  Sum_probs=84.4

Q ss_pred             hhHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh--c---------------CC---hHHHHHHHHHhHhcCC
Q 039637            2 ISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCR--T---------------GD---MESVMHVMRKLDELAI   61 (159)
Q Consensus         2 l~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~--~---------------~~---~~~a~~~~~~m~~~~~   61 (159)
                      ..++.+.+++++|...|++..+..|.-....|...+.+.+.  .               .|   ..+|...|+.+++.  
T Consensus        76 a~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y~~g~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~--  153 (243)
T PRK10866         76 IYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLYMRGLTNMALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRG--  153 (243)
T ss_pred             HHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHHHHHHhhhhcchhhhhhccCCCccccCHHHHHHHHHHHHHHHHH--
Confidence            45678999999999999999988766444455555555431  1               12   23566777777764  


Q ss_pred             CCChhhH------------------HHHHHHHHccChHHHHHHHHHHHHHc--CCCCcHHHHHHHHHHHHccCCHHHHHH
Q 039637           62 SPDYNTF------------------HILIKYFCKEKMYMLAYRTMVDMHRK--GHQPEEELCSSLIFHLGKMRAHSEALS  121 (159)
Q Consensus        62 ~~~~~~~------------------~~ll~~~~~~~~~~~a~~~~~~m~~~--g~~~~~~~~~~li~~~~~~g~~~~a~~  121 (159)
                      -|+..-.                  -.+.+-|.+.|.+..|..-++.+.+.  +.+........++.+|...|..++|..
T Consensus       154 yP~S~ya~~A~~rl~~l~~~la~~e~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~  233 (243)
T PRK10866        154 YPNSQYTTDATKRLVFLKDRLAKYELSVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADK  233 (243)
T ss_pred             CcCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHH
Confidence            2432111                  12344577888888888888888865  222345566788899999999999998


Q ss_pred             HHHHHHh
Q 039637          122 VYNMLRY  128 (159)
Q Consensus       122 ~~~~~~~  128 (159)
                      +...+..
T Consensus       234 ~~~~l~~  240 (243)
T PRK10866        234 VAKIIAA  240 (243)
T ss_pred             HHHHHhc
Confidence            8776643

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=96.58  E-value=0.072  Score=32.39  Aligned_cols=89  Identities=8%  Similarity=0.048  Sum_probs=48.7

Q ss_pred             HHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHH---HHHHHHHccCC
Q 039637           39 AYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCS---SLIFHLGKMRA  115 (159)
Q Consensus        39 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~---~li~~~~~~g~  115 (159)
                      +.+..|+.++|++.|.+.... .+-+...||.-..++.-+|+.++|++-+++.++..-.-+...+.   .-...|-..|+
T Consensus        52 alaE~g~Ld~AlE~F~qal~l-~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g~  130 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALCL-APERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGN  130 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHh-cccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCc
Confidence            445666777777777666552 12345666666666666677776666666655432111222222   22334555666


Q ss_pred             HHHHHHHHHHHHh
Q 039637          116 HSEALSVYNMLRY  128 (159)
Q Consensus       116 ~~~a~~~~~~~~~  128 (159)
                      .|.|..=|+..-.
T Consensus       131 dd~AR~DFe~AA~  143 (175)
T KOG4555|consen  131 DDAARADFEAAAQ  143 (175)
T ss_pred             hHHHHHhHHHHHH
Confidence            6666666654443

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

Probab=96.57  E-value=0.08  Score=36.41  Aligned_cols=78  Identities=12%  Similarity=-0.010  Sum_probs=65.8

Q ss_pred             hhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHh-----CCCCCCHHHHHH
Q 039637           66 NTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRY-----SKRSMCKALHEK  140 (159)
Q Consensus        66 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~-----~~~~~~~~~~~~  140 (159)
                      .++..++..+...|+.+.+...++++.... +.+...|..++.+|.+.|+...|++.|+.+..     .|+.|...+...
T Consensus       154 ~~l~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~  232 (280)
T COG3629         154 KALTKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRAL  232 (280)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHH
Confidence            577888999999999999999999999864 56888999999999999999999999987764     478888877665


Q ss_pred             HHHH
Q 039637          141 ILHI  144 (159)
Q Consensus       141 l~~~  144 (159)
                      ....
T Consensus       233 y~~~  236 (280)
T COG3629         233 YEEI  236 (280)
T ss_pred             HHHH
Confidence            5555

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=96.53  E-value=0.14  Score=35.22  Aligned_cols=137  Identities=7%  Similarity=0.061  Sum_probs=83.7

Q ss_pred             CHHHHHHHHHHHHh-CCCCCCHHHHHHHHHHHHhc--CChHHHHHHHHHhHhc-CCCCChhhHHHHHHHHHccChHHHHH
Q 039637           10 CFEETKQLAGDFEA-KYDKYDVVLLNSMLCAYCRT--GDMESVMHVMRKLDEL-AISPDYNTFHILIKYFCKEKMYMLAY   85 (159)
Q Consensus        10 ~~~~A~~~~~~~~~-~~~~~~~~~~~~ll~~~~~~--~~~~~a~~~~~~m~~~-~~~~~~~~~~~ll~~~~~~~~~~~a~   85 (159)
                      .+.+|+.+|+...- ..+-.|..+-..+++.....  .....-.++.+-+... |-.++..+...++..++..++|.+-.
T Consensus       143 ~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~kl~  222 (292)
T PF13929_consen  143 IVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNKLF  222 (292)
T ss_pred             HHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHHHH
Confidence            35566666653322 22334666666666666552  2333444444444432 34567777777888888888888888


Q ss_pred             HHHHHHHHc-CCCCcHHHHHHHHHHHHccCCHHHHHHHHHHH-----HhCCCCCCHHHHHHHHHHHH
Q 039637           86 RTMVDMHRK-GHQPEEELCSSLIFHLGKMRAHSEALSVYNML-----RYSKRSMCKALHEKILHILI  146 (159)
Q Consensus        86 ~~~~~m~~~-g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~-----~~~~~~~~~~~~~~l~~~~~  146 (159)
                      +++...... +..-|...|..+|......|+..-..++.++-     +..+++.+...-.++-+.+.
T Consensus       223 ~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~GhLLwikR~~V~v~~~L~~~L~~LF~  289 (292)
T PF13929_consen  223 QFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDDGHLLWIKRNNVDVTDELRSQLSELFK  289 (292)
T ss_pred             HHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhCCCeEEeeecCCcCCHHHHHHHHHHHH
Confidence            877776654 45557778888888888888888777766532     23456666655444444443

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=96.50  E-value=0.17  Score=37.70  Aligned_cols=138  Identities=10%  Similarity=0.008  Sum_probs=90.0

Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHH-HHHHhcCChHHHHHHHHHhHhcC--C-CCChhhHHHHHHHHHccChHHH
Q 039637            8 SGCFEETKQLAGDFEAKYDKYDVVLLNSML-CAYCRTGDMESVMHVMRKLDELA--I-SPDYNTFHILIKYFCKEKMYML   83 (159)
Q Consensus         8 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll-~~~~~~~~~~~a~~~~~~m~~~~--~-~~~~~~~~~ll~~~~~~~~~~~   83 (159)
                      ....+.|.+++..+.++  .|+...|...- +.+...|+.++|++.|++.....  . ......+--+.-++.-..+|++
T Consensus       246 ~~~~~~a~~lL~~~~~~--yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~  323 (468)
T PF10300_consen  246 DVPLEEAEELLEEMLKR--YPNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEE  323 (468)
T ss_pred             CCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHH
Confidence            56788999999999875  45665555433 45567899999999999765321  1 1122334456677888899999


Q ss_pred             HHHHHHHHHHcCCCCcHHHHHHH-HHHHHccCCH-------HHHHHHHHHHHhC------CCCCCHHHHHHHHHHHHhc
Q 039637           84 AYRTMVDMHRKGHQPEEELCSSL-IFHLGKMRAH-------SEALSVYNMLRYS------KRSMCKALHEKILHILISG  148 (159)
Q Consensus        84 a~~~~~~m~~~g~~~~~~~~~~l-i~~~~~~g~~-------~~a~~~~~~~~~~------~~~~~~~~~~~l~~~~~~~  148 (159)
                      |.+.+..+.+..- -+..+|.-+ ..++...|+.       ++|..+|.+....      ...|-......-+.-|.+.
T Consensus       324 A~~~f~~L~~~s~-WSka~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp~l~~k~~gk~lp~E~Fv~RK~~~~~~~  401 (468)
T PF10300_consen  324 AAEYFLRLLKESK-WSKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVPKLKQKKAGKSLPLEKFVIRKAQKYEKQ  401 (468)
T ss_pred             HHHHHHHHHhccc-cHHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHHHHHhhhccCCCChHHHHHHHHHHHHhc
Confidence            9999999997642 344555433 3444556777       8899988876531      1223333334555555554

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.

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=96.45  E-value=0.019  Score=27.51  Aligned_cols=27  Identities=11%  Similarity=-0.041  Sum_probs=16.4

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHh
Q 039637          102 LCSSLIFHLGKMRAHSEALSVYNMLRY  128 (159)
Q Consensus       102 ~~~~li~~~~~~g~~~~a~~~~~~~~~  128 (159)
                      ++..+...|.+.|++++|.++|++..+
T Consensus         3 ~~~~la~~~~~~G~~~~A~~~~~~~l~   29 (44)
T PF13428_consen    3 AWLALARAYRRLGQPDEAERLLRRALA   29 (44)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            445556666666666666666666654

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=96.43  E-value=0.2  Score=35.65  Aligned_cols=149  Identities=10%  Similarity=0.072  Sum_probs=82.5

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHH--------
Q 039637            4 AFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYF--------   75 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~--------   75 (159)
                      .+...|+...|.+...++.+-.+ .|...|..-..+|...|++..|+.=++...+..- .++.++--+-..+        
T Consensus       164 s~~~~GD~~~ai~~i~~llEi~~-Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs~-DnTe~~ykis~L~Y~vgd~~~  241 (504)
T KOG0624|consen  164 SASGSGDCQNAIEMITHLLEIQP-WDASLRQARAKCYIAEGEPKKAIHDLKQASKLSQ-DNTEGHYKISQLLYTVGDAEN  241 (504)
T ss_pred             HHhcCCchhhHHHHHHHHHhcCc-chhHHHHHHHHHHHhcCcHHHHHHHHHHHHhccc-cchHHHHHHHHHHHhhhhHHH
Confidence            45556777777777777776443 3677777777777777777776655544433211 1222221122222        


Q ss_pred             --------------------------------------HccChHHHHHHHHHHHHHcCCCC---cHHHHHHHHHHHHccC
Q 039637           76 --------------------------------------CKEKMYMLAYRTMVDMHRKGHQP---EEELCSSLIFHLGKMR  114 (159)
Q Consensus        76 --------------------------------------~~~~~~~~a~~~~~~m~~~g~~~---~~~~~~~li~~~~~~g  114 (159)
                                                            ...++|.++++-.+.+.+...+.   ....+..+-.++..-|
T Consensus       242 sL~~iRECLKldpdHK~Cf~~YKklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~  321 (504)
T KOG0624|consen  242 SLKEIRECLKLDPDHKLCFPFYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDE  321 (504)
T ss_pred             HHHHHHHHHccCcchhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccC
Confidence                                                  23344555555555444433221   1223445566666778


Q ss_pred             CHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCcHHHHhh
Q 039637          115 AHSEALSVYNMLRYSKRSMC-KALHEKILHILISGKLLKDAYI  156 (159)
Q Consensus       115 ~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~  156 (159)
                      ++-+|++...+...  +.|| ..++.-=..+|.-...+|+|+.
T Consensus       322 ~~~eAiqqC~evL~--~d~~dv~~l~dRAeA~l~dE~YD~AI~  362 (504)
T KOG0624|consen  322 QFGEAIQQCKEVLD--IDPDDVQVLCDRAEAYLGDEMYDDAIH  362 (504)
T ss_pred             CHHHHHHHHHHHHh--cCchHHHHHHHHHHHHhhhHHHHHHHH
Confidence            88888888887774  2333 5555555566666666666654

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

Probab=96.43  E-value=0.043  Score=31.58  Aligned_cols=64  Identities=11%  Similarity=0.052  Sum_probs=42.3

Q ss_pred             hHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 039637           80 MYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHI  144 (159)
Q Consensus        80 ~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  144 (159)
                      |.-+..+-++.+....+.|++.+..+.+++|-+.+++..|.++|+.++.. ..+....|..+++-
T Consensus        25 D~we~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K-~~~~~~~Y~~~lqE   88 (108)
T PF02284_consen   25 DGWELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDK-CGNKKEIYPYILQE   88 (108)
T ss_dssp             -HHHHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TTT-TTHHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-ccChHHHHHHHHHH
Confidence            44466777788887778888888888888888888888888888877752 22222367666654

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 ....

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=96.39  E-value=0.011  Score=28.38  Aligned_cols=28  Identities=21%  Similarity=0.293  Sum_probs=18.9

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHhHhc
Q 039637           32 LLNSMLCAYCRTGDMESVMHVMRKLDEL   59 (159)
Q Consensus        32 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~   59 (159)
                      +|..+..+|.+.|++++|.++|++.++.
T Consensus         3 ~~~~la~~~~~~G~~~~A~~~~~~~l~~   30 (44)
T PF13428_consen    3 AWLALARAYRRLGQPDEAERLLRRALAL   30 (44)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            4556666777777777777777776663

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=96.36  E-value=0.0018  Score=39.76  Aligned_cols=84  Identities=15%  Similarity=0.171  Sum_probs=59.8

Q ss_pred             ChhHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccCh
Q 039637            1 MISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKM   80 (159)
Q Consensus         1 ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~   80 (159)
                      +|+.+.+.+.++.+..+++.+...+...+....+.++..|++.++.++++++++.       .+..-...++..|.+.|.
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~-------~~~yd~~~~~~~c~~~~l   85 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKT-------SNNYDLDKALRLCEKHGL   85 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTS-------SSSS-CTHHHHHHHTTTS
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHccc-------ccccCHHHHHHHHHhcch
Confidence            4667777888888888888888776666788899999999999887888887762       222333456677777777


Q ss_pred             HHHHHHHHHHH
Q 039637           81 YMLAYRTMVDM   91 (159)
Q Consensus        81 ~~~a~~~~~~m   91 (159)
                      ++++.-++.++
T Consensus        86 ~~~a~~Ly~~~   96 (143)
T PF00637_consen   86 YEEAVYLYSKL   96 (143)
T ss_dssp             HHHHHHHHHCC
T ss_pred             HHHHHHHHHHc
Confidence            77776666554

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.

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

Probab=96.28  E-value=0.12  Score=31.53  Aligned_cols=124  Identities=8%  Similarity=0.073  Sum_probs=70.8

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhc-C----------------CCCChhh
Q 039637            5 FCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDEL-A----------------ISPDYNT   67 (159)
Q Consensus         5 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-~----------------~~~~~~~   67 (159)
                      +.-.|.+++..++..+...+.   +..-+|-+|.--...-+=+-+.++++..-+. .                ...+...
T Consensus        12 ~ildG~V~qGveii~k~v~Ss---ni~E~NWvICNiiDaa~C~yvv~~LdsIGkiFDis~C~NlKrVi~C~~~~n~~se~   88 (161)
T PF09205_consen   12 RILDGDVKQGVEIIEKTVNSS---NIKEYNWVICNIIDAADCDYVVETLDSIGKIFDISKCGNLKRVIECYAKRNKLSEY   88 (161)
T ss_dssp             HHHTT-HHHHHHHHHHHHHHS----HHHHTHHHHHHHHH--HHHHHHHHHHHGGGS-GGG-S-THHHHHHHHHTT---HH
T ss_pred             HHHhchHHHHHHHHHHHcCcC---CccccceeeeecchhhchhHHHHHHHHHhhhcCchhhcchHHHHHHHHHhcchHHH
Confidence            345688999999998887642   3334444443333332223333333332221 0                0123344


Q ss_pred             HHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCC
Q 039637           68 FHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRS  132 (159)
Q Consensus        68 ~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  132 (159)
                      +...++....+|+-+...+++..+.+.+ .+++...-.+..+|.+.|+..++..++++.-+.|.+
T Consensus        89 vD~ALd~lv~~~kkDqLdki~~~l~kn~-~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~k  152 (161)
T PF09205_consen   89 VDLALDILVKQGKKDQLDKIYNELKKNE-EINPEFLVKIANAYKKLGNTREANELLKEACEKGLK  152 (161)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-H
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHhhcc-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhchH
Confidence            5567777788888888888888887643 577778888899999999999999998888776654

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

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.25  E-value=0.15  Score=32.59  Aligned_cols=129  Identities=10%  Similarity=0.051  Sum_probs=90.1

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChh-hHHHHHHH--HHccCh
Q 039637            5 FCRSGCFEETKQLAGDFEAKYDKY-DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYN-TFHILIKY--FCKEKM   80 (159)
Q Consensus         5 ~~~~~~~~~A~~~~~~~~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~-~~~~ll~~--~~~~~~   80 (159)
                      +.+.|+.++|+.-|..+.+.|..- .+...-.......+.|+..+|...|.+.-...-.|-.. -...|=.+  +...|.
T Consensus        68 lA~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlraa~lLvD~gs  147 (221)
T COG4649          68 LAQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLRAAYLLVDNGS  147 (221)
T ss_pred             HHHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHHHHHHHhcccc
Confidence            356789999999999999887542 22233334456678899999999999988754444332 11222222  455688


Q ss_pred             HHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCC
Q 039637           81 YMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSM  133 (159)
Q Consensus        81 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~  133 (159)
                      ++....-.+.+-..+-+.-...-..|.-+-.+.|++.+|.+.|+.+......|
T Consensus       148 y~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~Da~ap  200 (221)
T COG4649         148 YDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIANDAQAP  200 (221)
T ss_pred             HHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHccccCc
Confidence            88877777777665555555666788888889999999999999888644333

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.19  E-value=0.23  Score=34.02  Aligned_cols=124  Identities=10%  Similarity=-0.036  Sum_probs=82.5

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCc-----HHHHHHHHH
Q 039637           34 NSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPE-----EELCSSLIF  108 (159)
Q Consensus        34 ~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~-----~~~~~~li~  108 (159)
                      ++++..+.-.|.+.-.++++++..+..-..++...+.|.+.-.+.||.+.|...|+.+.+..-..|     ..+......
T Consensus       181 y~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a~  260 (366)
T KOG2796|consen  181 YSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSAF  260 (366)
T ss_pred             HHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhhh
Confidence            444555555667777788888888765455667777888888888999999988887775432233     333334445


Q ss_pred             HHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637          109 HLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus       109 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      .|...+++..|.+.+.++...+ +.+....|.-.-+..-.|+..+|.+.+
T Consensus       261 i~lg~nn~a~a~r~~~~i~~~D-~~~~~a~NnKALcllYlg~l~DAiK~~  309 (366)
T KOG2796|consen  261 LHLGQNNFAEAHRFFTEILRMD-PRNAVANNNKALCLLYLGKLKDALKQL  309 (366)
T ss_pred             heecccchHHHHHHHhhccccC-CCchhhhchHHHHHHHHHHHHHHHHHH
Confidence            5667788888888888887543 234444455555555667777776654

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=96.14  E-value=0.43  Score=36.72  Aligned_cols=92  Identities=8%  Similarity=0.068  Sum_probs=50.1

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCC---HHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCC----------------
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYD---VVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP----------------   63 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~---~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~----------------   63 (159)
                      +.|-.+|+++.|..+|++..+-..+--   ..+|..-.+.=.+..+++.|+++.......--.|                
T Consensus       395 klYe~~~~l~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlh  474 (835)
T KOG2047|consen  395 KLYENNGDLDDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLH  474 (835)
T ss_pred             HHHHhcCcHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHH
Confidence            456778888888888887776543311   1344444444445666777777766544321110                


Q ss_pred             -ChhhHHHHHHHHHccChHHHHHHHHHHHHHc
Q 039637           64 -DYNTFHILIKYFCKEKMYMLAYRTMVDMHRK   94 (159)
Q Consensus        64 -~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~   94 (159)
                       +...|+-.++.-...|-++....+++.+.+.
T Consensus       475 rSlkiWs~y~DleEs~gtfestk~vYdriidL  506 (835)
T KOG2047|consen  475 RSLKIWSMYADLEESLGTFESTKAVYDRIIDL  506 (835)
T ss_pred             HhHHHHHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence             1223344444444445566666666666543

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.13  E-value=0.14  Score=35.84  Aligned_cols=102  Identities=13%  Similarity=0.051  Sum_probs=68.9

Q ss_pred             CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhc---CCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHH
Q 039637           25 YDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDEL---AISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEE  101 (159)
Q Consensus        25 ~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~---~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~  101 (159)
                      |.+.+..+-..++..-....+++.+...+-++..+   -..|+...+. .+.-| -.-++.+++.++..-.+.|+-||.+
T Consensus        59 g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~~-~irll-lky~pq~~i~~l~npIqYGiF~dqf  136 (418)
T KOG4570|consen   59 GLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIHT-WIRLL-LKYDPQKAIYTLVNPIQYGIFPDQF  136 (418)
T ss_pred             CCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHHH-HHHHH-HccChHHHHHHHhCcchhccccchh
Confidence            33445555666666666667788888887777653   2233333332 23333 2346678888888888888889999


Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHh
Q 039637          102 LCSSLIFHLGKMRAHSEALSVYNMLRY  128 (159)
Q Consensus       102 ~~~~li~~~~~~g~~~~a~~~~~~~~~  128 (159)
                      +++.+++.+.+.+++.+|.++.-.|..
T Consensus       137 ~~c~l~D~flk~~n~~~aa~vvt~~~~  163 (418)
T KOG4570|consen  137 TFCLLMDSFLKKENYKDAASVVTEVMM  163 (418)
T ss_pred             hHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            999999999999988888887665553

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=96.09  E-value=0.15  Score=31.05  Aligned_cols=92  Identities=17%  Similarity=0.054  Sum_probs=66.7

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCCh---hhHHHHHHHHHccCh
Q 039637            4 AFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDY---NTFHILIKYFCKEKM   80 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~---~~~~~ll~~~~~~~~   80 (159)
                      +....|+.+.|++.|......-++ ....||.-..++--.|+.++|++=+++.++..-..+.   ..|..--..|...|+
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 ALAEAGDLDGALELFGQALCLAPE-RASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGN  130 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHhccc-chHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCc
Confidence            456788999999999887765444 7888999999999999999999888888764211222   223333344667788


Q ss_pred             HHHHHHHHHHHHHcCC
Q 039637           81 YMLAYRTMVDMHRKGH   96 (159)
Q Consensus        81 ~~~a~~~~~~m~~~g~   96 (159)
                      -+.|..-|+..-+.|.
T Consensus       131 dd~AR~DFe~AA~LGS  146 (175)
T KOG4555|consen  131 DDAARADFEAAAQLGS  146 (175)
T ss_pred             hHHHHHhHHHHHHhCC
Confidence            8888888888877773

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

Probab=96.09  E-value=0.022  Score=26.06  Aligned_cols=24  Identities=25%  Similarity=0.396  Sum_probs=13.5

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHh
Q 039637           33 LNSMLCAYCRTGDMESVMHVMRKL   56 (159)
Q Consensus        33 ~~~ll~~~~~~~~~~~a~~~~~~m   56 (159)
                      |+.|.+.|.+.|++++|+++|++.
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            455556666666666666666553

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=96.08  E-value=0.38  Score=35.51  Aligned_cols=138  Identities=11%  Similarity=0.048  Sum_probs=99.0

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCC-CCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhH-HHHHHHHHccCh
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKY-DKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTF-HILIKYFCKEKM   80 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~-~~ll~~~~~~~~   80 (159)
                      +.-.+..-++.|..+|-++.+.| ..+++.+++++|..++. |++..|..+|+-=...  -||...| .-.+..+.+.++
T Consensus       405 N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~~-~d~~ta~~ifelGl~~--f~d~~~y~~kyl~fLi~ind  481 (660)
T COG5107         405 NYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYAT-GDRATAYNIFELGLLK--FPDSTLYKEKYLLFLIRIND  481 (660)
T ss_pred             HHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHhc-CCcchHHHHHHHHHHh--CCCchHHHHHHHHHHHHhCc
Confidence            34455667889999999999998 56889999999998875 5688888888653332  3665555 466777888899


Q ss_pred             HHHHHHHHHHHHHcCCCCc--HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 039637           81 YMLAYRTMVDMHRKGHQPE--EELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILI  146 (159)
Q Consensus        81 ~~~a~~~~~~m~~~g~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  146 (159)
                      -+.|..+|+.-..+ +..+  ..+|..+|+--...|++..+..+=+.+...  -|...+...+...|.
T Consensus       482 e~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~--~pQen~~evF~Sry~  546 (660)
T COG5107         482 EENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFREL--VPQENLIEVFTSRYA  546 (660)
T ss_pred             HHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHH--cCcHhHHHHHHHHHh
Confidence            99999999855433 1222  468999999999999999988887777642  234434344444443

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=96.01  E-value=0.27  Score=33.28  Aligned_cols=152  Identities=12%  Similarity=0.152  Sum_probs=98.5

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCC--CCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcC-CCCCh--hhHHHHHHHHHcc-
Q 039637            5 FCRSGCFEETKQLAGDFEAKYDK--YDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA-ISPDY--NTFHILIKYFCKE-   78 (159)
Q Consensus         5 ~~~~~~~~~A~~~~~~~~~~~~~--~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~-~~~~~--~~~~~ll~~~~~~-   78 (159)
                      -.+.|++++|.+.|+.+....+-  ....+--.++-++.+.+++++|+...++....- -.||.  ..|-..+.-+... 
T Consensus        44 ~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~YlkgLs~~~~i~  123 (254)
T COG4105          44 ELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAYYLKGLSYFFQID  123 (254)
T ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhccCC
Confidence            35789999999999999976543  234455666678889999999999999887742 23332  3333333322222 


Q ss_pred             ---ChHHH---HHHHHHHHHHc----CCCCcHHH-----------H-HHHHHHHHccCCHHHHHHHHHHHHhCCCCCC--
Q 039637           79 ---KMYML---AYRTMVDMHRK----GHQPEEEL-----------C-SSLIFHLGKMRAHSEALSVYNMLRYSKRSMC--  134 (159)
Q Consensus        79 ---~~~~~---a~~~~~~m~~~----g~~~~~~~-----------~-~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~--  134 (159)
                         +|...   |..-|+.++++    ...||...           + ..+.+.|.+.|.+..|..-++.|.+. .+-+  
T Consensus       124 ~~~rDq~~~~~A~~~f~~~i~ryPnS~Ya~dA~~~i~~~~d~LA~~Em~IaryY~kr~~~~AA~nR~~~v~e~-y~~t~~  202 (254)
T COG4105         124 DVTRDQSAARAAFAAFKELVQRYPNSRYAPDAKARIVKLNDALAGHEMAIARYYLKRGAYVAAINRFEEVLEN-YPDTSA  202 (254)
T ss_pred             ccccCHHHHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHhc-cccccc
Confidence               34444   44444555443    11122211           1 24567889999999999999999875 3323  


Q ss_pred             -HHHHHHHHHHHHhcCcHHHHhhh
Q 039637          135 -KALHEKILHILISGKLLKDAYIV  157 (159)
Q Consensus       135 -~~~~~~l~~~~~~~g~~~~A~~~  157 (159)
                       ...+-.+..+|-+-|..++|.+.
T Consensus       203 ~~eaL~~l~eaY~~lgl~~~a~~~  226 (254)
T COG4105         203 VREALARLEEAYYALGLTDEAKKT  226 (254)
T ss_pred             hHHHHHHHHHHHHHhCChHHHHHH
Confidence             33456677899999988888653

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.99  E-value=0.35  Score=34.35  Aligned_cols=149  Identities=11%  Similarity=-0.026  Sum_probs=83.0

Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHH----HHHHHHccChHHH
Q 039637            8 SGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHI----LIKYFCKEKMYML   83 (159)
Q Consensus         8 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~----ll~~~~~~~~~~~   83 (159)
                      +|+..+|...|+++.+.-|+ |...++--=++|.-.|+...-...+.+..-. ..|+...|+-    ..-++...|-+++
T Consensus       116 ~g~~h~a~~~wdklL~d~Pt-Dlla~kfsh~a~fy~G~~~~~k~ai~kIip~-wn~dlp~~sYv~GmyaFgL~E~g~y~d  193 (491)
T KOG2610|consen  116 RGKHHEAAIEWDKLLDDYPT-DLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK-WNADLPCYSYVHGMYAFGLEECGIYDD  193 (491)
T ss_pred             cccccHHHHHHHHHHHhCch-hhhhhhhhhhHHHhccchhhhhhHHHHhccc-cCCCCcHHHHHHHHHHhhHHHhccchh
Confidence            46666677777777654443 6667776667777777766666666665543 2344433332    2223445677777


Q ss_pred             HHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCC---CCCCHHHHHHHHHHHHhcCcHHHHhhhhC
Q 039637           84 AYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSK---RSMCKALHEKILHILISGKLLKDAYIVVK  159 (159)
Q Consensus        84 a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  159 (159)
                      |++.-++..+-+ +.|.-.-.++...+.-.|+..++.++..+-...-   .-.-.+.|-...-.++..+.++.|+++|+
T Consensus       194 AEk~A~ralqiN-~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIyD  271 (491)
T KOG2610|consen  194 AEKQADRALQIN-RFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYD  271 (491)
T ss_pred             HHHHHHhhccCC-CcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHH
Confidence            766665555433 2344444566666666677777766655443210   00112234444555666677777776653

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=95.92  E-value=0.014  Score=26.45  Aligned_cols=31  Identities=16%  Similarity=0.191  Sum_probs=22.3

Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHhcCChHHHH
Q 039637           19 GDFEAKYDKYDVVLLNSMLCAYCRTGDMESVM   50 (159)
Q Consensus        19 ~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~   50 (159)
                      ++..+..|. |..+|+.+...|...|++++|.
T Consensus         3 ~kAie~~P~-n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen    3 KKAIELNPN-NAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             HHHHHHCCC-CHHHHHHHHHHHHHCcCHHhhc
Confidence            344444444 7788888888888888888775

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=95.88  E-value=0.35  Score=33.48  Aligned_cols=145  Identities=12%  Similarity=0.021  Sum_probs=92.2

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHH
Q 039637            4 AFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYML   83 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~   83 (159)
                      .....|++.+|...|.......+. +...--.+.++|...|+.+.|..++..+...--.........-|....+.....+
T Consensus       143 ~~~~~e~~~~a~~~~~~al~~~~~-~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~~  221 (304)
T COG3118         143 ELIEAEDFGEAAPLLKQALQAAPE-NSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATPE  221 (304)
T ss_pred             hhhhccchhhHHHHHHHHHHhCcc-cchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCCC
Confidence            346678899999999888776555 5666778888999999999999999887764322333332233334444444443


Q ss_pred             HHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHH-HHhCCCCCCHHHHHHHHHHHHhcCcH
Q 039637           84 AYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNM-LRYSKRSMCKALHEKILHILISGKLL  151 (159)
Q Consensus        84 a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~g~~  151 (159)
                      ...+-.+.-..  +-|...--.+...+...|+.++|...+=. ++...-.-|...-..++..+.--|..
T Consensus       222 ~~~l~~~~aad--Pdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~~Rk~lle~f~~~g~~  288 (304)
T COG3118         222 IQDLQRRLAAD--PDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGEARKTLLELFEAFGPA  288 (304)
T ss_pred             HHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcHHHHHHHHHHHhcCCC
Confidence            33443444332  23666777788889999999999876554 44332233445556666666665543

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=95.80  E-value=0.54  Score=35.03  Aligned_cols=74  Identities=12%  Similarity=-0.007  Sum_probs=53.6

Q ss_pred             HHHHHHHHccChHHHHHHHHHHHHHcCCC-CcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCC-HHHHHHHH
Q 039637           69 HILIKYFCKEKMYMLAYRTMVDMHRKGHQ-PEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMC-KALHEKIL  142 (159)
Q Consensus        69 ~~ll~~~~~~~~~~~a~~~~~~m~~~g~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~l~  142 (159)
                      ..+-.++-+.|+.++|.+.+.+|.+.... .+..+...|+.++...+...++..++.+-.+...+.+ ...|++.+
T Consensus       263 rRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpkSAti~YTaAL  338 (539)
T PF04184_consen  263 RRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPKSATICYTAAL  338 (539)
T ss_pred             HHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCchHHHHHHHHH
Confidence            35666677889999999999999875322 2344777899999999999999999998754333322 33466544

The molecular function of this protein is uncertain.

>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=95.79  E-value=0.27  Score=31.53  Aligned_cols=93  Identities=12%  Similarity=0.042  Sum_probs=64.4

Q ss_pred             hhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCc--HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCC---CCHHHHHH
Q 039637           66 NTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPE--EELCSSLIFHLGKMRAHSEALSVYNMLRYSKRS---MCKALHEK  140 (159)
Q Consensus        66 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~---~~~~~~~~  140 (159)
                      ..+..+...|++.|+.+.|.+.+.++.+....+.  ...+-.+|+.....+++..+...+.+.......   .+...--.
T Consensus        37 ~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk  116 (177)
T PF10602_consen   37 MALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLK  116 (177)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHH
Confidence            5677889999999999999999999998755443  345677899999999999999998877643222   22221111


Q ss_pred             HH--HHHHhcCcHHHHhhhh
Q 039637          141 IL--HILISGKLLKDAYIVV  158 (159)
Q Consensus       141 l~--~~~~~~g~~~~A~~~~  158 (159)
                      ..  -.+...+++.+|-+.|
T Consensus       117 ~~~gL~~l~~r~f~~AA~~f  136 (177)
T PF10602_consen  117 VYEGLANLAQRDFKEAAELF  136 (177)
T ss_pred             HHHHHHHHHhchHHHHHHHH
Confidence            22  2233466777776554

This entry also matches the evolutionarily related subunit 1 of the COP9 signalosome complex (CSN) from Arabidopsis []. The 26S proteasome plays a major role in ATP-dependent degradation of ubiquitinated proteins. Substrate specificity is conferred by the regulatory particle (RP), which can dissociate into stable lid and base subcomplexes. The regulatory subunit RPN7 is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for structural integrity []. The COP9 signalosome is a conserved protein complex composed of eight subunits, where Individual subunits of the complex have been linked to various signal transduction pathways leading to gene expression and cell cycle control []. The overall organisation and the amino acid sequences of the COP9 signalosome subunits resemble the lid subcomplex of the 19 S regulatory particle for the 26 S proteasome []. COP9 subunit 1 (CSN1 or GPS1) of the COP9 complex is an essential subunit of the complex with regard to both structural integrity and functionality. The N-terminal region of subunit 1 (CSN1-N) can inhibit c-fos expression from either a transfected template or a chromosomal transgene (fos-lacZ), and may contain the activity domain that confers most of the repression functions of CSN1. The C-terminal region of subunit 1 (CSN1-C) allows integration of the protein into the COP9 signalosome.

>PF11207 DUF2989: Protein of unknown function (DUF2989); InterPro: IPR021372 Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed

Probab=95.79  E-value=0.2  Score=32.74  Aligned_cols=81  Identities=14%  Similarity=0.094  Sum_probs=60.3

Q ss_pred             HHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHh---CCCCCCHHHHHHHHHHHHhcCc
Q 039637           74 YFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRY---SKRSMCKALHEKILHILISGKL  150 (159)
Q Consensus        74 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~~~~~l~~~~~~~g~  150 (159)
                      -..+.|+ +.|.+.|-++...+.--++...-.|...| ...+.+++.+++....+   .+..+|+..+..|+..+.+.|+
T Consensus       116 ~Wsr~~d-~~A~~~fL~~E~~~~l~t~elq~aLAtyY-~krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~  193 (203)
T PF11207_consen  116 HWSRFGD-QEALRRFLQLEGTPELETAELQYALATYY-TKRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKN  193 (203)
T ss_pred             HhhccCc-HHHHHHHHHHcCCCCCCCHHHHHHHHHHH-HccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcc
Confidence            3455566 56788888888777554555555555444 47889999998886653   2447899999999999999999


Q ss_pred             HHHHhh
Q 039637          151 LKDAYI  156 (159)
Q Consensus       151 ~~~A~~  156 (159)
                      .+.|+-
T Consensus       194 ~e~AYi  199 (203)
T PF11207_consen  194 YEQAYI  199 (203)
T ss_pred             hhhhhh
Confidence            999974

>PF11207 DUF2989: Protein of unknown function (DUF2989); InterPro: IPR021372 Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed

Probab=95.77  E-value=0.28  Score=32.02  Aligned_cols=74  Identities=11%  Similarity=0.069  Sum_probs=57.6

Q ss_pred             hHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHc---CCCCcHHHHHHHHHHHHccCCHHHHH
Q 039637           46 MESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRK---GHQPEEELCSSLIFHLGKMRAHSEAL  120 (159)
Q Consensus        46 ~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~---g~~~~~~~~~~li~~~~~~g~~~~a~  120 (159)
                      -++|...|-.+...+.--+...-..|...|. ..+.+++..++.+.++.   +..+|+..+..|++.|-+.|+.+.|.
T Consensus       122 d~~A~~~fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~AY  198 (203)
T PF11207_consen  122 DQEALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQAY  198 (203)
T ss_pred             cHHHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhhhh
Confidence            3567777777877766555555555555555 68899999999888853   34688999999999999999999886

>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=95.76  E-value=0.11  Score=31.63  Aligned_cols=86  Identities=9%  Similarity=0.058  Sum_probs=60.2

Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHH
Q 039637            6 CRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAY   85 (159)
Q Consensus         6 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~   85 (159)
                      ..+|+.......+-.+     ..+....+..++.....|+-+...+++.++.+.+ .+++...-.+..+|.+.|+..++.
T Consensus        67 s~C~NlKrVi~C~~~~-----n~~se~vD~ALd~lv~~~kkDqLdki~~~l~kn~-~~~p~~L~kia~Ay~klg~~r~~~  140 (161)
T PF09205_consen   67 SKCGNLKRVIECYAKR-----NKLSEYVDLALDILVKQGKKDQLDKIYNELKKNE-EINPEFLVKIANAYKKLGNTREAN  140 (161)
T ss_dssp             GG-S-THHHHHHHHHT-----T---HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHH
T ss_pred             hhhcchHHHHHHHHHh-----cchHHHHHHHHHHHHHhccHHHHHHHHHHHhhcc-CCCHHHHHHHHHHHHHhcchhhHH
Confidence            4567777777776443     2355677888999999999999999999987643 577778888999999999999999


Q ss_pred             HHHHHHHHcCCC
Q 039637           86 RTMVDMHRKGHQ   97 (159)
Q Consensus        86 ~~~~~m~~~g~~   97 (159)
                      +++.+.=+.|.+
T Consensus       141 ell~~ACekG~k  152 (161)
T PF09205_consen  141 ELLKEACEKGLK  152 (161)
T ss_dssp             HHHHHHHHTT-H
T ss_pred             HHHHHHHHhchH
Confidence            999998888863

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

>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]

Probab=95.72  E-value=0.16  Score=30.57  Aligned_cols=61  Identities=7%  Similarity=0.093  Sum_probs=37.5

Q ss_pred             HHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 039637           82 MLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILH  143 (159)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  143 (159)
                      .+..+.++.+....+.|++.+...-++++-+.+++..|.++|+-++. ...+....|...++
T Consensus        66 wEvrkglN~l~~yDlVP~pkvIEaaLRA~RRvNDfa~aVRilE~iK~-K~g~~k~~Y~y~v~  126 (149)
T KOG4077|consen   66 WEVRKGLNNLFDYDLVPSPKVIEAALRACRRVNDFATAVRILEAIKD-KCGAQKQVYPYYVK  126 (149)
T ss_pred             HHHHHHHHhhhccccCCChHHHHHHHHHHHHhccHHHHHHHHHHHHH-hcccHHHHHHHHHH
Confidence            34555566666666667777777777777777777777777776664 33333344554443

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=95.71  E-value=0.43  Score=34.72  Aligned_cols=50  Identities=4%  Similarity=-0.046  Sum_probs=20.2

Q ss_pred             hcCChHHHHHHHHHhHhc---CCCCChhhHHHHHHHHHccChHHHHHHHHHHH
Q 039637           42 RTGDMESVMHVMRKLDEL---AISPDYNTFHILIKYFCKEKMYMLAYRTMVDM   91 (159)
Q Consensus        42 ~~~~~~~a~~~~~~m~~~---~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m   91 (159)
                      +.|.+..|.+.|.+.+..   .+.|+...|........+.|++++|+.--+..
T Consensus       261 k~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~A  313 (486)
T KOG0550|consen  261 KNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEA  313 (486)
T ss_pred             hccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhh
Confidence            344444444444444431   12222233333333344444444444444433

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.63  E-value=0.15  Score=35.72  Aligned_cols=85  Identities=13%  Similarity=0.091  Sum_probs=63.1

Q ss_pred             hcCCHHHHHHHHHHHHhCC---CCC--CHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChH
Q 039637            7 RSGCFEETKQLAGDFEAKY---DKY--DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMY   81 (159)
Q Consensus         7 ~~~~~~~A~~~~~~~~~~~---~~~--~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~   81 (159)
                      +..+++.+...+-++..+.   ..|  +.++|-.+    +..-++++++.++..-.+-|+-||.++++.+++.+.+.+++
T Consensus        76 ~~~~idd~~~~LyKlRhs~~a~~~~~~~~~~~irl----llky~pq~~i~~l~npIqYGiF~dqf~~c~l~D~flk~~n~  151 (418)
T KOG4570|consen   76 SREEIDDAEYYLYKLRHSPNAWYLRNWTIHTWIRL----LLKYDPQKAIYTLVNPIQYGIFPDQFTFCLLMDSFLKKENY  151 (418)
T ss_pred             cccchhHHHHHHHHHhcCcchhhhccccHHHHHHH----HHccChHHHHHHHhCcchhccccchhhHHHHHHHHHhcccH
Confidence            4567888888877776431   111  22233222    33456889999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHcC
Q 039637           82 MLAYRTMVDMHRKG   95 (159)
Q Consensus        82 ~~a~~~~~~m~~~g   95 (159)
                      .+|..+.-+|....
T Consensus       152 ~~aa~vvt~~~~qe  165 (418)
T KOG4570|consen  152 KDAASVVTEVMMQE  165 (418)
T ss_pred             HHHHHHHHHHHHHH
Confidence            99988887776543

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

Probab=95.62  E-value=0.18  Score=39.07  Aligned_cols=109  Identities=9%  Similarity=-0.000  Sum_probs=78.9

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHH
Q 039637           30 VVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFH  109 (159)
Q Consensus        30 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~  109 (159)
                      --+.+--+.-+...|+-.+|.++-.+.+    .||...|-.=+.+++..++|++.+++-+.+.      ++..|.-.+..
T Consensus       684 dlSl~dTv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~aLa~~~kweeLekfAkskk------sPIGy~PFVe~  753 (829)
T KOG2280|consen  684 DLSLHDTVTTLILIGQNKRAEQLKSDFK----IPDKRLWWLKLTALADIKKWEELEKFAKSKK------SPIGYLPFVEA  753 (829)
T ss_pred             cCcHHHHHHHHHHccchHHHHHHHHhcC----CcchhhHHHHHHHHHhhhhHHHHHHHHhccC------CCCCchhHHHH
Confidence            3345555666777888888887766654    3888888888889999999887666544332      24577778888


Q ss_pred             HHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhh
Q 039637          110 LGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIV  157 (159)
Q Consensus       110 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  157 (159)
                      |.+.|+.++|.+++.+....     .    -.+.+|.+.|++.+|.++
T Consensus       754 c~~~~n~~EA~KYiprv~~l-----~----ekv~ay~~~~~~~eAad~  792 (829)
T KOG2280|consen  754 CLKQGNKDEAKKYIPRVGGL-----Q----EKVKAYLRVGDVKEAADL  792 (829)
T ss_pred             HHhcccHHHHhhhhhccCCh-----H----HHHHHHHHhccHHHHHHH
Confidence            99999999999888665421     1    467788888888887653

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=95.59  E-value=0.32  Score=30.89  Aligned_cols=102  Identities=17%  Similarity=0.171  Sum_probs=71.9

Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHc
Q 039637           15 KQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRK   94 (159)
Q Consensus        15 ~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~   94 (159)
                      .+.++.+.+.+++|+...+..+++.+.+.|++....    ++.+.++-+|.......+-....  ....+.++--.|.++
T Consensus        14 lEYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~----qllq~~Vi~DSk~lA~~LLs~~~--~~~~~~Ql~lDMLkR   87 (167)
T PF07035_consen   14 LEYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQLH----QLLQYHVIPDSKPLACQLLSLGN--QYPPAYQLGLDMLKR   87 (167)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHH----HHHhhcccCCcHHHHHHHHHhHc--cChHHHHHHHHHHHH
Confidence            566667778899999999999999999999876654    45556676776666655544433  233445554444433


Q ss_pred             -CCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHH
Q 039637           95 -GHQPEEELCSSLIFHLGKMRAHSEALSVYNMLR  127 (159)
Q Consensus        95 -g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~  127 (159)
                       +     ..+..+++.+...|++-+|.++.+...
T Consensus        88 L~-----~~~~~iievLL~~g~vl~ALr~ar~~~  116 (167)
T PF07035_consen   88 LG-----TAYEEIIEVLLSKGQVLEALRYARQYH  116 (167)
T ss_pred             hh-----hhHHHHHHHHHhCCCHHHHHHHHHHcC
Confidence             2     145567888889999999999988764

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

Probab=95.58  E-value=0.043  Score=25.03  Aligned_cols=23  Identities=13%  Similarity=0.098  Sum_probs=10.7

Q ss_pred             HHHHHHHHHccChHHHHHHHHHH
Q 039637           68 FHILIKYFCKEKMYMLAYRTMVD   90 (159)
Q Consensus        68 ~~~ll~~~~~~~~~~~a~~~~~~   90 (159)
                      |..|-..|.+.|++++|++++++
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~   24 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQ   24 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHH
Confidence            33444445555555555555544

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.55  E-value=0.92  Score=35.95  Aligned_cols=141  Identities=14%  Similarity=0.136  Sum_probs=78.8

Q ss_pred             hhHHHhcCCHHHHHHHHHHHHhCCCCCCH--HHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccC
Q 039637            2 ISAFCRSGCFEETKQLAGDFEAKYDKYDV--VLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEK   79 (159)
Q Consensus         2 l~~~~~~~~~~~A~~~~~~~~~~~~~~~~--~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~   79 (159)
                      ++..++..-++-|..+-   +..+..++.  .......+-+.+.|++++|...|-+-... +.|     +.++.-|....
T Consensus       341 L~iL~kK~ly~~Ai~LA---k~~~~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~-----s~Vi~kfLdaq  411 (933)
T KOG2114|consen  341 LDILFKKNLYKVAINLA---KSQHLDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEP-----SEVIKKFLDAQ  411 (933)
T ss_pred             HHHHHHhhhHHHHHHHH---HhcCCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CCh-----HHHHHHhcCHH
Confidence            34566667777777664   333333221  23344445566788999998887665432 222     22444555556


Q ss_pred             hHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHh
Q 039637           80 MYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAY  155 (159)
Q Consensus        80 ~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  155 (159)
                      .....-.+++.+.+.|.. +...-..|+.+|.+.++.++-..+.+.........|.   ...+..+-+.+-+++|.
T Consensus       412 ~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL~efI~~~~~g~~~fd~---e~al~Ilr~snyl~~a~  483 (933)
T KOG2114|consen  412 RIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKLTEFISKCDKGEWFFDV---ETALEILRKSNYLDEAE  483 (933)
T ss_pred             HHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHHHHHHhcCCCcceeeeH---HHHHHHHHHhChHHHHH
Confidence            666666777777777763 4455567788888887777666655544421111122   33444444444444443

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=95.41  E-value=0.33  Score=29.92  Aligned_cols=52  Identities=19%  Similarity=0.363  Sum_probs=23.6

Q ss_pred             hcCCHHHHHHHHHHHHhCCCC--CCHHHHHHHHHHHHhcCChHHHHHHHHHhHh
Q 039637            7 RSGCFEETKQLAGDFEAKYDK--YDVVLLNSMLCAYCRTGDMESVMHVMRKLDE   58 (159)
Q Consensus         7 ~~~~~~~A~~~~~~~~~~~~~--~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~   58 (159)
                      +.|++++|.+.|+.+..+-+.  -...+--.++.+|.+.+++++|...+++..+
T Consensus        22 ~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFir   75 (142)
T PF13512_consen   22 QKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIR   75 (142)
T ss_pred             HhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            445555555555554443221  1223334444455555555555555555444

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=95.35  E-value=0.072  Score=23.66  Aligned_cols=27  Identities=22%  Similarity=0.298  Sum_probs=16.1

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHhHh
Q 039637           32 LLNSMLCAYCRTGDMESVMHVMRKLDE   58 (159)
Q Consensus        32 ~~~~ll~~~~~~~~~~~a~~~~~~m~~   58 (159)
                      +|..+..+|...|++++|+..|++..+
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            455566666666666666666666555

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 ....

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

Probab=95.32  E-value=0.16  Score=39.33  Aligned_cols=101  Identities=14%  Similarity=0.036  Sum_probs=79.4

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHH
Q 039637            4 AFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYML   83 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~   83 (159)
                      -+..-|+-.+|.++-.+.+    -||-..|-.=+.+++..++|++.+++-+.++      ++.-|...+.+|.+.|+.++
T Consensus       693 ~li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~aLa~~~kweeLekfAkskk------sPIGy~PFVe~c~~~~n~~E  762 (829)
T KOG2280|consen  693 TLILIGQNKRAEQLKSDFK----IPDKRLWWLKLTALADIKKWEELEKFAKSKK------SPIGYLPFVEACLKQGNKDE  762 (829)
T ss_pred             HHHHccchHHHHHHHHhcC----CcchhhHHHHHHHHHhhhhHHHHHHHHhccC------CCCCchhHHHHHHhcccHHH
Confidence            4556688888888866655    5799999999999999999998877765543      25788899999999999999


Q ss_pred             HHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHH
Q 039637           84 AYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVY  123 (159)
Q Consensus        84 a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~  123 (159)
                      |.+++.+.-.     .+    -.+.+|.+.|++.+|.++-
T Consensus       763 A~KYiprv~~-----l~----ekv~ay~~~~~~~eAad~A  793 (829)
T KOG2280|consen  763 AKKYIPRVGG-----LQ----EKVKAYLRVGDVKEAADLA  793 (829)
T ss_pred             HhhhhhccCC-----hH----HHHHHHHHhccHHHHHHHH
Confidence            9998875531     11    5778889999998888753

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=95.27  E-value=0.27  Score=28.11  Aligned_cols=64  Identities=11%  Similarity=0.077  Sum_probs=47.0

Q ss_pred             hHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 039637           80 MYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHI  144 (159)
Q Consensus        80 ~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  144 (159)
                      |..+..+-++.+......|++.+..+.+++|-+.+++..|.++|+.++.. ...+...|..+++-
T Consensus        22 D~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K-~~~~~~~y~~~lqe   85 (103)
T cd00923          22 DGWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDK-CGAHKEIYPYILQE   85 (103)
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-ccCchhhHHHHHHH
Confidence            55677777888887788888888888888888888888888888877642 22244466666543

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.

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=95.24  E-value=0.77  Score=33.15  Aligned_cols=125  Identities=15%  Similarity=-0.002  Sum_probs=79.1

Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc---------CChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHcc
Q 039637            8 SGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRT---------GDMESVMHVMRKLDELAISPDYNTFHILIKYFCKE   78 (159)
Q Consensus         8 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~---------~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~   78 (159)
                      .|+.++|++++..+......+++.+|..+...|-+.         ...++|.+.|.+--+  +.||..+--.+.......
T Consensus       195 ~gdre~Al~il~~~l~~~~~~~~d~~gL~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe--~~~~~Y~GIN~AtLL~~~  272 (374)
T PF13281_consen  195 PGDREKALQILLPVLESDENPDPDTLGLLGRIYKDLFLESNFTDRESLDKAIEWYRKGFE--IEPDYYSGINAATLLMLA  272 (374)
T ss_pred             CCCHHHHHHHHHHHHhccCCCChHHHHHHHHHHHHHHHHcCccchHHHHHHHHHHHHHHc--CCccccchHHHHHHHHHc
Confidence            799999999999966666667888999888877542         135677888776655  345543332233333333


Q ss_pred             ChHH----HHHHHH---HH-HHHcCCC---CcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCH
Q 039637           79 KMYM----LAYRTM---VD-MHRKGHQ---PEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCK  135 (159)
Q Consensus        79 ~~~~----~a~~~~---~~-m~~~g~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~  135 (159)
                      |+..    +..++-   .. +.+.|..   .+--.+.+++.++.-.|+.++|.+..++|.... +|..
T Consensus       273 g~~~~~~~el~~i~~~l~~llg~kg~~~~~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~-~~~W  339 (374)
T PF13281_consen  273 GHDFETSEELRKIGVKLSSLLGRKGSLEKMQDYWDVATLLEASVLAGDYEKAIQAAEKAFKLK-PPAW  339 (374)
T ss_pred             CCcccchHHHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcC-Ccch
Confidence            3211    222222   22 2234432   334445678888999999999999999998653 4443

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=95.22  E-value=0.8  Score=34.18  Aligned_cols=68  Identities=10%  Similarity=0.220  Sum_probs=46.8

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCC-ChhhHHHHH
Q 039637            5 FCRSGCFEETKQLAGDFEAKYDKY-DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP-DYNTFHILI   72 (159)
Q Consensus         5 ~~~~~~~~~A~~~~~~~~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~ll   72 (159)
                      +-+.|+.++|.+.|++|.+..+.. +..+...|++++...+.+.++..++.+.-+..... -...|+..+
T Consensus       269 arklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpkSAti~YTaAL  338 (539)
T PF04184_consen  269 ARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPKSATICYTAAL  338 (539)
T ss_pred             HHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCchHHHHHHHHH
Confidence            345688888888888887654432 34577888888888888888888888875433312 245666444

The molecular function of this protein is uncertain.

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=95.15  E-value=0.41  Score=29.51  Aligned_cols=86  Identities=13%  Similarity=-0.013  Sum_probs=59.2

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCC---ChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHH
Q 039637           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP---DYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSS  105 (159)
Q Consensus        29 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~---~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~  105 (159)
                      +...+-.-.....+.|++.+|.+.|+.+... ...   ....--.++.++.+.+++++|...+++.++......-.-|..
T Consensus         9 ~~~~ly~~a~~~l~~~~Y~~A~~~le~L~~r-yP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~   87 (142)
T PF13512_consen    9 SPQELYQEAQEALQKGNYEEAIKQLEALDTR-YPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAY   87 (142)
T ss_pred             CHHHHHHHHHHHHHhCCHHHHHHHHHHHHhc-CCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHH
Confidence            3333444445556889999999999998875 222   235556788999999999999999999998643322345555


Q ss_pred             HHHHHHccCC
Q 039637          106 LIFHLGKMRA  115 (159)
Q Consensus       106 li~~~~~~g~  115 (159)
                      .+.+++....
T Consensus        88 Y~~gL~~~~~   97 (142)
T PF13512_consen   88 YMRGLSYYEQ   97 (142)
T ss_pred             HHHHHHHHHH
Confidence            6666554443

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=94.99  E-value=0.95  Score=32.91  Aligned_cols=18  Identities=11%  Similarity=0.170  Sum_probs=12.8

Q ss_pred             HhcCCHHHHHHHHHHHHh
Q 039637            6 CRSGCFEETKQLAGDFEA   23 (159)
Q Consensus         6 ~~~~~~~~A~~~~~~~~~   23 (159)
                      .-.|+.+.|.+-|+.|..
T Consensus       131 l~eG~~~~Ar~kfeAMl~  148 (531)
T COG3898         131 LLEGDYEDARKKFEAMLD  148 (531)
T ss_pred             HhcCchHHHHHHHHHHhc
Confidence            345778888888887763

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.92  E-value=0.76  Score=31.41  Aligned_cols=89  Identities=18%  Similarity=0.148  Sum_probs=44.0

Q ss_pred             HhcCCHHHHHHHHHHHHhCCCC--CCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcC-CCCC-hhhHHHHHHHHHccChH
Q 039637            6 CRSGCFEETKQLAGDFEAKYDK--YDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA-ISPD-YNTFHILIKYFCKEKMY   81 (159)
Q Consensus         6 ~~~~~~~~A~~~~~~~~~~~~~--~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~-~~~~-~~~~~~ll~~~~~~~~~   81 (159)
                      .+.|++..|.+.|....+..+.  .....+--|.+++...|++++|...|..+.+.- -.|- ..+.--|-.+..+.|+.
T Consensus       152 ~ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l~~~  231 (262)
T COG1729         152 YKSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRLGNT  231 (262)
T ss_pred             HHcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHhcCH
Confidence            4455555555555555554332  122334445555555566666555555555431 0111 23344444455555555


Q ss_pred             HHHHHHHHHHHHc
Q 039637           82 MLAYRTMVDMHRK   94 (159)
Q Consensus        82 ~~a~~~~~~m~~~   94 (159)
                      ++|...|+++.+.
T Consensus       232 d~A~atl~qv~k~  244 (262)
T COG1729         232 DEACATLQQVIKR  244 (262)
T ss_pred             HHHHHHHHHHHHH
Confidence            5565555555543

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.90  E-value=0.93  Score=32.33  Aligned_cols=115  Identities=10%  Similarity=-0.073  Sum_probs=85.8

Q ss_pred             hcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHc---CCCCcHHHHHHHHHHHHccCCHHH
Q 039637           42 RTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRK---GHQPEEELCSSLIFHLGKMRAHSE  118 (159)
Q Consensus        42 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~---g~~~~~~~~~~li~~~~~~g~~~~  118 (159)
                      -.|+..+|-..++++.+. .+.|...+.--=++|.-.|+.......++++.-.   +.+..+.....+.-++..+|-+++
T Consensus       115 ~~g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~wn~dlp~~sYv~GmyaFgL~E~g~y~d  193 (491)
T KOG2610|consen  115 GRGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGIYDD  193 (491)
T ss_pred             ccccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhccchh
Confidence            457788888888888874 4556677777778899999988888888888754   222233344556666778899999


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637          119 ALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus       119 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      |++.-++..+-+ +.|.....++.+.+...|+..++.++.
T Consensus       194 AEk~A~ralqiN-~~D~Wa~Ha~aHVlem~~r~Keg~eFM  232 (491)
T KOG2610|consen  194 AEKQADRALQIN-RFDCWASHAKAHVLEMNGRHKEGKEFM  232 (491)
T ss_pred             HHHHHHhhccCC-CcchHHHHHHHHHHHhcchhhhHHHHH
Confidence            999988877543 456777788889999999999888764

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=94.88  E-value=1.1  Score=33.19  Aligned_cols=74  Identities=11%  Similarity=0.110  Sum_probs=33.3

Q ss_pred             HHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHH
Q 039637           39 AYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSE  118 (159)
Q Consensus        39 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~  118 (159)
                      ...+.|+++.|.+..++.      ++...|..|-+...++|+++-|++.+.+..         -+..|+-.|.-.|+.+.
T Consensus       327 LAl~lg~L~~A~~~a~~~------~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~---------d~~~L~lLy~~~g~~~~  391 (443)
T PF04053_consen  327 LALQLGNLDIALEIAKEL------DDPEKWKQLGDEALRQGNIELAEECYQKAK---------DFSGLLLLYSSTGDREK  391 (443)
T ss_dssp             HHHHCT-HHHHHHHCCCC------STHHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHH
T ss_pred             HHHhcCCHHHHHHHHHhc------CcHHHHHHHHHHHHHcCCHHHHHHHHHhhc---------CccccHHHHHHhCCHHH
Confidence            334555555554443221      344455555555555555555555554332         12233334444444444


Q ss_pred             HHHHHHHHH
Q 039637          119 ALSVYNMLR  127 (159)
Q Consensus       119 a~~~~~~~~  127 (159)
                      -.++.+...
T Consensus       392 L~kl~~~a~  400 (443)
T PF04053_consen  392 LSKLAKIAE  400 (443)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            444444333

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.

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=94.80  E-value=1.1  Score=32.63  Aligned_cols=103  Identities=12%  Similarity=0.182  Sum_probs=53.0

Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcC---------------------------
Q 039637            8 SGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA---------------------------   60 (159)
Q Consensus         8 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~---------------------------   60 (159)
                      .|..+.|.+.-+..-+.-+. -...+...+...|..|+|+.|+++.+.-++..                           
T Consensus       167 ~GareaAr~yAe~Aa~~Ap~-l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp  245 (531)
T COG3898         167 LGAREAARHYAERAAEKAPQ-LPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADP  245 (531)
T ss_pred             cccHHHHHHHHHHHHhhccC-CchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCCh
Confidence            34555555554444333222 34566666666666666666666665544321                           


Q ss_pred             ------------CCCChhh-HHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCC
Q 039637           61 ------------ISPDYNT-FHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRA  115 (159)
Q Consensus        61 ------------~~~~~~~-~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~  115 (159)
                                  +.|+..- -..--.++.+.|+..++-.+++.+.+.  .|++.++...+  +.+.|+
T Consensus       246 ~~Ar~~A~~a~KL~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~--ePHP~ia~lY~--~ar~gd  309 (531)
T COG3898         246 ASARDDALEANKLAPDLVPAAVVAARALFRDGNLRKGSKILETAWKA--EPHPDIALLYV--RARSGD  309 (531)
T ss_pred             HHHHHHHHHHhhcCCccchHHHHHHHHHHhccchhhhhhHHHHHHhc--CCChHHHHHHH--HhcCCC
Confidence                        3333211 122335566777777777777777765  34444443332  344444

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=94.79  E-value=0.41  Score=38.04  Aligned_cols=20  Identities=5%  Similarity=-0.067  Sum_probs=10.4

Q ss_pred             HHHHHHHHhcCcHHHHhhhh
Q 039637          139 EKILHILISGKLLKDAYIVV  158 (159)
Q Consensus       139 ~~l~~~~~~~g~~~~A~~~~  158 (159)
                      -.+.+.|-..|++.+|..+|
T Consensus       971 YhlaR~YEn~g~v~~Av~Ff  990 (1416)
T KOG3617|consen  971 YHLARMYENDGDVVKAVKFF  990 (1416)
T ss_pred             HHHHHHhhhhHHHHHHHHHH
Confidence            34555555555555555443

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=94.75  E-value=0.33  Score=32.29  Aligned_cols=73  Identities=18%  Similarity=0.180  Sum_probs=56.2

Q ss_pred             hhHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhc--CCCCChhhHHHHHHHH
Q 039637            2 ISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDEL--AISPDYNTFHILIKYF   75 (159)
Q Consensus         2 l~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~--~~~~~~~~~~~ll~~~   75 (159)
                      ++.+.+.++..+++...+.-++.++. |......++..+|-.|+|++|..-++-.-..  ...+-..+|..++.+-
T Consensus         8 ~seLL~~~sL~dai~~a~~qVkakPt-da~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir~e   82 (273)
T COG4455           8 ISELLDDNSLQDAIGLARDQVKAKPT-DAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIRCE   82 (273)
T ss_pred             HHHHHHhccHHHHHHHHHHHHhcCCc-cccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHHHH
Confidence            46788999999999999988888766 7888889999999999999998877665542  1223356676666653

>PRK11906 transcriptional regulator; Provisional

Probab=94.73  E-value=1.2  Score=32.91  Aligned_cols=111  Identities=9%  Similarity=-0.030  Sum_probs=79.0

Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCCh-hhHHHHHHHHHccChHHHHHH
Q 039637            8 SGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDY-NTFHILIKYFCKEKMYMLAYR   86 (159)
Q Consensus         8 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~-~~~~~ll~~~~~~~~~~~a~~   86 (159)
                      .....+|.++-+...+.+.. |......+..+..-.++++.+..+|++...  +.||. .+|...-..+.-.|+.++|.+
T Consensus       317 ~~~~~~a~~~A~rAveld~~-Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~--L~Pn~A~~~~~~~~~~~~~G~~~~a~~  393 (458)
T PRK11906        317 ELAAQKALELLDYVSDITTV-DGKILAIMGLITGLSGQAKVSHILFEQAKI--HSTDIASLYYYRALVHFHNEKIEEARI  393 (458)
T ss_pred             hHHHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHhhcchhhHHHHHHHHhh--cCCccHHHHHHHHHHHHHcCCHHHHHH
Confidence            34566788888888887766 888888888888888889999999999887  56774 455545555666799999999


Q ss_pred             HHHHHHHcCCCCc---HHHHHHHHHHHHccCCHHHHHHHHH
Q 039637           87 TMVDMHRKGHQPE---EELCSSLIFHLGKMRAHSEALSVYN  124 (159)
Q Consensus        87 ~~~~m~~~g~~~~---~~~~~~li~~~~~~g~~~~a~~~~~  124 (159)
                      .+++..+.  .|.   ..+....+..|+..+ +++|.+++-
T Consensus       394 ~i~~alrL--sP~~~~~~~~~~~~~~~~~~~-~~~~~~~~~  431 (458)
T PRK11906        394 CIDKSLQL--EPRRRKAVVIKECVDMYVPNP-LKNNIKLYY  431 (458)
T ss_pred             HHHHHhcc--CchhhHHHHHHHHHHHHcCCc-hhhhHHHHh
Confidence            99986653  343   233344455665554 666776654

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=94.59  E-value=1  Score=35.27  Aligned_cols=37  Identities=27%  Similarity=0.363  Sum_probs=21.2

Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHH
Q 039637            9 GCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMR   54 (159)
Q Consensus         9 ~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~   54 (159)
                      |.+++|.++|-.+..+         ...+..+.+.|||..+.++++
T Consensus       748 g~feeaek~yld~drr---------DLAielr~klgDwfrV~qL~r  784 (1189)
T KOG2041|consen  748 GEFEEAEKLYLDADRR---------DLAIELRKKLGDWFRVYQLIR  784 (1189)
T ss_pred             cchhHhhhhhhccchh---------hhhHHHHHhhhhHHHHHHHHH
Confidence            5566666665444432         223555666677777666654

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=94.51  E-value=0.17  Score=22.27  Aligned_cols=27  Identities=22%  Similarity=0.231  Sum_probs=14.1

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHhHh
Q 039637           32 LLNSMLCAYCRTGDMESVMHVMRKLDE   58 (159)
Q Consensus        32 ~~~~ll~~~~~~~~~~~a~~~~~~m~~   58 (159)
                      .|..+...+.+.|++++|.+.|++..+
T Consensus         3 ~~~~lg~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF07719_consen    3 AWYYLGQAYYQLGNYEEAIEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            344455555555555555555555544

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 ....

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=94.50  E-value=1  Score=31.08  Aligned_cols=86  Identities=7%  Similarity=0.025  Sum_probs=44.1

Q ss_pred             HHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH-----
Q 039637           72 IKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILI-----  146 (159)
Q Consensus        72 l~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~-----  146 (159)
                      |.+++..++|.+++.+.-+--+..-+..+.+...-|-.|.+.+.+..+..+-..=......-+..-|..++..|.     
T Consensus        90 IQALAEmnrWreVLsWvlqyYq~pEklPpkIleLCILLysKv~Ep~amlev~~~WL~~p~Nq~lp~y~~vaELyLl~VLl  169 (309)
T PF07163_consen   90 IQALAEMNRWREVLSWVLQYYQVPEKLPPKILELCILLYSKVQEPAAMLEVASAWLQDPSNQSLPEYGTVAELYLLHVLL  169 (309)
T ss_pred             HHHHHHHhhHHHHHHHHHHHhcCcccCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCcccCCchhhHHHHHHHHHHHHh
Confidence            456666677766665554443332223344555556667777776666665543332211112222444444333     


Q ss_pred             hcCcHHHHhhh
Q 039637          147 SGKLLKDAYIV  157 (159)
Q Consensus       147 ~~g~~~~A~~~  157 (159)
                      =.|.+++|+++
T Consensus       170 PLG~~~eAeel  180 (309)
T PF07163_consen  170 PLGHFSEAEEL  180 (309)
T ss_pred             ccccHHHHHHH
Confidence            35667776665

Pex26 is a type II peroxisomal membrane protein that recruits Pex6-Pex1 complexes to peroxisomes []. Mutations in Pex26 can lead to human disorders [].; GO: 0032403 protein complex binding, 0045046 protein import into peroxisome membrane, 0005779 integral to peroxisomal membrane

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=94.47  E-value=0.011  Score=36.33  Aligned_cols=108  Identities=14%  Similarity=0.138  Sum_probs=69.2

Q ss_pred             HHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCC
Q 039637           36 MLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRA  115 (159)
Q Consensus        36 ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~  115 (159)
                      ++..+.+.+.+.....+++.+...+...+....+.++..|++.+..++..++++..       +..-...++..|.+.|.
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            46677778888889999999987766677888899999999998777777776611       11122345555555565


Q ss_pred             HHHHHHHHHHHHhCC--------------------CCCCHHHHHHHHHHHHhcCc
Q 039637          116 HSEALSVYNMLRYSK--------------------RSMCKALHEKILHILISGKL  150 (159)
Q Consensus       116 ~~~a~~~~~~~~~~~--------------------~~~~~~~~~~l~~~~~~~g~  150 (159)
                      +++|..++.++....                    -.++..+|..++..|...+.
T Consensus        86 ~~~a~~Ly~~~~~~~~al~i~~~~~~~~~a~e~~~~~~~~~l~~~l~~~~l~~~~  140 (143)
T PF00637_consen   86 YEEAVYLYSKLGNHDEALEILHKLKDYEEAIEYAKKVDDPELWEQLLKYCLDSKP  140 (143)
T ss_dssp             HHHHHHHHHCCTTHTTCSSTSSSTHCSCCCTTTGGGCSSSHHHHHHHHHHCTSTC
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHccHHHHHHHHHhcCcHHHHHHHHHHHHhcCc
Confidence            655555555433211                    12445677777777766654

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.

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=94.44  E-value=0.85  Score=29.86  Aligned_cols=63  Identities=16%  Similarity=0.090  Sum_probs=45.6

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHhHhcCCC--CChhhHHHHHHHHHccChHHHHHHHHHHHHHc
Q 039637           32 LLNSMLCAYCRTGDMESVMHVMRKLDELAIS--PDYNTFHILIKYFCKEKMYMLAYRTMVDMHRK   94 (159)
Q Consensus        32 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~--~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~   94 (159)
                      ..-.....+...|++.+|...|+.+...--.  -.....-.+..++.+.|+++.|...+++..+.
T Consensus         7 ~lY~~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~   71 (203)
T PF13525_consen    7 ALYQKALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKL   71 (203)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            3334455667899999999999999976321  11344556788899999999999999998875

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.44  E-value=1  Score=30.67  Aligned_cols=54  Identities=13%  Similarity=-0.018  Sum_probs=32.0

Q ss_pred             HHHHHHHHccCCHHHHHHHHHHH---HhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637          104 SSLIFHLGKMRAHSEALSVYNML---RYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus       104 ~~li~~~~~~g~~~~a~~~~~~~---~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      -..|-.|.-..++..|.+.++.-   .....+-+..+...|+.+| ..|+.+++.+++
T Consensus       194 va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ay-d~gD~E~~~kvl  250 (308)
T KOG1585|consen  194 VAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAY-DEGDIEEIKKVL  250 (308)
T ss_pred             HHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHh-ccCCHHHHHHHH
Confidence            33444455556777777777763   3333344556667777776 356666666554

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=94.24  E-value=0.2  Score=23.12  Aligned_cols=26  Identities=23%  Similarity=0.372  Sum_probs=12.5

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHhH
Q 039637           32 LLNSMLCAYCRTGDMESVMHVMRKLD   57 (159)
Q Consensus        32 ~~~~ll~~~~~~~~~~~a~~~~~~m~   57 (159)
                      +++.+...|...|++++|..++.+..
T Consensus         4 ~~~~la~~~~~~g~~~~A~~~~~~al   29 (42)
T PF13374_consen    4 ALNNLANAYRAQGRYEEALELLEEAL   29 (42)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcchhhHHHHHHH
Confidence            44445555555555555555554443

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=94.20  E-value=0.87  Score=28.99  Aligned_cols=149  Identities=13%  Similarity=-0.026  Sum_probs=60.5

Q ss_pred             HhcCCHHHHHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHH-HHHccChHHH
Q 039637            6 CRSGCFEETKQLAGDFEAK-YDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIK-YFCKEKMYML   83 (159)
Q Consensus         6 ~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~-~~~~~~~~~~   83 (159)
                      ...+++..+...+...... ........+......+...+++..+...+.........+ ......... .+...|+++.
T Consensus        70 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~  148 (291)
T COG0457          70 LKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDP-DLAEALLALGALYELGDYEE  148 (291)
T ss_pred             HHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCc-chHHHHHHHHHHHHcCCHHH
Confidence            3344444444444444321 112233444444444455555555555555554422211 111111122 4455555555


Q ss_pred             HHHHHHHHHHcCC--CCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHh
Q 039637           84 AYRTMVDMHRKGH--QPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAY  155 (159)
Q Consensus        84 a~~~~~~m~~~g~--~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  155 (159)
                      +...+.+......  ......+......+...++.+.+...+..............+..+-..+...++++.|.
T Consensus       149 a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  222 (291)
T COG0457         149 ALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALKLNPDDDAEALLNLGLLYLKLGKYEEAL  222 (291)
T ss_pred             HHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhCcccchHHHHHhhHHHHHcccHHHHH
Confidence            5555555533111  01122222223334444555555555554443211112334444444444444444443

>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]

Probab=94.19  E-value=0.7  Score=27.91  Aligned_cols=83  Identities=10%  Similarity=0.097  Sum_probs=59.9

Q ss_pred             hCCCCCCHHHHHHHHHHHHhc--CChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcH
Q 039637           23 AKYDKYDVVLLNSMLCAYCRT--GDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEE  100 (159)
Q Consensus        23 ~~~~~~~~~~~~~ll~~~~~~--~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~  100 (159)
                      ..|.+ +..-++.--.-|...  -|..+..+.++.+..-.+.|++.....-+.+|.+.+|+.-|.++|+-++.+ +.+..
T Consensus        41 ~hg~e-t~EEfd~ry~~yf~r~~iD~wEvrkglN~l~~yDlVP~pkvIEaaLRA~RRvNDfa~aVRilE~iK~K-~g~~k  118 (149)
T KOG4077|consen   41 EHGPE-TAEEFDARYEKYFNRPEIDGWEVRKGLNNLFDYDLVPSPKVIEAALRACRRVNDFATAVRILEAIKDK-CGAQK  118 (149)
T ss_pred             hcCcc-cHHHHHHHHHHHcCcccchHHHHHHHHHhhhccccCCChHHHHHHHHHHHHhccHHHHHHHHHHHHHh-cccHH
Confidence            33444 444444444444432  256678888888888899999999999999999999999999999998864 33444


Q ss_pred             HHHHHHH
Q 039637          101 ELCSSLI  107 (159)
Q Consensus       101 ~~~~~li  107 (159)
                      ..|..++
T Consensus       119 ~~Y~y~v  125 (149)
T KOG4077|consen  119 QVYPYYV  125 (149)
T ss_pred             HHHHHHH
Confidence            4565554

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=94.19  E-value=0.84  Score=28.75  Aligned_cols=110  Identities=16%  Similarity=0.117  Sum_probs=66.1

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHc-cChHH
Q 039637            4 AFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCK-EKMYM   82 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~-~~~~~   82 (159)
                      .-.+.++.+++..++..+.-..|. ....-..-...+.+.|+|.+|..+|+++.+.+  |.......|+..|.. .|++ 
T Consensus        19 ~al~~~~~~D~e~lL~ALrvLRP~-~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~--~~~p~~kALlA~CL~~~~D~-   94 (160)
T PF09613_consen   19 VALRLGDPDDAEALLDALRVLRPE-FPELDLFDGWLHIVRGDWDDALRLLRELEERA--PGFPYAKALLALCLYALGDP-   94 (160)
T ss_pred             HHHccCChHHHHHHHHHHHHhCCC-chHHHHHHHHHHHHhCCHHHHHHHHHHHhccC--CCChHHHHHHHHHHHHcCCh-
Confidence            345678999999999998866554 22222333344568999999999999987643  444444445544433 3444 


Q ss_pred             HHHHHH-HHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHH
Q 039637           83 LAYRTM-VDMHRKGHQPEEELCSSLIFHLGKMRAHSEALS  121 (159)
Q Consensus        83 ~a~~~~-~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~  121 (159)
                       .++.+ +++.+.+-.|+  +- .++..+....+...|..
T Consensus        95 -~Wr~~A~evle~~~d~~--a~-~Lv~~Ll~~~~~~~a~~  130 (160)
T PF09613_consen   95 -SWRRYADEVLESGADPD--AR-ALVRALLARADLEPAHE  130 (160)
T ss_pred             -HHHHHHHHHHhcCCChH--HH-HHHHHHHHhccccchhh
Confidence             34443 55666553333  33 45555555555555544

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=94.14  E-value=0.89  Score=28.90  Aligned_cols=100  Identities=14%  Similarity=0.206  Sum_probs=65.1

Q ss_pred             HHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHh
Q 039637           49 VMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRY  128 (159)
Q Consensus        49 a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  128 (159)
                      ..+....+.+.++.|+...+..+++.+.+.|++...    .++.+.++-+|.......+-.+..  ....+.++=-+|..
T Consensus        13 llEYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L----~qllq~~Vi~DSk~lA~~LLs~~~--~~~~~~Ql~lDMLk   86 (167)
T PF07035_consen   13 LLEYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQL----HQLLQYHVIPDSKPLACQLLSLGN--QYPPAYQLGLDMLK   86 (167)
T ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHH----HHHHhhcccCCcHHHHHHHHHhHc--cChHHHHHHHHHHH
Confidence            355667777889999999999999999999987554    555666666665555444433322  23344444444443


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637          129 SKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus       129 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      .-    ...+..+++.+...|++-+|.++.
T Consensus        87 RL----~~~~~~iievLL~~g~vl~ALr~a  112 (167)
T PF07035_consen   87 RL----GTAYEEIIEVLLSKGQVLEALRYA  112 (167)
T ss_pred             Hh----hhhHHHHHHHHHhCCCHHHHHHHH
Confidence            20    024567778888888888887654

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=94.01  E-value=0.88  Score=28.32  Aligned_cols=52  Identities=13%  Similarity=0.164  Sum_probs=32.2

Q ss_pred             hcCChHHHHHHHHHhHhcCCCCChhhHHH-HHHHHHccChHHHHHHHHHHHHHcC
Q 039637           42 RTGDMESVMHVMRKLDELAISPDYNTFHI-LIKYFCKEKMYMLAYRTMVDMHRKG   95 (159)
Q Consensus        42 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~-ll~~~~~~~~~~~a~~~~~~m~~~g   95 (159)
                      ..++..++..++.-|.-  +.|+..-.-. -...+...|+|.+|..+|+++.+.+
T Consensus        22 ~~~d~~D~e~lLdALrv--LrP~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~~   74 (153)
T TIGR02561        22 RSADPYDAQAMLDALRV--LRPNLKELDMFDGWLLIARGNYDEAARILRELLSSA   74 (153)
T ss_pred             hcCCHHHHHHHHHHHHH--hCCCccccchhHHHHHHHcCCHHHHHHHHHhhhccC
Confidence            36677777777777765  4555433321 1223556677778877777777654

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=94.00  E-value=1.1  Score=32.02  Aligned_cols=87  Identities=11%  Similarity=0.017  Sum_probs=53.9

Q ss_pred             HHHHhcCChHHHHHHHHHhHhcCCCC-ChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCH
Q 039637           38 CAYCRTGDMESVMHVMRKLDELAISP-DYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAH  116 (159)
Q Consensus        38 ~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~  116 (159)
                      +-|.+.|++++|+++|..-..  +.| |..++..-..+|.+.+.+..|+.--...+.... .-+..|+.-..+-...|+.
T Consensus       105 N~yFKQgKy~EAIDCYs~~ia--~~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd~-~Y~KAYSRR~~AR~~Lg~~  181 (536)
T KOG4648|consen  105 NTYFKQGKYEEAIDCYSTAIA--VYPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALDK-LYVKAYSRRMQARESLGNN  181 (536)
T ss_pred             hhhhhccchhHHHHHhhhhhc--cCCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhhH-HHHHHHHHHHHHHHHHhhH
Confidence            457888999999999987655  557 788888888889888888766654444433211 1122333333333334555


Q ss_pred             HHHHHHHHHHH
Q 039637          117 SEALSVYNMLR  127 (159)
Q Consensus       117 ~~a~~~~~~~~  127 (159)
                      .+|.+=++...
T Consensus       182 ~EAKkD~E~vL  192 (536)
T KOG4648|consen  182 MEAKKDCETVL  192 (536)
T ss_pred             HHHHHhHHHHH
Confidence            55555555444

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=93.98  E-value=1.5  Score=30.77  Aligned_cols=96  Identities=9%  Similarity=0.105  Sum_probs=66.4

Q ss_pred             CHHHHHHHHHHHHhCCC---CCCHHHHHHHHHHHHhcCC----hHHHHHHHHHhHhcCCCCCh--hhHHHHHHHHHccCh
Q 039637           10 CFEETKQLAGDFEAKYD---KYDVVLLNSMLCAYCRTGD----MESVMHVMRKLDELAISPDY--NTFHILIKYFCKEKM   80 (159)
Q Consensus        10 ~~~~A~~~~~~~~~~~~---~~~~~~~~~ll~~~~~~~~----~~~a~~~~~~m~~~~~~~~~--~~~~~ll~~~~~~~~   80 (159)
                      ...+|.++|+.|++..+   .++-.++..++..  ...+    .+.++.+|+.+...|+..+.  ...+.++..+.....
T Consensus       118 ~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~~e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~  195 (297)
T PF13170_consen  118 IIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSEDVEELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQ  195 (297)
T ss_pred             HHHHHHHHHHHHHHhCccccCccchhHHHHHhc--ccccHHHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccch
Confidence            46789999999998764   2445566666555  3333    35678899999998886653  445555554433333


Q ss_pred             --HHHHHHHHHHHHHcCCCCcHHHHHHHH
Q 039637           81 --YMLAYRTMVDMHRKGHQPEEELCSSLI  107 (159)
Q Consensus        81 --~~~a~~~~~~m~~~g~~~~~~~~~~li  107 (159)
                        ..++.++++.+.+.|+++....|..+.
T Consensus       196 ~~v~r~~~l~~~l~~~~~kik~~~yp~lG  224 (297)
T PF13170_consen  196 EKVARVIELYNALKKNGVKIKYMHYPTLG  224 (297)
T ss_pred             HHHHHHHHHHHHHHHcCCccccccccHHH
Confidence              457889999999999998877776553

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=93.91  E-value=0.2  Score=23.11  Aligned_cols=27  Identities=15%  Similarity=0.004  Sum_probs=20.0

Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHH
Q 039637          101 ELCSSLIFHLGKMRAHSEALSVYNMLR  127 (159)
Q Consensus       101 ~~~~~li~~~~~~g~~~~a~~~~~~~~  127 (159)
                      .+++.+...|...|++++|..++++..
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            467778888888888888888887665

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=93.79  E-value=0.98  Score=28.12  Aligned_cols=89  Identities=8%  Similarity=0.119  Sum_probs=54.0

Q ss_pred             HhcCCHHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHcc--ChHH
Q 039637            6 CRSGCFEETKQLAGDFEAKYDK-YDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKE--KMYM   82 (159)
Q Consensus         6 ~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~--~~~~   82 (159)
                      ...++++++..+++.|.-..|. +...++...  .+...|+|.+|..+|++..+.+.  . ..|..-+.++|-.  ||.+
T Consensus        21 L~~~d~~D~e~lLdALrvLrP~~~e~d~~dg~--l~i~rg~w~eA~rvlr~l~~~~~--~-~p~~kAL~A~CL~al~Dp~   95 (153)
T TIGR02561        21 LRSADPYDAQAMLDALRVLRPNLKELDMFDGW--LLIARGNYDEAARILRELLSSAG--A-PPYGKALLALCLNAKGDAE   95 (153)
T ss_pred             HhcCCHHHHHHHHHHHHHhCCCccccchhHHH--HHHHcCCHHHHHHHHHhhhccCC--C-chHHHHHHHHHHHhcCChH
Confidence            4578899999999988765444 233344433  45689999999999999987542  2 2444444444433  4433


Q ss_pred             HHHHHH-HHHHHcCCCCcHH
Q 039637           83 LAYRTM-VDMHRKGHQPEEE  101 (159)
Q Consensus        83 ~a~~~~-~~m~~~g~~~~~~  101 (159)
                        ++.+ .+++..+-.|+..
T Consensus        96 --Wr~~A~~~le~~~~~~a~  113 (153)
T TIGR02561        96 --WHVHADEVLARDADADAV  113 (153)
T ss_pred             --HHHHHHHHHHhCCCHhHH
Confidence              3332 4555555444443

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=93.73  E-value=2.1  Score=31.80  Aligned_cols=102  Identities=12%  Similarity=-0.004  Sum_probs=62.3

Q ss_pred             HHhcCCHHHHHHHHH--HHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHH
Q 039637            5 FCRSGCFEETKQLAG--DFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYM   82 (159)
Q Consensus         5 ~~~~~~~~~A~~~~~--~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   82 (159)
                      ..-.|+++++.+..+  .+.   +..+....+.++.-+-+.|.++.|+.+-..         +.   .-.....+.|+++
T Consensus       271 av~~~d~~~v~~~i~~~~ll---~~i~~~~~~~i~~fL~~~G~~e~AL~~~~D---------~~---~rFeLAl~lg~L~  335 (443)
T PF04053_consen  271 AVLRGDFEEVLRMIAASNLL---PNIPKDQGQSIARFLEKKGYPELALQFVTD---------PD---HRFELALQLGNLD  335 (443)
T ss_dssp             HHHTT-HHH-----HHHHTG---GG--HHHHHHHHHHHHHTT-HHHHHHHSS----------HH---HHHHHHHHCT-HH
T ss_pred             HHHcCChhhhhhhhhhhhhc---ccCChhHHHHHHHHHHHCCCHHHHHhhcCC---------hH---HHhHHHHhcCCHH
Confidence            345677777666653  111   112345577888888888888888776432         21   2344556678888


Q ss_pred             HHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHH
Q 039637           83 LAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLR  127 (159)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~  127 (159)
                      .|.++..+      ..++..|..|.....+.|+++.|...|++..
T Consensus       336 ~A~~~a~~------~~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~  374 (443)
T PF04053_consen  336 IALEIAKE------LDDPEKWKQLGDEALRQGNIELAEECYQKAK  374 (443)
T ss_dssp             HHHHHCCC------CSTHHHHHHHHHHHHHTTBHHHHHHHHHHCT
T ss_pred             HHHHHHHh------cCcHHHHHHHHHHHHHcCCHHHHHHHHHhhc
Confidence            87664332      2467799999999999999999999987765

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.

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=93.40  E-value=1.8  Score=29.97  Aligned_cols=87  Identities=9%  Similarity=0.101  Sum_probs=54.1

Q ss_pred             hhHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHH-----
Q 039637            2 ISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFC-----   76 (159)
Q Consensus         2 l~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~-----   76 (159)
                      |+++...|+|.+++...-..-+..-+....+...-|-.|.+.+.+..+.++-..=.+.--.-+...|..+..-|.     
T Consensus        90 IQALAEmnrWreVLsWvlqyYq~pEklPpkIleLCILLysKv~Ep~amlev~~~WL~~p~Nq~lp~y~~vaELyLl~VLl  169 (309)
T PF07163_consen   90 IQALAEMNRWREVLSWVLQYYQVPEKLPPKILELCILLYSKVQEPAAMLEVASAWLQDPSNQSLPEYGTVAELYLLHVLL  169 (309)
T ss_pred             HHHHHHHhhHHHHHHHHHHHhcCcccCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCcccCCchhhHHHHHHHHHHHHh
Confidence            577888888888887765554433334556666677778888888877776655444311222344655555543     


Q ss_pred             ccChHHHHHHHH
Q 039637           77 KEKMYMLAYRTM   88 (159)
Q Consensus        77 ~~~~~~~a~~~~   88 (159)
                      -.|.+++|+++.
T Consensus       170 PLG~~~eAeelv  181 (309)
T PF07163_consen  170 PLGHFSEAEELV  181 (309)
T ss_pred             ccccHHHHHHHH
Confidence            357777776655

Pex26 is a type II peroxisomal membrane protein that recruits Pex6-Pex1 complexes to peroxisomes []. Mutations in Pex26 can lead to human disorders [].; GO: 0032403 protein complex binding, 0045046 protein import into peroxisome membrane, 0005779 integral to peroxisomal membrane

>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=93.35  E-value=0.48  Score=25.99  Aligned_cols=46  Identities=13%  Similarity=0.127  Sum_probs=24.6

Q ss_pred             hcCChHHHHHHHHHhHhcCCCCC--hhhHHHHHHHHHccChHHHHHHH
Q 039637           42 RTGDMESVMHVMRKLDELAISPD--YNTFHILIKYFCKEKMYMLAYRT   87 (159)
Q Consensus        42 ~~~~~~~a~~~~~~m~~~~~~~~--~~~~~~ll~~~~~~~~~~~a~~~   87 (159)
                      ...+.++|+..|....+.-..|.  -.++..++.+++..|++++++++
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            44555566666665555433222  23445566666666666665554

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

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=93.25  E-value=0.31  Score=23.51  Aligned_cols=21  Identities=5%  Similarity=-0.056  Sum_probs=9.6

Q ss_pred             HHHHccChHHHHHHHHHHHHH
Q 039637           73 KYFCKEKMYMLAYRTMVDMHR   93 (159)
Q Consensus        73 ~~~~~~~~~~~a~~~~~~m~~   93 (159)
                      .+|...|+.+.|.++++++..
T Consensus         7 ~ayie~Gd~e~Ar~lL~evl~   27 (44)
T TIGR03504         7 RAYIEMGDLEGARELLEEVIE   27 (44)
T ss_pred             HHHHHcCChHHHHHHHHHHHH
Confidence            344444444444444444443

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.

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=92.81  E-value=0.92  Score=31.60  Aligned_cols=70  Identities=13%  Similarity=0.132  Sum_probs=47.6

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHH-----HcCCCCcHHH
Q 039637           32 LLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMH-----RKGHQPEEEL  102 (159)
Q Consensus        32 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~-----~~g~~~~~~~  102 (159)
                      +++.....|..+|.+.+|.++-++...-. +.+...+-.++..+...||--.+.+.++.+.     +.|+..+-.+
T Consensus       281 llgkva~~yle~g~~neAi~l~qr~ltld-pL~e~~nk~lm~~la~~gD~is~~khyerya~vleaelgi~vddsi  355 (361)
T COG3947         281 LLGKVARAYLEAGKPNEAIQLHQRALTLD-PLSEQDNKGLMASLATLGDEISAIKHYERYAEVLEAELGIDVDDSI  355 (361)
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHhhcC-hhhhHHHHHHHHHHHHhccchhhhhHHHHHHHHHHHHhCCCcchhH
Confidence            45666678888888888888888777632 2355666688888888888666666666654     2355544433

>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=92.80  E-value=0.3  Score=21.45  Aligned_cols=27  Identities=22%  Similarity=0.234  Sum_probs=16.7

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHhHh
Q 039637           32 LLNSMLCAYCRTGDMESVMHVMRKLDE   58 (159)
Q Consensus        32 ~~~~ll~~~~~~~~~~~a~~~~~~m~~   58 (159)
                      +|..+...|.+.|++++|...|++..+
T Consensus         3 ~~~~lg~~y~~~~~~~~A~~~~~~a~~   29 (34)
T PF13181_consen    3 AYYNLGKIYEQLGDYEEALEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHHTTSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            455556666666666666666666554

...

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=92.63  E-value=0.37  Score=23.23  Aligned_cols=27  Identities=11%  Similarity=-0.077  Sum_probs=23.3

Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHhCCC
Q 039637          105 SLIFHLGKMRAHSEALSVYNMLRYSKR  131 (159)
Q Consensus       105 ~li~~~~~~g~~~~a~~~~~~~~~~~~  131 (159)
                      -+..+|...|+.+.|..+++++...+.
T Consensus         4 dLA~ayie~Gd~e~Ar~lL~evl~~~~   30 (44)
T TIGR03504         4 DLARAYIEMGDLEGARELLEEVIEEGD   30 (44)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHHcCC
Confidence            377899999999999999999986543

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.

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=92.55  E-value=0.29  Score=21.97  Aligned_cols=22  Identities=5%  Similarity=0.076  Sum_probs=11.1

Q ss_pred             CHHHHHHHHHHHHhcCcHHHHh
Q 039637          134 CKALHEKILHILISGKLLKDAY  155 (159)
Q Consensus       134 ~~~~~~~l~~~~~~~g~~~~A~  155 (159)
                      +...|..+-..|...|++++|.
T Consensus        12 n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen   12 NAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             CHHHHHHHHHHHHHCcCHHhhc
Confidence            3444555555555555555543

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=92.48  E-value=3.9  Score=31.38  Aligned_cols=121  Identities=17%  Similarity=0.095  Sum_probs=79.9

Q ss_pred             HHhcCCHHHHHHHHHHHHh-------CCCCCCHHHHHHHHHHHHhcC-----ChHHHHHHHHHhHhcCCCCChhhHHHHH
Q 039637            5 FCRSGCFEETKQLAGDFEA-------KYDKYDVVLLNSMLCAYCRTG-----DMESVMHVMRKLDELAISPDYNTFHILI   72 (159)
Q Consensus         5 ~~~~~~~~~A~~~~~~~~~-------~~~~~~~~~~~~ll~~~~~~~-----~~~~a~~~~~~m~~~~~~~~~~~~~~ll   72 (159)
                      ++...+.+.|...|+...+       .|   .+.....+...|.+..     +...|+.++.+..+.|. |+....-..+
T Consensus       259 ~g~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~g~~~~~~d~~~A~~~~~~aA~~g~-~~a~~~lg~~  334 (552)
T KOG1550|consen  259 YGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQGLGVEKIDYEKALKLYTKAAELGN-PDAQYLLGVL  334 (552)
T ss_pred             ccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcCCCCccccHHHHHHHHHHHHhcCC-chHHHHHHHH
Confidence            5577899999999998866       34   3335566667776643     67789999998888764 5444433333


Q ss_pred             HHHHc-cChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHH--HccCCHHHHHHHHHHHHhCC
Q 039637           73 KYFCK-EKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHL--GKMRAHSEALSVYNMLRYSK  130 (159)
Q Consensus        73 ~~~~~-~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~--~~~g~~~~a~~~~~~~~~~~  130 (159)
                      .-... ..+...|.++|...-+.|+.+ ..-+-+++...  ....+.+.|..++++.-..+
T Consensus       335 ~~~g~~~~d~~~A~~yy~~Aa~~G~~~-A~~~la~~y~~G~gv~r~~~~A~~~~k~aA~~g  394 (552)
T KOG1550|consen  335 YETGTKERDYRRAFEYYSLAAKAGHIL-AIYRLALCYELGLGVERNLELAFAYYKKAAEKG  394 (552)
T ss_pred             HHcCCccccHHHHHHHHHHHHHcCChH-HHHHHHHHHHhCCCcCCCHHHHHHHHHHHHHcc
Confidence            32222 356789999999999988643 22222222222  23468899999999888777

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=92.44  E-value=4  Score=32.68  Aligned_cols=80  Identities=9%  Similarity=0.096  Sum_probs=51.8

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHH
Q 039637            4 AFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYML   83 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~   83 (159)
                      -+.+.|++++|...|-+-... ..|+     -+|.-|.+.........+++.+.+.|+ -+...-+.|+++|.+.++.++
T Consensus       377 ~Ly~Kgdf~~A~~qYI~tI~~-le~s-----~Vi~kfLdaq~IknLt~YLe~L~~~gl-a~~dhttlLLncYiKlkd~~k  449 (933)
T KOG2114|consen  377 YLYGKGDFDEATDQYIETIGF-LEPS-----EVIKKFLDAQRIKNLTSYLEALHKKGL-ANSDHTTLLLNCYIKLKDVEK  449 (933)
T ss_pred             HHHhcCCHHHHHHHHHHHccc-CChH-----HHHHHhcCHHHHHHHHHHHHHHHHccc-ccchhHHHHHHHHHHhcchHH
Confidence            355678888888887554421 2222     235555666667777777888888877 344455668888888888776


Q ss_pred             HHHHHHH
Q 039637           84 AYRTMVD   90 (159)
Q Consensus        84 a~~~~~~   90 (159)
                      -.++.+.
T Consensus       450 L~efI~~  456 (933)
T KOG2114|consen  450 LTEFISK  456 (933)
T ss_pred             HHHHHhc
Confidence            6555443

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=92.36  E-value=2.7  Score=29.26  Aligned_cols=112  Identities=9%  Similarity=0.072  Sum_probs=78.2

Q ss_pred             HHHHHHHHHhHh-cCCCCChhhHHHHHHHHHc-cCh-HHHHHHHHHHHHH-cCCCCcHHHHHHHHHHHHccCCHHHHHHH
Q 039637           47 ESVMHVMRKLDE-LAISPDYNTFHILIKYFCK-EKM-YMLAYRTMVDMHR-KGHQPEEELCSSLIFHLGKMRAHSEALSV  122 (159)
Q Consensus        47 ~~a~~~~~~m~~-~~~~~~~~~~~~ll~~~~~-~~~-~~~a~~~~~~m~~-~g~~~~~~~~~~li~~~~~~g~~~~a~~~  122 (159)
                      .+|+.+|+..-- ..+--|..+...+++.... .+. ...--++.+-+.. .|..++..+...++..+++.+++.+-.++
T Consensus       145 v~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~kl~~f  224 (292)
T PF13929_consen  145 VEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNKLFQF  224 (292)
T ss_pred             HHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHHHHHH
Confidence            345555552211 2355677778888888766 222 2222233333332 34568888999999999999999999999


Q ss_pred             HHHHHhC-CCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637          123 YNMLRYS-KRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus       123 ~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      ++..... +...|..-|..+|+...+.|+..-...++
T Consensus       225 W~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI  261 (292)
T PF13929_consen  225 WEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKII  261 (292)
T ss_pred             HHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHh
Confidence            9977654 56778888999999999999988776654

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=92.32  E-value=0.5  Score=20.77  Aligned_cols=28  Identities=21%  Similarity=0.027  Sum_probs=19.3

Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHHh
Q 039637          101 ELCSSLIFHLGKMRAHSEALSVYNMLRY  128 (159)
Q Consensus       101 ~~~~~li~~~~~~g~~~~a~~~~~~~~~  128 (159)
                      .+|..+...|...|++++|...|++..+
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALE   29 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHH
Confidence            3566677777777777777777776654

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 ....

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=92.17  E-value=3.2  Score=34.45  Aligned_cols=105  Identities=13%  Similarity=0.065  Sum_probs=64.1

Q ss_pred             HHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccC
Q 039637           35 SMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMR  114 (159)
Q Consensus        35 ~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g  114 (159)
                      +..+.+.+...+++|.-.|...-+         ..-.+.+|-.+|+|++|..+..++.....+ -..+-..|+.-+...+
T Consensus       944 ~ya~hL~~~~~~~~Aal~Ye~~Gk---------lekAl~a~~~~~dWr~~l~~a~ql~~~~de-~~~~a~~L~s~L~e~~ 1013 (1265)
T KOG1920|consen  944 AYADHLREELMSDEAALMYERCGK---------LEKALKAYKECGDWREALSLAAQLSEGKDE-LVILAEELVSRLVEQR 1013 (1265)
T ss_pred             HHHHHHHHhccccHHHHHHHHhcc---------HHHHHHHHHHhccHHHHHHHHHhhcCCHHH-HHHHHHHHHHHHHHcc
Confidence            333344455666666666654322         234567777888888888877776532111 1112256788888888


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhh
Q 039637          115 AHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIV  157 (159)
Q Consensus       115 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  157 (159)
                      ++-+|.++.......   |     .-.+..|++...|++|..+
T Consensus      1014 kh~eAa~il~e~~sd---~-----~~av~ll~ka~~~~eAlrv 1048 (1265)
T KOG1920|consen 1014 KHYEAAKILLEYLSD---P-----EEAVALLCKAKEWEEALRV 1048 (1265)
T ss_pred             cchhHHHHHHHHhcC---H-----HHHHHHHhhHhHHHHHHHH
Confidence            888888888766542   1     2345566777777777654

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=92.08  E-value=4.2  Score=30.88  Aligned_cols=55  Identities=15%  Similarity=0.109  Sum_probs=28.9

Q ss_pred             hhHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhc
Q 039637            2 ISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDEL   59 (159)
Q Consensus         2 l~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~   59 (159)
                      +..++++.++.-...+-.+|...|  .+-..|-.++..|... ..+.-..+|.++++.
T Consensus        73 ~~~f~~n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en-~n~~l~~lWer~ve~  127 (711)
T COG1747          73 LTIFGDNHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVEY  127 (711)
T ss_pred             HHHhccchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHHh
Confidence            344455555555555555555433  2445555566666555 345555556555553

>COG0735 Fur Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]

Probab=91.97  E-value=1.6  Score=27.04  Aligned_cols=63  Identities=17%  Similarity=0.182  Sum_probs=36.5

Q ss_pred             HHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCc
Q 039637           87 TMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKL  150 (159)
Q Consensus        87 ~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  150 (159)
                      +...+.+.|..+++.-- .++..+.+.++.-.|..+++.+...+.+.+..|.-..++.+...|-
T Consensus         8 ~~~~lk~~glr~T~qR~-~vl~~L~~~~~~~sAeei~~~l~~~~p~islaTVYr~L~~l~e~Gl   70 (145)
T COG0735           8 AIERLKEAGLRLTPQRL-AVLELLLEADGHLSAEELYEELREEGPGISLATVYRTLKLLEEAGL   70 (145)
T ss_pred             HHHHHHHcCCCcCHHHH-HHHHHHHhcCCCCCHHHHHHHHHHhCCCCCHhHHHHHHHHHHHCCC
Confidence            34455556666554333 4556666665556666666666666666655555555566665554

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=91.95  E-value=4.3  Score=30.66  Aligned_cols=118  Identities=11%  Similarity=0.122  Sum_probs=76.6

Q ss_pred             hcCCHHHHH-HHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHH
Q 039637            7 RSGCFEETK-QLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAY   85 (159)
Q Consensus         7 ~~~~~~~A~-~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~   85 (159)
                      ..|++..|- +++..+....-.|+....-  ...+...|+++.+...+...... +.....+-.+++....+.|++++|.
T Consensus       301 ~~gd~~aas~~~~~~lr~~~~~p~~i~l~--~~i~~~lg~ye~~~~~~s~~~~~-~~s~~~~~~~~~r~~~~l~r~~~a~  377 (831)
T PRK15180        301 ADGDIIAASQQLFAALRNQQQDPVLIQLR--SVIFSHLGYYEQAYQDISDVEKI-IGTTDSTLRCRLRSLHGLARWREAL  377 (831)
T ss_pred             hccCHHHHHHHHHHHHHhCCCCchhhHHH--HHHHHHhhhHHHHHHHhhchhhh-hcCCchHHHHHHHhhhchhhHHHHH
Confidence            346655554 4455555443344544433  33456789999998888765442 3445677888999999999999999


Q ss_pred             HHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHh
Q 039637           86 RTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRY  128 (159)
Q Consensus        86 ~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  128 (159)
                      ..-..|+...++ ++.+.....-..-..|-+|++.-.|+++..
T Consensus       378 s~a~~~l~~eie-~~ei~~iaa~sa~~l~~~d~~~~~wk~~~~  419 (831)
T PRK15180        378 STAEMMLSNEIE-DEEVLTVAAGSADALQLFDKSYHYWKRVLL  419 (831)
T ss_pred             HHHHHHhccccC-ChhheeeecccHHHHhHHHHHHHHHHHHhc
Confidence            988888866543 333443333333455778888888887764

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=91.94  E-value=2.1  Score=27.15  Aligned_cols=148  Identities=16%  Similarity=0.060  Sum_probs=92.0

Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH-HHHhcCChHHHHHHHHHhHhcCCCC----ChhhHHHHHHHHHccCh
Q 039637            6 CRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLC-AYCRTGDMESVMHVMRKLDELAISP----DYNTFHILIKYFCKEKM   80 (159)
Q Consensus         6 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~-~~~~~~~~~~a~~~~~~m~~~~~~~----~~~~~~~ll~~~~~~~~   80 (159)
                      ...++...+.+.+.........+ ......... .+...|+++.+...+.+...  ..|    ....+......+...++
T Consensus       106 ~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~  182 (291)
T COG0457         106 EALGKYEEALELLEKALALDPDP-DLAEALLALGALYELGDYEEALELYEKALE--LDPELNELAEALLALGALLEALGR  182 (291)
T ss_pred             HHHhhHHHHHHHHHHHHcCCCCc-chHHHHHHHHHHHHcCCHHHHHHHHHHHHh--cCCCccchHHHHHHhhhHHHHhcC
Confidence            34455677777777776544442 222333333 77888899999999888855  333    23333344444667788


Q ss_pred             HHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhh
Q 039637           81 YMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIV  157 (159)
Q Consensus        81 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  157 (159)
                      .+.+...+..............+..+...+...++.+.|...+......... ....+......+...+..+++...
T Consensus       183 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~  258 (291)
T COG0457         183 YEEALELLEKALKLNPDDDAEALLNLGLLYLKLGKYEEALEYYEKALELDPD-NAEALYNLALLLLELGRYEEALEA  258 (291)
T ss_pred             HHHHHHHHHHHHhhCcccchHHHHHhhHHHHHcccHHHHHHHHHHHHhhCcc-cHHHHhhHHHHHHHcCCHHHHHHH
Confidence            8888888888876532213567777888888888888888888877753222 233334444444466666666543

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=91.86  E-value=3.2  Score=29.00  Aligned_cols=120  Identities=11%  Similarity=0.126  Sum_probs=76.5

Q ss_pred             hhHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCC-ChhhHHHHHHHHHccCh
Q 039637            2 ISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP-DYNTFHILIKYFCKEKM   80 (159)
Q Consensus         2 l~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~~~   80 (159)
                      ...|...|+++.|..++..+-..-..........-|..+.+.....+...+-.+.-.   .| |...=..+-..+...|+
T Consensus       175 a~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~~~~~l~~~~aa---dPdd~~aa~~lA~~~~~~g~  251 (304)
T COG3118         175 AECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATPEIQDLQRRLAA---DPDDVEAALALADQLHLVGR  251 (304)
T ss_pred             HHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCC
Confidence            467889999999999998875432222223323345555555555554444444443   36 45555567788899999


Q ss_pred             HHHHHHHHHHHHHcCC-CCcHHHHHHHHHHHHccCCHHHHHHHHH
Q 039637           81 YMLAYRTMVDMHRKGH-QPEEELCSSLIFHLGKMRAHSEALSVYN  124 (159)
Q Consensus        81 ~~~a~~~~~~m~~~g~-~~~~~~~~~li~~~~~~g~~~~a~~~~~  124 (159)
                      .+.|.+.+-.++++.. .-|...-..++..+.-.|.-|.+..-++
T Consensus       252 ~e~Ale~Ll~~l~~d~~~~d~~~Rk~lle~f~~~g~~Dp~~~~~R  296 (304)
T COG3118         252 NEAALEHLLALLRRDRGFEDGEARKTLLELFEAFGPADPLVLAYR  296 (304)
T ss_pred             HHHHHHHHHHHHHhcccccCcHHHHHHHHHHHhcCCCCHHHHHHH
Confidence            9999888777665432 2355677788888888885554443333

>PF07721 TPR_4: Tetratricopeptide repeat; InterPro: IPR011717 This entry includes tetratricopeptide-like repeats not detected by the IPR001440 from INTERPRO, IPR013105 from INTERPRO and IPR011716 from INTERPRO models

Probab=91.85  E-value=0.32  Score=20.25  Aligned_cols=18  Identities=22%  Similarity=0.008  Sum_probs=8.4

Q ss_pred             HHHHHHccCCHHHHHHHH
Q 039637          106 LIFHLGKMRAHSEALSVY  123 (159)
Q Consensus       106 li~~~~~~g~~~~a~~~~  123 (159)
                      +...+...|++++|..++
T Consensus         7 la~~~~~~G~~~eA~~~l   24 (26)
T PF07721_consen    7 LARALLAQGDPDEAERLL   24 (26)
T ss_pred             HHHHHHHcCCHHHHHHHH
Confidence            444444444444444443

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

>KOG2908 consensus 26S proteasome regulatory complex, subunit RPN9/PSMD13 [Posttranslational modification, protein turnover, chaperones]

Probab=91.77  E-value=3.6  Score=29.38  Aligned_cols=88  Identities=9%  Similarity=-0.054  Sum_probs=59.8

Q ss_pred             HHHHHHHHHccChHHHHHHHHHHHHHc---CCCCcHHHH--HHHHHHHHccCCHHHHHHHHHHHHh-----CCCCCCHHH
Q 039637           68 FHILIKYFCKEKMYMLAYRTMVDMHRK---GHQPEEELC--SSLIFHLGKMRAHSEALSVYNMLRY-----SKRSMCKAL  137 (159)
Q Consensus        68 ~~~ll~~~~~~~~~~~a~~~~~~m~~~---g~~~~~~~~--~~li~~~~~~g~~~~a~~~~~~~~~-----~~~~~~~~~  137 (159)
                      ...++...-+.+|.++|+++++++.+.   --.|+...|  ....+++...|+..++.+.+++.++     .+++|+.++
T Consensus        78 vei~l~~~~~~~D~~~al~~Le~i~~~~~~~~e~~av~~~~t~~~r~~L~i~DLk~~kk~ldd~~~~ld~~~~v~~~Vh~  157 (380)
T KOG2908|consen   78 VEILLVVSEQISDKDEALEFLEKIIEKLKEYKEPDAVIYILTEIARLKLEINDLKEIKKLLDDLKSMLDSLDGVTSNVHS  157 (380)
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhcccCCChhhhh
Confidence            345556666677899999999998753   235666666  4556777788999999999888876     577775443


Q ss_pred             -HH-HHHHHHHhcCcHHHHh
Q 039637          138 -HE-KILHILISGKLLKDAY  155 (159)
Q Consensus       138 -~~-~l~~~~~~~g~~~~A~  155 (159)
                       |. .--..|-+.|++..++
T Consensus       158 ~fY~lssqYyk~~~d~a~yY  177 (380)
T KOG2908|consen  158 SFYSLSSQYYKKIGDFASYY  177 (380)
T ss_pred             hHHHHHHHHHHHHHhHHHHH
Confidence             33 3335555566665544

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=91.67  E-value=2.7  Score=30.21  Aligned_cols=93  Identities=13%  Similarity=0.070  Sum_probs=62.3

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYM   82 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   82 (159)
                      +-|.+.|++++|+.+|..-....+. |.+++..-..+|.+...+..|+.=-...+..+ ..-.-.|+.-..+-...|...
T Consensus       105 N~yFKQgKy~EAIDCYs~~ia~~P~-NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd-~~Y~KAYSRR~~AR~~Lg~~~  182 (536)
T KOG4648|consen  105 NTYFKQGKYEEAIDCYSTAIAVYPH-NPVYHINRALAYLKQKSFAQAEEDCEAAIALD-KLYVKAYSRRMQARESLGNNM  182 (536)
T ss_pred             hhhhhccchhHHHHHhhhhhccCCC-CccchhhHHHHHHHHHHHHHHHHhHHHHHHhh-HHHHHHHHHHHHHHHHHhhHH
Confidence            3578999999999999887765433 88999999999999998887765544443311 111234555555555556666


Q ss_pred             HHHHHHHHHHHcCCCCc
Q 039637           83 LAYRTMVDMHRKGHQPE   99 (159)
Q Consensus        83 ~a~~~~~~m~~~g~~~~   99 (159)
                      +|.+-++..++.  +|+
T Consensus       183 EAKkD~E~vL~L--EP~  197 (536)
T KOG4648|consen  183 EAKKDCETVLAL--EPK  197 (536)
T ss_pred             HHHHhHHHHHhh--Ccc
Confidence            776666666653  455

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=91.66  E-value=3.2  Score=28.68  Aligned_cols=155  Identities=10%  Similarity=0.058  Sum_probs=86.8

Q ss_pred             hhHHHhcCCHH---HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHcc
Q 039637            2 ISAFCRSGCFE---ETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKE   78 (159)
Q Consensus         2 l~~~~~~~~~~---~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~   78 (159)
                      +.+|...+..+   +|..+.+.+....+. .+.++-.-+..+.+.++.+++.+.+.+|... +.-....+..++...-..
T Consensus        91 a~~~l~~~~~~~~~ka~~~l~~l~~e~~~-~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~-~~~~e~~~~~~l~~i~~l  168 (278)
T PF08631_consen   91 ANAYLEWDTYESVEKALNALRLLESEYGN-KPEVFLLKLEILLKSFDEEEYEEILMRMIRS-VDHSESNFDSILHHIKQL  168 (278)
T ss_pred             HHHHHcCCChHHHHHHHHHHHHHHHhCCC-CcHHHHHHHHHHhccCChhHHHHHHHHHHHh-cccccchHHHHHHHHHHH
Confidence            45566655544   466666667655444 3455556667777789999999999999986 222345555555554222


Q ss_pred             --ChHHHHHHHHHHHHHcCCCCcHH-HH-HHHHHH---HHccC------CHHHHHHHHHHHHh-CCCCCCHHHHHHHH--
Q 039637           79 --KMYMLAYRTMVDMHRKGHQPEEE-LC-SSLIFH---LGKMR------AHSEALSVYNMLRY-SKRSMCKALHEKIL--  142 (159)
Q Consensus        79 --~~~~~a~~~~~~m~~~g~~~~~~-~~-~~li~~---~~~~g------~~~~a~~~~~~~~~-~~~~~~~~~~~~l~--  142 (159)
                        .....+...+..++..-+.|+.. .. ..++..   ..+.+      .++....+++.+.. .+.+.+..+-.++.  
T Consensus       169 ~~~~~~~a~~~ld~~l~~r~~~~~~~~~e~~vl~~~~~~~~~~~~~~~~~i~~l~~~~~~v~~~~~~~ls~~~~~a~~~L  248 (278)
T PF08631_consen  169 AEKSPELAAFCLDYLLLNRFKSSEDQWLEKLVLTRVLLTTQSKDLSSSEKIESLEELLSIVEHSLGKQLSAEAASAIHTL  248 (278)
T ss_pred             HhhCcHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHcCCccccchhHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHH
Confidence              33456667776666554455443 11 111111   11111      14455555554332 34455555433333  


Q ss_pred             -----HHHHhcCcHHHHhhhh
Q 039637          143 -----HILISGKLLKDAYIVV  158 (159)
Q Consensus       143 -----~~~~~~g~~~~A~~~~  158 (159)
                           ..+.+.+++++|.+.|
T Consensus       249 LW~~~~~~~~~k~y~~A~~w~  269 (278)
T PF08631_consen  249 LWNKGKKHYKAKNYDEAIEWY  269 (278)
T ss_pred             HHHHHHHHHhhcCHHHHHHHH
Confidence                 4467788999988766

It is also involved in sporulation [].

>KOG2063 consensus Vacuolar assembly/sorting proteins VPS39/VAM6/VPS3 [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.54  E-value=3.6  Score=33.27  Aligned_cols=116  Identities=15%  Similarity=0.159  Sum_probs=73.5

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHhHhcC---CCCChhhHHHHHHHHHccChH--HHHHHHHHHHHHcCCCCcHHHH----
Q 039637           33 LNSMLCAYCRTGDMESVMHVMRKLDELA---ISPDYNTFHILIKYFCKEKMY--MLAYRTMVDMHRKGHQPEEELC----  103 (159)
Q Consensus        33 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~---~~~~~~~~~~ll~~~~~~~~~--~~a~~~~~~m~~~g~~~~~~~~----  103 (159)
                      |..|+..|...|+.++|+++|.+....-   -.--...+-.++....+.+..  +-.+++-.+..+....-...++    
T Consensus       507 y~~Li~LY~~kg~h~~AL~ll~~l~d~~~~~d~~~~~~~e~ii~YL~~l~~~~~~Li~~y~~wvl~~~p~~gi~Ift~~~  586 (877)
T KOG2063|consen  507 YRELIELYATKGMHEKALQLLRDLVDEDSDTDSFQLDGLEKIIEYLKKLGAENLDLILEYADWVLNKNPEAGIQIFTSED  586 (877)
T ss_pred             HHHHHHHHHhccchHHHHHHHHHHhccccccccchhhhHHHHHHHHHHhcccchhHHHHHhhhhhccCchhheeeeeccC
Confidence            7889999999999999999999887632   111123333455555555544  5555655555543221111111    


Q ss_pred             --------HHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 039637          104 --------SSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISG  148 (159)
Q Consensus       104 --------~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  148 (159)
                              ...+-.|......+.+..+++.+......++....+.++..|++.
T Consensus       587 ~~~~~sis~~~Vl~~l~~~~~~l~I~YLE~li~~~~~~~~~lht~ll~ly~e~  639 (877)
T KOG2063|consen  587 KQEAESISRDDVLNYLKSKEPKLLIPYLEHLISDNRLTSTLLHTVLLKLYLEK  639 (877)
T ss_pred             hhhhccCCHHHHHHHhhhhCcchhHHHHHHHhHhccccchHHHHHHHHHHHHH
Confidence                    123445667777888888999888766667777778888777654

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=91.52  E-value=0.63  Score=20.27  Aligned_cols=27  Identities=11%  Similarity=-0.078  Sum_probs=18.6

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHh
Q 039637          102 LCSSLIFHLGKMRAHSEALSVYNMLRY  128 (159)
Q Consensus       102 ~~~~li~~~~~~g~~~~a~~~~~~~~~  128 (159)
                      .+..+...+.+.|++++|.+.|++...
T Consensus         3 ~~~~lg~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF07719_consen    3 AWYYLGQAYYQLGNYEEAIEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            455667777777888888887776654

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....

>COG0735 Fur Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]

Probab=91.44  E-value=1.8  Score=26.81  Aligned_cols=63  Identities=10%  Similarity=-0.035  Sum_probs=45.9

Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccCh
Q 039637           17 LAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKM   80 (159)
Q Consensus        17 ~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~   80 (159)
                      +.+.+.+.|..+ +..-..+++.+.+.++.-.|.++++++.+.+...+..|.-.-|+.+...|-
T Consensus         8 ~~~~lk~~glr~-T~qR~~vl~~L~~~~~~~sAeei~~~l~~~~p~islaTVYr~L~~l~e~Gl   70 (145)
T COG0735           8 AIERLKEAGLRL-TPQRLAVLELLLEADGHLSAEELYEELREEGPGISLATVYRTLKLLEEAGL   70 (145)
T ss_pred             HHHHHHHcCCCc-CHHHHHHHHHHHhcCCCCCHHHHHHHHHHhCCCCCHhHHHHHHHHHHHCCC
Confidence            444567777763 345667788888888888899999999988777776666667777766654

>PF14669 Asp_Glu_race_2: Putative aspartate racemase

Probab=91.41  E-value=2.8  Score=27.47  Aligned_cols=56  Identities=16%  Similarity=0.144  Sum_probs=44.8

Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHhCCCC--------------CCHHHHHHHHHHHHhcCcHHHHhhhhC
Q 039637          104 SSLIFHLGKMRAHSEALSVYNMLRYSKRS--------------MCKALHEKILHILISGKLLKDAYIVVK  159 (159)
Q Consensus       104 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~--------------~~~~~~~~l~~~~~~~g~~~~A~~~~~  159 (159)
                      -+++..|-+.-++.+..++++.|....+.              +.-.+.+.....+.+.|.+|.|..+++
T Consensus       136 iS~m~~Yhk~~qW~KGrkvLd~l~el~i~ft~LKGL~g~e~~asrCqivn~AaEiFL~sgsidGA~~vLr  205 (233)
T PF14669_consen  136 ISLMYSYHKTLQWSKGRKVLDKLHELQIHFTSLKGLTGPEKLASRCQIVNIAAEIFLKSGSIDGALWVLR  205 (233)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhccCccCccccCchhhhHHHHHHHHHHcCCchHHHHHHh
Confidence            46677788888999999999988764432              344567889999999999999998874

>PF11846 DUF3366: Domain of unknown function (DUF3366); InterPro: IPR021797 This domain is functionally uncharacterised

Probab=90.63  E-value=2.3  Score=27.54  Aligned_cols=52  Identities=12%  Similarity=0.005  Sum_probs=38.5

Q ss_pred             ccChHHHHHHHHHHHHHc-CCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHh
Q 039637           77 KEKMYMLAYRTMVDMHRK-GHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRY  128 (159)
Q Consensus        77 ~~~~~~~a~~~~~~m~~~-g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  128 (159)
                      ...+.+......+...+. ...|++.++..++..+...|+.++|.++.+++..
T Consensus       120 ~~~~~~~l~~~~~~a~~~l~~~P~~~~~~~~a~~l~~~G~~~eA~~~~~~~~~  172 (193)
T PF11846_consen  120 LPPDPEMLEAYIEWAERLLRRRPDPNVYQRYALALALLGDPEEARQWLARARR  172 (193)
T ss_pred             CCCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            455555444444443322 3568999999999999999999999999998875

This domain is found in bacteria. This presumed domain is about 200 amino acids in length.

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=90.62  E-value=2.8  Score=26.04  Aligned_cols=93  Identities=15%  Similarity=0.185  Sum_probs=52.3

Q ss_pred             HhCCCCCCH--HHHHHHHHHHHhcCChHHHHHHHHHhHhcC---C--CCChhhHHHHHHHHHccCh-HHHHHHHHHHHHH
Q 039637           22 EAKYDKYDV--VLLNSMLCAYCRTGDMESVMHVMRKLDELA---I--SPDYNTFHILIKYFCKEKM-YMLAYRTMVDMHR   93 (159)
Q Consensus        22 ~~~~~~~~~--~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~---~--~~~~~~~~~ll~~~~~~~~-~~~a~~~~~~m~~   93 (159)
                      .+++..+++  ...|++++-....+.+...+.+++.+.--.   +  ..+..+|.+++++.+...- ---+..+|..|.+
T Consensus        29 ~~~~~~~~~k~~fiN~iL~hl~~~~nf~~~v~~L~~l~~l~~~~~~~~~~~ssf~~if~SlsnSsSaK~~~~~Lf~~Lk~  108 (145)
T PF13762_consen   29 QEENASQSTKTIFINCILNHLASYQNFSGVVSILEHLHFLNTDNIIGWLDNSSFHIIFKSLSNSSSAKLTSLTLFNFLKK  108 (145)
T ss_pred             hhcccChhHHHHHHHHHHHHHHHccchHHHHHHHHHHHHhhHHHHhhhcccchHHHHHHHHccChHHHHHHHHHHHHHHH
Confidence            333444443  235666666666667777666666653210   0  1234556666666655544 3344556666666


Q ss_pred             cCCCCcHHHHHHHHHHHHccC
Q 039637           94 KGHQPEEELCSSLIFHLGKMR  114 (159)
Q Consensus        94 ~g~~~~~~~~~~li~~~~~~g  114 (159)
                      .+.++++.-|..++.++.+-.
T Consensus       109 ~~~~~t~~dy~~li~~~l~g~  129 (145)
T PF13762_consen  109 NDIEFTPSDYSCLIKAALRGY  129 (145)
T ss_pred             cCCCCCHHHHHHHHHHHHcCC
Confidence            566666666766666665543

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=90.60  E-value=3.8  Score=27.55  Aligned_cols=76  Identities=13%  Similarity=0.154  Sum_probs=54.7

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCCh-hhHHHHHHHHHccChHHHHHHHHHHHHHcC--CCCcHHHHHHHHH
Q 039637           32 LLNSMLCAYCRTGDMESVMHVMRKLDELAISPDY-NTFHILIKYFCKEKMYMLAYRTMVDMHRKG--HQPEEELCSSLIF  108 (159)
Q Consensus        32 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~-~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g--~~~~~~~~~~li~  108 (159)
                      +.+.-++.+.+.+...+++.....-++.  +|+. .+-..+++.+|-.|+|++|..-++-.-+..  ..+...+|..+|.
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            3455677888899999999988877764  4654 455577899999999999987776655432  2344567777775


Q ss_pred             H
Q 039637          109 H  109 (159)
Q Consensus       109 ~  109 (159)
                      +
T Consensus        81 ~   81 (273)
T COG4455          81 C   81 (273)
T ss_pred             H
Confidence            4

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=90.46  E-value=5.9  Score=29.59  Aligned_cols=120  Identities=15%  Similarity=0.097  Sum_probs=77.5

Q ss_pred             HhcCC-HHHHHHHHHHHHhCCCCCCHHHHHHHHH----HHHhc---CChHHHHHHHHHhHhcCCCCChh----hHHHHHH
Q 039637            6 CRSGC-FEETKQLAGDFEAKYDKYDVVLLNSMLC----AYCRT---GDMESVMHVMRKLDELAISPDYN----TFHILIK   73 (159)
Q Consensus         6 ~~~~~-~~~A~~~~~~~~~~~~~~~~~~~~~ll~----~~~~~---~~~~~a~~~~~~m~~~~~~~~~~----~~~~ll~   73 (159)
                      .+.|+ -++|+.+++...+-... |..+=|.+..    +|.+.   ..+.....+-+-..+.|+.|-..    .-|.|-+
T Consensus       390 W~~g~~dekalnLLk~il~ft~y-D~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~gl~~i~i~e~eian~LaD  468 (549)
T PF07079_consen  390 WEIGQCDEKALNLLKLILQFTNY-DIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITEVGLTPITISEEEIANFLAD  468 (549)
T ss_pred             HhcCCccHHHHHHHHHHHHhccc-cHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCcccccHHHHHHHHHH
Confidence            34444 77888888877753222 5444444332    23221   23444455555556678877433    3344444


Q ss_pred             H--HHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHh
Q 039637           74 Y--FCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRY  128 (159)
Q Consensus        74 ~--~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  128 (159)
                      |  ...+|++.++.-.-.++.+  +.|++.+|..+.-+.....++++|..++.++..
T Consensus       469 AEyLysqgey~kc~~ys~WL~~--iaPS~~~~RLlGl~l~e~k~Y~eA~~~l~~LP~  523 (549)
T PF07079_consen  469 AEYLYSQGEYHKCYLYSSWLTK--IAPSPQAYRLLGLCLMENKRYQEAWEYLQKLPP  523 (549)
T ss_pred             HHHHHhcccHHHHHHHHHHHHH--hCCcHHHHHHHHHHHHHHhhHHHHHHHHHhCCC
Confidence            4  4567999888766666665  678999999999999999999999999987653

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PRK11639 zinc uptake transcriptional repressor; Provisional

Probab=89.91  E-value=3.6  Score=26.23  Aligned_cols=61  Identities=8%  Similarity=-0.027  Sum_probs=47.0

Q ss_pred             HHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHH
Q 039637           21 FEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYM   82 (159)
Q Consensus        21 ~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   82 (159)
                      +.+.|.. .+..-..++..+...++.-.|.+++..+.+.+..++..|.-.-|+.+...|-..
T Consensus        17 L~~~GlR-~T~qR~~IL~~l~~~~~hlSa~eI~~~L~~~~~~is~aTVYRtL~~L~e~Glv~   77 (169)
T PRK11639         17 CAQRNVR-LTPQRLEVLRLMSLQPGAISAYDLLDLLREAEPQAKPPTVYRALDFLLEQGFVH   77 (169)
T ss_pred             HHHcCCC-CCHHHHHHHHHHHhcCCCCCHHHHHHHHHhhCCCCCcchHHHHHHHHHHCCCEE
Confidence            5666776 445555777777777778899999999999988888888777888888877553

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=89.73  E-value=5.1  Score=27.72  Aligned_cols=124  Identities=12%  Similarity=0.095  Sum_probs=76.1

Q ss_pred             HHhcCCHHHHHHHHHHHHhCC--CCCCHH------HHHHHHHHHHhcCChHHHHHHHHHhHhc--------CCCCC----
Q 039637            5 FCRSGCFEETKQLAGDFEAKY--DKYDVV------LLNSMLCAYCRTGDMESVMHVMRKLDEL--------AISPD----   64 (159)
Q Consensus         5 ~~~~~~~~~A~~~~~~~~~~~--~~~~~~------~~~~ll~~~~~~~~~~~a~~~~~~m~~~--------~~~~~----   64 (159)
                      ..+.|+.+.|..++.+.....  ..|+..      .||.-...+.+..+++.|...+++..+.        ...|+    
T Consensus         3 A~~~~~~~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn~G~~l~~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~el   82 (278)
T PF08631_consen    3 AWKQGDLDLAEHMYSKAKDLLNSLDPDMAEELARVCYNIGKSLLSKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSEL   82 (278)
T ss_pred             chhhCCHHHHHHHHHHhhhHHhcCCcHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHHH
Confidence            467899999999999887543  222222      3444444544443777776666554432        12233    


Q ss_pred             -hhhHHHHHHHHHccChHH---HHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 039637           65 -YNTFHILIKYFCKEKMYM---LAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYS  129 (159)
Q Consensus        65 -~~~~~~ll~~~~~~~~~~---~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  129 (159)
                       ..+...++.++...+..+   +|..+++.+.... .-.+.++-.-+..+.+.++.+.+.+++..|...
T Consensus        83 r~~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~-~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~  150 (278)
T PF08631_consen   83 RLSILRLLANAYLEWDTYESVEKALNALRLLESEY-GNKPEVFLLKLEILLKSFDEEEYEEILMRMIRS  150 (278)
T ss_pred             HHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhC-CCCcHHHHHHHHHHhccCChhHHHHHHHHHHHh
Confidence             244566777777776654   4555666664432 112445555677777788999999999988864

It is also involved in sporulation [].

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=89.58  E-value=6.7  Score=28.92  Aligned_cols=89  Identities=8%  Similarity=0.010  Sum_probs=65.5

Q ss_pred             HHhcCCHHHHHHHHHHHHhCC---CCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC-hhhHHHHHHHHHccCh
Q 039637            5 FCRSGCFEETKQLAGDFEAKY---DKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKM   80 (159)
Q Consensus         5 ~~~~~~~~~A~~~~~~~~~~~---~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~   80 (159)
                      ..+.|++..|.+.|.+-....   ..|+...|-.......+.|+..+|+.--++..+  +.|. ...|-.-..++...++
T Consensus       259 ~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~--iD~syikall~ra~c~l~le~  336 (486)
T KOG0550|consen  259 AFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALK--IDSSYIKALLRRANCHLALEK  336 (486)
T ss_pred             HhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhh--cCHHHHHHHHHHHHHHHHHHH
Confidence            467899999999999887654   346677788888889999999999988877766  3222 1222233344566689


Q ss_pred             HHHHHHHHHHHHHcC
Q 039637           81 YMLAYRTMVDMHRKG   95 (159)
Q Consensus        81 ~~~a~~~~~~m~~~g   95 (159)
                      |++|.+-++...+..
T Consensus       337 ~e~AV~d~~~a~q~~  351 (486)
T KOG0550|consen  337 WEEAVEDYEKAMQLE  351 (486)
T ss_pred             HHHHHHHHHHHHhhc
Confidence            999999998887654

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=89.29  E-value=1  Score=19.32  Aligned_cols=24  Identities=21%  Similarity=0.127  Sum_probs=17.1

Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHh
Q 039637          105 SLIFHLGKMRAHSEALSVYNMLRY  128 (159)
Q Consensus       105 ~li~~~~~~g~~~~a~~~~~~~~~  128 (159)
                      .+..++.+.|+.++|...|+++..
T Consensus         5 ~~a~~~~~~g~~~~A~~~~~~~~~   28 (33)
T PF13174_consen    5 RLARCYYKLGDYDEAIEYFQRLIK   28 (33)
T ss_dssp             HHHHHHHHHCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHH
Confidence            355666677788888888877764

>PF11838 ERAP1_C: ERAP1-like C-terminal domain; InterPro: IPR024571 This entry represents the uncharacterised C-terminal domain of zinc metallopeptidases belonging to MEROPS peptidase family M1 (aminopeptidase N, clan MA), with a single member characterised in Streptomyces lividans: aminopeptidase G []

Probab=89.28  E-value=5.8  Score=27.78  Aligned_cols=110  Identities=14%  Similarity=0.096  Sum_probs=69.8

Q ss_pred             HHHHHHHHHHHHhCC-C---CCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHH
Q 039637           11 FEETKQLAGDFEAKY-D---KYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYR   86 (159)
Q Consensus        11 ~~~A~~~~~~~~~~~-~---~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~   86 (159)
                      .++|.+.|+.+...+ .   ..++.....++....+.|+.++...+++....   .++...-..++.+.+...+.+...+
T Consensus       146 ~~~a~~~~~~~~~~~~~~~~~i~~dlr~~v~~~~~~~g~~~~~~~l~~~~~~---~~~~~~k~~~l~aLa~~~d~~~~~~  222 (324)
T PF11838_consen  146 VAEARELFKAWLDGNDSPESSIPPDLRWAVYCAGVRNGDEEEWDFLWELYKN---STSPEEKRRLLSALACSPDPELLKR  222 (324)
T ss_dssp             HHHHHHHHHHHHHTTT-TTSTS-HHHHHHHHHHHTTS--HHHHHHHHHHHHT---TSTHHHHHHHHHHHTT-S-HHHHHH
T ss_pred             HHHHHHHHHHHhcCCcccccccchHHHHHHHHHHHHHhhHhhHHHHHHHHhc---cCCHHHHHHHHHhhhccCCHHHHHH
Confidence            677888888887642 2   44667777788888888887776666666654   3567777889999988999988889


Q ss_pred             HHHHHHHcCCCCcHHHHHHHHHHHHccC--CHHHHHHHHH
Q 039637           87 TMVDMHRKGHQPEEELCSSLIFHLGKMR--AHSEALSVYN  124 (159)
Q Consensus        87 ~~~~m~~~g~~~~~~~~~~li~~~~~~g--~~~~a~~~~~  124 (159)
                      +++.....+..++.... .++.++...+  ..+.+..++.
T Consensus       223 ~l~~~l~~~~v~~~d~~-~~~~~~~~~~~~~~~~~~~~~~  261 (324)
T PF11838_consen  223 LLDLLLSNDKVRSQDIR-YVLAGLASSNPVGRDLAWEFFK  261 (324)
T ss_dssp             HHHHHHCTSTS-TTTHH-HHHHHHH-CSTTCHHHHHHHHH
T ss_pred             HHHHHcCCcccccHHHH-HHHHHHhcCChhhHHHHHHHHH
Confidence            99988875422333344 4444444233  2366666654

The rest of the members of this family are identified as aminopeptidase N of the actinomycete-type. The spectrum of activity may differ somewhat from the aminopeptidase N clade of Escherichia coli and most other proteobacteria, which are well separated phylogenetically within the M1 family. ; PDB: 3MDJ_A 2YD0_A 3QNF_C 3RJO_A 1Z5H_A 3Q7J_A 1Z1W_A 3SE6_B.

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=89.03  E-value=6.4  Score=28.66  Aligned_cols=124  Identities=10%  Similarity=-0.022  Sum_probs=76.9

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhC-----CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhc----CCCCChhhH-----
Q 039637            3 SAFCRSGCFEETKQLAGDFEAK-----YDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDEL----AISPDYNTF-----   68 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~-----~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~~~~~~~~~-----   68 (159)
                      .++.-.+.++++++-|+...+-     ++.....++-.|-..|.+..|+++|.-...+..+.    ++..-..-|     
T Consensus       130 ~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~l  209 (518)
T KOG1941|consen  130 NAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSLKYRAMSL  209 (518)
T ss_pred             HHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhHHHHHHHH
Confidence            3445566788888888765422     12234457888899999999999887776665432    221111112     


Q ss_pred             HHHHHHHHccChHHHHHHHHHHHH----HcCCCCc-HHHHHHHHHHHHccCCHHHHHHHHHHH
Q 039637           69 HILIKYFCKEKMYMLAYRTMVDMH----RKGHQPE-EELCSSLIFHLGKMRAHSEALSVYNML  126 (159)
Q Consensus        69 ~~ll~~~~~~~~~~~a~~~~~~m~----~~g~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~  126 (159)
                      -.|.-++...|.+..|.+.-++..    +.|..+. ....-.+.+.|-..|+.|.|+.-|+..
T Consensus       210 yhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIyR~~gd~e~af~rYe~A  272 (518)
T KOG1941|consen  210 YHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIYRSRGDLERAFRRYEQA  272 (518)
T ss_pred             HHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHhcccHhHHHHHHHHH
Confidence            234445666677766666655543    4454442 334456778888899999988877743

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=88.93  E-value=3.9  Score=25.38  Aligned_cols=98  Identities=8%  Similarity=0.099  Sum_probs=70.9

Q ss_pred             HhHhcCCCCCh--hhHHHHHHHHHccChHHHHHHHHHHHHHcCC-----CCcHHHHHHHHHHHHccCC-HHHHHHHHHHH
Q 039637           55 KLDELAISPDY--NTFHILIKYFCKEKMYMLAYRTMVDMHRKGH-----QPEEELCSSLIFHLGKMRA-HSEALSVYNML  126 (159)
Q Consensus        55 ~m~~~~~~~~~--~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~-----~~~~~~~~~li~~~~~~g~-~~~a~~~~~~~  126 (159)
                      .|.+.+..++.  ...+.++.-....+.+.....+++.+.....     ..+...|++++.+.....- ---+..+|+-+
T Consensus        27 y~~~~~~~~~~k~~fiN~iL~hl~~~~nf~~~v~~L~~l~~l~~~~~~~~~~~ssf~~if~SlsnSsSaK~~~~~Lf~~L  106 (145)
T PF13762_consen   27 YMQEENASQSTKTIFINCILNHLASYQNFSGVVSILEHLHFLNTDNIIGWLDNSSFHIIFKSLSNSSSAKLTSLTLFNFL  106 (145)
T ss_pred             HhhhcccChhHHHHHHHHHHHHHHHccchHHHHHHHHHHHHhhHHHHhhhcccchHHHHHHHHccChHHHHHHHHHHHHH
Confidence            34555555554  3456777777888888888888887753210     2456689999999977766 44556788999


Q ss_pred             HhCCCCCCHHHHHHHHHHHHhcCcHH
Q 039637          127 RYSKRSMCKALHEKILHILISGKLLK  152 (159)
Q Consensus       127 ~~~~~~~~~~~~~~l~~~~~~~g~~~  152 (159)
                      ++.+.+++..-|..++.++.+....+
T Consensus       107 k~~~~~~t~~dy~~li~~~l~g~~~~  132 (145)
T PF13762_consen  107 KKNDIEFTPSDYSCLIKAALRGYFHD  132 (145)
T ss_pred             HHcCCCCCHHHHHHHHHHHHcCCCCc
Confidence            98888999999999999988764433

>PF11848 DUF3368: Domain of unknown function (DUF3368); InterPro: IPR021799 This domain is functionally uncharacterised

Probab=88.91  E-value=1.7  Score=21.25  Aligned_cols=31  Identities=23%  Similarity=0.214  Sum_probs=15.0

Q ss_pred             ccCCHHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 039637          112 KMRAHSEALSVYNMLRYSKRSMCKALHEKIL  142 (159)
Q Consensus       112 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~  142 (159)
                      +.|-++++..+++.|...|+..+...|..++
T Consensus        14 ~~GlI~~~~~~l~~l~~~g~~is~~l~~~~L   44 (48)
T PF11848_consen   14 RRGLISEVKPLLDRLQQAGFRISPKLIEEIL   44 (48)
T ss_pred             HcCChhhHHHHHHHHHHcCcccCHHHHHHHH
Confidence            3444444555555555555555554444443

This domain is found in bacteria and archaea. This presumed domain is about 50 amino acids in length.

>PF11848 DUF3368: Domain of unknown function (DUF3368); InterPro: IPR021799 This domain is functionally uncharacterised

Probab=88.69  E-value=1.8  Score=21.18  Aligned_cols=28  Identities=7%  Similarity=0.118  Sum_probs=11.5

Q ss_pred             ChHHHHHHHHHHHHHcCCCCcHHHHHHH
Q 039637           79 KMYMLAYRTMVDMHRKGHQPEEELCSSL  106 (159)
Q Consensus        79 ~~~~~a~~~~~~m~~~g~~~~~~~~~~l  106 (159)
                      |-.+++..++++|.+.|...+...+..+
T Consensus        16 GlI~~~~~~l~~l~~~g~~is~~l~~~~   43 (48)
T PF11848_consen   16 GLISEVKPLLDRLQQAGFRISPKLIEEI   43 (48)
T ss_pred             CChhhHHHHHHHHHHcCcccCHHHHHHH
Confidence            3333444444444444444444444333

This domain is found in bacteria and archaea. This presumed domain is about 50 amino acids in length.

>COG5159 RPN6 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]

Probab=88.67  E-value=6.6  Score=27.61  Aligned_cols=18  Identities=22%  Similarity=0.311  Sum_probs=10.6

Q ss_pred             HHHHHHHhcCcHHHHhhh
Q 039637          140 KILHILISGKLLKDAYIV  157 (159)
Q Consensus       140 ~l~~~~~~~g~~~~A~~~  157 (159)
                      .++..+.+.|.+.+|..+
T Consensus       130 Kli~l~y~~~~Ysdalal  147 (421)
T COG5159         130 KLIYLLYKTGKYSDALAL  147 (421)
T ss_pred             HHHHHHHhcccHHHHHHH
Confidence            455566666666666544

>cd08819 CARD_MDA5_2 Caspase activation and recruitment domain found in MDA5, second repeat

Probab=88.49  E-value=3  Score=23.43  Aligned_cols=65  Identities=15%  Similarity=0.005  Sum_probs=31.5

Q ss_pred             HHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHh
Q 039637           85 YRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAY  155 (159)
Q Consensus        85 ~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  155 (159)
                      .+++..+.+.|+ .+......+-.+-...|+.+.|.++++.+. .|  |  ..|..++.++-..|.-+-|.
T Consensus        22 ~~v~d~ll~~~i-lT~~d~e~I~aa~~~~g~~~~ar~LL~~L~-rg--~--~aF~~Fl~aLreT~~~~LA~   86 (88)
T cd08819          22 RDVCDKCLEQGL-LTEEDRNRIEAATENHGNESGARELLKRIV-QK--E--GWFSKFLQALRETEHHELAR   86 (88)
T ss_pred             HHHHHHHHhcCC-CCHHHHHHHHHhccccCcHHHHHHHHHHhc-cC--C--cHHHHHHHHHHHcCchhhhh
Confidence            445555555553 233333333333334455666666666555 22  1  24455666665555554443

Caspase activation and recruitment domain (CARD) found in MDA5 (melanoma-differentiation-associated gene 5), second repeat. MDA5, also known as IFIH1, contains two N-terminal CARD domains and a C-terminal RNA helicase domain. MDA5 is a cytoplasmic DEAD box RNA helicase that plays an important role in host antiviral response by sensing incoming viral RNA. Upon activation, the signal is transferred to downstream pathways via the adaptor molecule IPS-1 (MAVS, VISA, CARDIF), leading to the induction of type I interferons. Although very similar in sequence, MDA5 recognizes different sets of viruses compared to RIG-I, a related RNA helicase. MDA5 associates with IPS-1 through a CARD-CARD interaction. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. DDs are protei

>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=88.40  E-value=2.5  Score=23.24  Aligned_cols=46  Identities=13%  Similarity=0.005  Sum_probs=27.8

Q ss_pred             ccChHHHHHHHHHHHHHcCCCC-cH-HHHHHHHHHHHccCCHHHHHHH
Q 039637           77 KEKMYMLAYRTMVDMHRKGHQP-EE-ELCSSLIFHLGKMRAHSEALSV  122 (159)
Q Consensus        77 ~~~~~~~a~~~~~~m~~~g~~~-~~-~~~~~li~~~~~~g~~~~a~~~  122 (159)
                      ...+..+|+..|...++.-..+ +. .++..++.+|+..|++.+++++
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            4566667777776666543222 21 2445667777777777776654

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

>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=88.32  E-value=5.3  Score=27.14  Aligned_cols=51  Identities=10%  Similarity=-0.009  Sum_probs=25.1

Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHh----CC-CCCCHHHHHHHHHHHHhcCcHHHHh
Q 039637          105 SLIFHLGKMRAHSEALSVYNMLRY----SK-RSMCKALHEKILHILISGKLLKDAY  155 (159)
Q Consensus       105 ~li~~~~~~g~~~~a~~~~~~~~~----~~-~~~~~~~~~~l~~~~~~~g~~~~A~  155 (159)
                      .+...|.+.|++++|.++|+.+..    .| ..+...+...+..+..+.|+.+...
T Consensus       183 ~~A~ey~~~g~~~~A~~~l~~~~~~yr~egW~~l~~~~l~~l~~Ca~~~~~~~~~l  238 (247)
T PF11817_consen  183 EMAEEYFRLGDYDKALKLLEPAASSYRREGWWSLLTEVLWRLLECAKRLGDVEDYL  238 (247)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHhCCHHHHH
Confidence            445555555555555555554431    11 2333444455555555555555443

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.

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=88.08  E-value=11  Score=29.40  Aligned_cols=100  Identities=10%  Similarity=-0.005  Sum_probs=62.4

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHH
Q 039637            5 FCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLA   84 (159)
Q Consensus         5 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   84 (159)
                      ..+.|+.+.|.++..+.      -+..-|..|-++....+++..|.+.|.+...         |..|+-.+...|+.+..
T Consensus       647 al~lgrl~iA~~la~e~------~s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l  711 (794)
T KOG0276|consen  647 ALKLGRLDIAFDLAVEA------NSEVKWRQLGDAALSAGELPLASECFLRARD---------LGSLLLLYTSSGNAEGL  711 (794)
T ss_pred             hhhcCcHHHHHHHHHhh------cchHHHHHHHHHHhhcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHH
Confidence            34556666666654322      2667788888888888998888888876543         44566666666766554


Q ss_pred             HHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHH
Q 039637           85 YRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNM  125 (159)
Q Consensus        85 ~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  125 (159)
                      ..+-....+.|. .|     ...-+|...|+++++..++..
T Consensus       712 ~~la~~~~~~g~-~N-----~AF~~~~l~g~~~~C~~lLi~  746 (794)
T KOG0276|consen  712 AVLASLAKKQGK-NN-----LAFLAYFLSGDYEECLELLIS  746 (794)
T ss_pred             HHHHHHHHhhcc-cc-----hHHHHHHHcCCHHHHHHHHHh
Confidence            444444445443 22     233345567777777776643

>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=88.05  E-value=0.64  Score=28.33  Aligned_cols=27  Identities=22%  Similarity=0.333  Sum_probs=15.3

Q ss_pred             HHHHHHHHHHHHHcCCCCcHHHHHHHHHH
Q 039637           81 YMLAYRTMVDMHRKGHQPEEELCSSLIFH  109 (159)
Q Consensus        81 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~  109 (159)
                      -..|-.+|..|++.|.+||  .|+.|+..
T Consensus       111 k~DaY~VF~kML~~G~pPd--dW~~Ll~~  137 (140)
T PF11663_consen  111 KTDAYAVFRKMLERGNPPD--DWDALLKE  137 (140)
T ss_pred             CCcHHHHHHHHHhCCCCCc--cHHHHHHH
Confidence            3445566666666666555  45555543

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 [].

>KOG4567 consensus GTPase-activating protein [General function prediction only]

Probab=87.55  E-value=6  Score=27.99  Aligned_cols=44  Identities=18%  Similarity=0.232  Sum_probs=27.5

Q ss_pred             HHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHH
Q 039637           50 MHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHR   93 (159)
Q Consensus        50 ~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~   93 (159)
                      .++|+.|.+.++.|.-.+|.-+.-.+.+.=.+..++.+|+.+..
T Consensus       263 ~EL~~~L~~~~i~PqfyaFRWitLLLsQEF~lpDvi~lWDsl~s  306 (370)
T KOG4567|consen  263 EELWRHLEEKEIHPQFYAFRWITLLLSQEFPLPDVIRLWDSLLS  306 (370)
T ss_pred             HHHHHHHHhcCCCccchhHHHHHHHHhccCCchhHHHHHHHHhc
Confidence            45666666666777666666555555555555666667766664

>PF11846 DUF3366: Domain of unknown function (DUF3366); InterPro: IPR021797 This domain is functionally uncharacterised

Probab=87.44  E-value=5.9  Score=25.65  Aligned_cols=54  Identities=15%  Similarity=0.001  Sum_probs=39.3

Q ss_pred             HhcCChHHHHHHHHHhHhc-CCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHc
Q 039637           41 CRTGDMESVMHVMRKLDEL-AISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRK   94 (159)
Q Consensus        41 ~~~~~~~~a~~~~~~m~~~-~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~   94 (159)
                      ...++.+......+...+. ...|+..+|..++.++...|+.++|.++..++...
T Consensus       119 ~~~~~~~~l~~~~~~a~~~l~~~P~~~~~~~~a~~l~~~G~~~eA~~~~~~~~~l  173 (193)
T PF11846_consen  119 RLPPDPEMLEAYIEWAERLLRRRPDPNVYQRYALALALLGDPEEARQWLARARRL  173 (193)
T ss_pred             cCCCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            3455554444333333321 25799999999999999999999999999998864

This domain is found in bacteria. This presumed domain is about 200 amino acids in length.

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=87.43  E-value=9.7  Score=28.30  Aligned_cols=123  Identities=15%  Similarity=0.034  Sum_probs=84.6

Q ss_pred             HHhcCCHHHHHHHHHHH----HhCCCC-CCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCC-----CCChhhHHHHHHH
Q 039637            5 FCRSGCFEETKQLAGDF----EAKYDK-YDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAI-----SPDYNTFHILIKY   74 (159)
Q Consensus         5 ~~~~~~~~~A~~~~~~~----~~~~~~-~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~-----~~~~~~~~~ll~~   74 (159)
                      |.-.|+++.|+...+.-    ++-|-. .-...+..+.+++.-.|+++.|.+.|+.-....+     .....+.-.|-+.
T Consensus       205 yYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEAQscYSLgNt  284 (639)
T KOG1130|consen  205 YYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEAQSCYSLGNT  284 (639)
T ss_pred             eeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHHHHHHHhhhH
Confidence            34458888888776532    222322 1235678888889999999999999887553211     2234556678888


Q ss_pred             HHccChHHHHHHHHHHHHH----cC-CCCcHHHHHHHHHHHHccCCHHHHHHHHHHHH
Q 039637           75 FCKEKMYMLAYRTMVDMHR----KG-HQPEEELCSSLIFHLGKMRAHSEALSVYNMLR  127 (159)
Q Consensus        75 ~~~~~~~~~a~~~~~~m~~----~g-~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~  127 (159)
                      |.-..++++|+.++.+-+.    .+ ..-....|.+|..+|...|..++|..+.+.-.
T Consensus       285 ytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl  342 (639)
T KOG1130|consen  285 YTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHL  342 (639)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHH
Confidence            8888899999988765442    11 12345688899999999999999998776443

>PF12926 MOZART2: Mitotic-spindle organizing gamma-tubulin ring associated; InterPro: IPR024332 The MOZART2 family of proteins (also known as FAM128 and Mitotic-spindle organizing protein 2) operate as part of the gamma-tubulin ring complex, gamma-TuRC, one of the complexes necessary for chromosome segregation

Probab=87.31  E-value=3.6  Score=23.03  Aligned_cols=42  Identities=10%  Similarity=0.127  Sum_probs=26.6

Q ss_pred             HHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHH
Q 039637           51 HVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMH   92 (159)
Q Consensus        51 ~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~   92 (159)
                      ++|+-....|+..|...|.++++...-+-.++...+++..|-
T Consensus        29 EL~ELa~~AGv~~dp~VFriildLL~~nVsP~AI~qmLK~m~   70 (88)
T PF12926_consen   29 ELYELAQLAGVPMDPEVFRIILDLLRLNVSPDAIFQMLKSMC   70 (88)
T ss_pred             HHHHHHHHhCCCcChHHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence            566656666666666666666666665556666666666654

This complex is located at centrosomes and mediates the formation of bipolar spindles in mitosis; it consists of six subunits. However, unlike the other four known subunits, the MOZART proteins, both 1 and 2, do not carry the conserved 'Spc97-Spc98' GCP domain, so the TUBGCP nomenclature cannot be used for it. The exact function of MOZART2 is not clear [].

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=87.28  E-value=7.1  Score=27.48  Aligned_cols=56  Identities=11%  Similarity=0.029  Sum_probs=32.0

Q ss_pred             HHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHH
Q 039637           70 ILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNML  126 (159)
Q Consensus        70 ~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  126 (159)
                      ...+.|..+|.+.+|.++.+..+... +.+...+-.++..+...|+--.|.+-++++
T Consensus       284 kva~~yle~g~~neAi~l~qr~ltld-pL~e~~nk~lm~~la~~gD~is~~khyery  339 (361)
T COG3947         284 KVARAYLEAGKPNEAIQLHQRALTLD-PLSEQDNKGLMASLATLGDEISAIKHYERY  339 (361)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHhhcC-hhhhHHHHHHHHHHHHhccchhhhhHHHHH
Confidence            34445666666666666666655542 345555666666666666655555544444

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=87.06  E-value=11  Score=28.62  Aligned_cols=89  Identities=17%  Similarity=0.209  Sum_probs=59.0

Q ss_pred             HhcCChHHHH-HHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHH
Q 039637           41 CRTGDMESVM-HVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEA  119 (159)
Q Consensus        41 ~~~~~~~~a~-~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a  119 (159)
                      ...|+.-.|. +++.-+....-.|+.  .......+...|+++.+...+...... +.....+..++++..-+.|++++|
T Consensus       300 ~~~gd~~aas~~~~~~lr~~~~~p~~--i~l~~~i~~~lg~ye~~~~~~s~~~~~-~~s~~~~~~~~~r~~~~l~r~~~a  376 (831)
T PRK15180        300 LADGDIIAASQQLFAALRNQQQDPVL--IQLRSVIFSHLGYYEQAYQDISDVEKI-IGTTDSTLRCRLRSLHGLARWREA  376 (831)
T ss_pred             hhccCHHHHHHHHHHHHHhCCCCchh--hHHHHHHHHHhhhHHHHHHHhhchhhh-hcCCchHHHHHHHhhhchhhHHHH
Confidence            3456665554 444444443223443  333334466779999998888766543 234556888999999999999999


Q ss_pred             HHHHHHHHhCCCC
Q 039637          120 LSVYNMLRYSKRS  132 (159)
Q Consensus       120 ~~~~~~~~~~~~~  132 (159)
                      ..+-+.|....+.
T Consensus       377 ~s~a~~~l~~eie  389 (831)
T PRK15180        377 LSTAEMMLSNEIE  389 (831)
T ss_pred             HHHHHHHhccccC
Confidence            9999888865544

>PF06552 TOM20_plant: Plant specific mitochondrial import receptor subunit TOM20; InterPro: IPR010547 This family consists of several plant specific mitochondrial import receptor subunit TOM20 (translocase of outer membrane 20 kDa subunit) proteins

Probab=86.57  E-value=4.5  Score=26.15  Aligned_cols=76  Identities=16%  Similarity=0.185  Sum_probs=40.6

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC----C-------hHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccC
Q 039637           11 FEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTG----D-------MESVMHVMRKLDELAISPDYNTFHILIKYFCKEK   79 (159)
Q Consensus        11 ~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~----~-------~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~   79 (159)
                      +++|.+-|++...-+|. ...++..+-++|...+    +       +++|.+.|++...  ..|+..+|+.-+....+  
T Consensus        51 iedAisK~eeAL~I~P~-~hdAlw~lGnA~ts~A~l~~d~~~A~~~F~kA~~~FqkAv~--~~P~ne~Y~ksLe~~~k--  125 (186)
T PF06552_consen   51 IEDAISKFEEALKINPN-KHDALWCLGNAYTSLAFLTPDTAEAEEYFEKATEYFQKAVD--EDPNNELYRKSLEMAAK--  125 (186)
T ss_dssp             HHHHHHHHHHHHHH-TT--HHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHH--H-TT-HHHHHHHHHHHT--
T ss_pred             HHHHHHHHHHHHhcCCc-hHHHHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHh--cCCCcHHHHHHHHHHHh--
Confidence            44555555555543333 3456666666665433    3       3445555555555  57888999888877753  


Q ss_pred             hHHHHHHHHHHHHHcC
Q 039637           80 MYMLAYRTMVDMHRKG   95 (159)
Q Consensus        80 ~~~~a~~~~~~m~~~g   95 (159)
                          |=+++.++.+.+
T Consensus       126 ----ap~lh~e~~~~~  137 (186)
T PF06552_consen  126 ----APELHMEIHKQG  137 (186)
T ss_dssp             ----HHHHHHHHHHSS
T ss_pred             ----hHHHHHHHHHHH
Confidence                334455555443

Most mitochondrial proteins are encoded by the nuclear genome, and are synthesised in the cytosol. TOM20 is a general import receptor that binds to mitochondrial pre-sequences in the early step of protein import into the mitochondria [].; GO: 0045040 protein import into mitochondrial outer membrane, 0005742 mitochondrial outer membrane translocase complex; PDB: 1ZU2_A.

>PRK10564 maltose regulon periplasmic protein; Provisional

Probab=86.20  E-value=3  Score=29.17  Aligned_cols=40  Identities=13%  Similarity=0.051  Sum_probs=21.8

Q ss_pred             CcHHHH-HHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHH
Q 039637           98 PEEELC-SSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKAL  137 (159)
Q Consensus        98 ~~~~~~-~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  137 (159)
                      |+...| +.-|....+.|++++|++++++....|..--..+
T Consensus       254 ~dTe~Yy~~aI~~AVk~gDi~KAL~LldEAe~LG~~~Ar~t  294 (303)
T PRK10564        254 NDTESYFNQAIKQAVKKGDVDKALKLLDEAERLGSTSARST  294 (303)
T ss_pred             chHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCchHHHH
Confidence            444333 4556666666666666666666665555433333

>PF13934 ELYS: Nuclear pore complex assembly

Probab=85.69  E-value=8.6  Score=25.82  Aligned_cols=88  Identities=13%  Similarity=0.084  Sum_probs=42.5

Q ss_pred             HHHHHHHHH--hcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHH
Q 039637           33 LNSMLCAYC--RTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHL  110 (159)
Q Consensus        33 ~~~ll~~~~--~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~  110 (159)
                      |...++++.  ..+++++|.+++..-   .+.|+  --.-++.++...|+.+.|..++..+.-..  .+...-..++.. 
T Consensus        79 ~~~~~~g~W~LD~~~~~~A~~~L~~p---s~~~~--~~~~Il~~L~~~~~~~lAL~y~~~~~p~l--~s~~~~~~~~~~-  150 (226)
T PF13934_consen   79 YIKFIQGFWLLDHGDFEEALELLSHP---SLIPW--FPDKILQALLRRGDPKLALRYLRAVGPPL--SSPEALTLYFVA-  150 (226)
T ss_pred             HHHHHHHHHHhChHhHHHHHHHhCCC---CCCcc--cHHHHHHHHHHCCChhHHHHHHHhcCCCC--CCHHHHHHHHHH-
Confidence            455555554  345566666665221   11111  11235556666677776766666543211  122222223333 


Q ss_pred             HccCCHHHHHHHHHHHHh
Q 039637          111 GKMRAHSEALSVYNMLRY  128 (159)
Q Consensus       111 ~~~g~~~~a~~~~~~~~~  128 (159)
                      ..++.+.+|..+-+....
T Consensus       151 La~~~v~EAf~~~R~~~~  168 (226)
T PF13934_consen  151 LANGLVTEAFSFQRSYPD  168 (226)
T ss_pred             HHcCCHHHHHHHHHhCch
Confidence            455677777666555443

>cd00280 TRFH Telomeric Repeat binding Factor or TTAGGG Repeat binding Factor, central (dimerization) domain Homology; TRFH

Probab=85.67  E-value=7.7  Score=25.26  Aligned_cols=20  Identities=5%  Similarity=0.022  Sum_probs=10.3

Q ss_pred             HHHccChHHHHHHHHHHHHH
Q 039637           74 YFCKEKMYMLAYRTMVDMHR   93 (159)
Q Consensus        74 ~~~~~~~~~~a~~~~~~m~~   93 (159)
                      .|.+.|.+++|.+++++...
T Consensus       120 VCm~~g~Fk~A~eiLkr~~~  139 (200)
T cd00280         120 VCMENGEFKKAEEVLKRLFS  139 (200)
T ss_pred             HHHhcCchHHHHHHHHHHhc
Confidence            35555555555555555443

Telomeres are protein/DNA complexes that make up the physical ends of eukaryotic linear chromosomes and are essential for chromosome stability, protecting the chromosome ends from degradation and end-to-end fusion. Proteins TRF1, TRF2 and Taz1 bind telomeric DNA and are also involved in recruiting interacting proteins, TIN2, and Rap1, to the telomeres. It has also been demonstrated that PARP1 associates with TRF2 and is capable of poly(ADP-ribosyl)ation of TRF2, which affects binding of TRF2 to telomeric DNA. TRF1, TRF2 and Taz1 proteins contain three functional domains: an N-terminal acidic domain, a central TRF-specific/dimerization domain, and a C-terminal DNA binding domain with a single Myb-like repeat. Homodimerization, a prerequisite to DNA binding, results in the juxtaposition of two Myb DNA binding domains.

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=85.64  E-value=10  Score=29.93  Aligned_cols=52  Identities=13%  Similarity=-0.022  Sum_probs=31.6

Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHhCCCCCCHH-----------HHHHHHHHHHhcCcHHHHhhhh
Q 039637          105 SLIFHLGKMRAHSEALSVYNMLRYSKRSMCKA-----------LHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus       105 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~-----------~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      .++......+++++|.++-+...+.  .|+..           -|.-.-.+|.++|+-.+|..++
T Consensus       778 siVqlHve~~~W~eAFalAe~hPe~--~~dVy~pyaqwLAE~DrFeEAqkAfhkAGr~~EA~~vL  840 (1081)
T KOG1538|consen  778 SLVQLHVETQRWDEAFALAEKHPEF--KDDVYMPYAQWLAENDRFEEAQKAFHKAGRQREAVQVL  840 (1081)
T ss_pred             HHhhheeecccchHhHhhhhhCccc--cccccchHHHHhhhhhhHHHHHHHHHHhcchHHHHHHH
Confidence            5667777888899998887766542  22211           1333345666666666666554

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=85.51  E-value=5.3  Score=23.24  Aligned_cols=51  Identities=18%  Similarity=0.254  Sum_probs=21.6

Q ss_pred             HHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcC
Q 039637           39 AYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKG   95 (159)
Q Consensus        39 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g   95 (159)
                      .+...|+|++|+.+...+    ..||...|..|-.  .+.|..++....+..|..+|
T Consensus        48 SLmNrG~Yq~Al~l~~~~----~~pdlepw~ALce--~rlGl~s~l~~rl~rla~sg   98 (115)
T TIGR02508        48 SLMNRGDYQSALQLGNKL----CYPDLEPWLALCE--WRLGLGSALESRLNRLAASG   98 (115)
T ss_pred             HHHccchHHHHHHhcCCC----CCchHHHHHHHHH--HhhccHHHHHHHHHHHHhCC
Confidence            344445555555444433    2344444443322  23344444444444444443

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.

>smart00386 HAT HAT (Half-A-TPR) repeats

Probab=85.46  E-value=2  Score=18.21  Aligned_cols=29  Identities=17%  Similarity=0.130  Sum_probs=18.4

Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 039637            9 GCFEETKQLAGDFEAKYDKYDVVLLNSMLC   38 (159)
Q Consensus         9 ~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~   38 (159)
                      |+++.|..+|+.+....+ -+...|...+.
T Consensus         1 ~~~~~~r~i~e~~l~~~~-~~~~~W~~y~~   29 (33)
T smart00386        1 GDIERARKIYERALEKFP-KSVELWLKYAE   29 (33)
T ss_pred             CcHHHHHHHHHHHHHHCC-CChHHHHHHHH
Confidence            456777777777775544 36666665554

Present in several RNA-binding proteins. Structurally and sequentially thought to be similar to TPRs.

>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=85.40  E-value=5.5  Score=23.33  Aligned_cols=27  Identities=19%  Similarity=0.103  Sum_probs=17.8

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHh
Q 039637          102 LCSSLIFHLGKMRAHSEALSVYNMLRY  128 (159)
Q Consensus       102 ~~~~li~~~~~~g~~~~a~~~~~~~~~  128 (159)
                      -|..|+..|...|..++|.+++.++..
T Consensus        41 ~~~eL~~lY~~kg~h~~AL~ll~~l~~   67 (108)
T PF10366_consen   41 KYQELVDLYQGKGLHRKALELLKKLAD   67 (108)
T ss_pred             CHHHHHHHHHccCccHHHHHHHHHHhc
Confidence            456666666677777777777666654

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.

>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=85.10  E-value=4  Score=21.50  Aligned_cols=49  Identities=6%  Similarity=0.014  Sum_probs=23.8

Q ss_pred             CChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHc
Q 039637           63 PDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGK  112 (159)
Q Consensus        63 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~  112 (159)
                      |+...++.++..+++..-.++++..+.+..+.|. .+..+|---++.+++
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            4444555555555555555555555555555543 344444444444433

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.

>cd08819 CARD_MDA5_2 Caspase activation and recruitment domain found in MDA5, second repeat

Probab=85.03  E-value=5  Score=22.55  Aligned_cols=67  Identities=12%  Similarity=-0.065  Sum_probs=49.9

Q ss_pred             HHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHH
Q 039637           48 SVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEAL  120 (159)
Q Consensus        48 ~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~  120 (159)
                      .+.+++..+.+.|+ .+......+-.+-...|+.+.|.+++..+. .|  |+  .|..+++++-..|.-+-|.
T Consensus        20 ~~~~v~d~ll~~~i-lT~~d~e~I~aa~~~~g~~~~ar~LL~~L~-rg--~~--aF~~Fl~aLreT~~~~LA~   86 (88)
T cd08819          20 KTRDVCDKCLEQGL-LTEEDRNRIEAATENHGNESGARELLKRIV-QK--EG--WFSKFLQALRETEHHELAR   86 (88)
T ss_pred             hHHHHHHHHHhcCC-CCHHHHHHHHHhccccCcHHHHHHHHHHhc-cC--Cc--HHHHHHHHHHHcCchhhhh
Confidence            36778888888885 455555544444446689999999999998 54  44  7889999999988877664

Caspase activation and recruitment domain (CARD) found in MDA5 (melanoma-differentiation-associated gene 5), second repeat. MDA5, also known as IFIH1, contains two N-terminal CARD domains and a C-terminal RNA helicase domain. MDA5 is a cytoplasmic DEAD box RNA helicase that plays an important role in host antiviral response by sensing incoming viral RNA. Upon activation, the signal is transferred to downstream pathways via the adaptor molecule IPS-1 (MAVS, VISA, CARDIF), leading to the induction of type I interferons. Although very similar in sequence, MDA5 recognizes different sets of viruses compared to RIG-I, a related RNA helicase. MDA5 associates with IPS-1 through a CARD-CARD interaction. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. DDs are protei

>PF01475 FUR: Ferric uptake regulator family; InterPro: IPR002481 The Ferric uptake regulator (FUR) family includes metal ion uptake regulator proteins

Probab=84.88  E-value=1.9  Score=25.56  Aligned_cols=51  Identities=8%  Similarity=-0.019  Sum_probs=35.2

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccCh
Q 039637           30 VVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKM   80 (159)
Q Consensus        30 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~   80 (159)
                      +..-..++..+...+..-.|.++++.+.+.+...+..|.-.-|+.+...|-
T Consensus         7 T~~R~~Il~~l~~~~~~~ta~ei~~~l~~~~~~is~~TVYR~L~~L~e~Gl   57 (120)
T PF01475_consen    7 TPQRLAILELLKESPEHLTAEEIYDKLRKKGPRISLATVYRTLDLLEEAGL   57 (120)
T ss_dssp             HHHHHHHHHHHHHHSSSEEHHHHHHHHHHTTTT--HHHHHHHHHHHHHTTS
T ss_pred             CHHHHHHHHHHHcCCCCCCHHHHHHHhhhccCCcCHHHHHHHHHHHHHCCe
Confidence            344556777777777788888888888887777777766666777766654

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 ....

>smart00028 TPR Tetratricopeptide repeats

Probab=84.82  E-value=1.9  Score=17.50  Aligned_cols=24  Identities=25%  Similarity=0.398  Sum_probs=10.9

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHh
Q 039637           33 LNSMLCAYCRTGDMESVMHVMRKL   56 (159)
Q Consensus        33 ~~~ll~~~~~~~~~~~a~~~~~~m   56 (159)
                      |..+...+...+++++|...|.+.
T Consensus         4 ~~~~a~~~~~~~~~~~a~~~~~~~   27 (34)
T smart00028        4 LYNLGNAYLKLGDYDEALEYYEKA   27 (34)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHH
Confidence            333444444444444444444443

Repeats present in 4 or more copies in proteins. Contain a minimum of 34 amino acids each and self-associate via a "knobs and holes" mechanism.

>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B

Probab=84.74  E-value=4  Score=21.18  Aligned_cols=46  Identities=17%  Similarity=0.322  Sum_probs=24.1

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHh
Q 039637           11 FEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDE   58 (159)
Q Consensus        11 ~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~   58 (159)
                      ++...++++.+...  ..|-.-.-.+|.++...|++++|.+..+++.+
T Consensus         6 ~~~~~~~~~~lR~~--RHD~~NhLqvI~gllqlg~~~~a~eYi~~~~~   51 (62)
T PF14689_consen    6 LEELEELIDSLRAQ--RHDFLNHLQVIYGLLQLGKYEEAKEYIKELSK   51 (62)
T ss_dssp             HHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH--hHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            44444454444421  12444444566666677777777666666544

>PF11768 DUF3312: Protein of unknown function (DUF3312); InterPro: IPR024511 This is a eukaryotic family of uncharacterised proteins that contain WD40 repeats

Probab=84.72  E-value=16  Score=28.03  Aligned_cols=19  Identities=26%  Similarity=0.282  Sum_probs=9.8

Q ss_pred             hHHHhcCCHHHHHHHHHHH
Q 039637            3 SAFCRSGCFEETKQLAGDF   21 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~   21 (159)
                      .-|.+.+++++|..++..|
T Consensus       416 ~~yl~~~qi~eAi~lL~sm  434 (545)
T PF11768_consen  416 SQYLRCDQIEEAINLLLSM  434 (545)
T ss_pred             HHHHhcCCHHHHHHHHHhC
Confidence            3455555555555555444

>PRK10564 maltose regulon periplasmic protein; Provisional

Probab=84.61  E-value=2.9  Score=29.28  Aligned_cols=29  Identities=14%  Similarity=0.398  Sum_probs=14.3

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHhHhcCCC
Q 039637           34 NSMLCAYCRTGDMESVMHVMRKLDELAIS   62 (159)
Q Consensus        34 ~~ll~~~~~~~~~~~a~~~~~~m~~~~~~   62 (159)
                      +..|....+.||.++|+.++++..+.|+.
T Consensus       261 ~~aI~~AVk~gDi~KAL~LldEAe~LG~~  289 (303)
T PRK10564        261 NQAIKQAVKKGDVDKALKLLDEAERLGST  289 (303)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCCc
Confidence            44444445555555555555555444443

>cd07153 Fur_like Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators

Probab=84.46  E-value=3.8  Score=24.03  Aligned_cols=47  Identities=9%  Similarity=0.067  Sum_probs=32.4

Q ss_pred             HHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChH
Q 039637           35 SMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMY   81 (159)
Q Consensus        35 ~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~   81 (159)
                      .+++.+...+..-.|.++++.+.+.+..++..|.-..|+.+...|-.
T Consensus         5 ~Il~~l~~~~~~~sa~ei~~~l~~~~~~i~~~TVYR~L~~L~~~Gli   51 (116)
T cd07153           5 AILEVLLESDGHLTAEEIYERLRKKGPSISLATVYRTLELLEEAGLV   51 (116)
T ss_pred             HHHHHHHhCCCCCCHHHHHHHHHhcCCCCCHHHHHHHHHHHHhCCCE
Confidence            34555555566677888888888777666777766677777776654

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.

>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=84.27  E-value=6.2  Score=22.95  Aligned_cols=17  Identities=18%  Similarity=0.307  Sum_probs=7.4

Q ss_pred             HHHhcCCHHHHHHHHHH
Q 039637            4 AFCRSGCFEETKQLAGD   20 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~   20 (159)
                      .|...|+.++|.+.+.+
T Consensus        11 ey~~~~d~~ea~~~l~e   27 (113)
T PF02847_consen   11 EYFSSGDVDEAVECLKE   27 (113)
T ss_dssp             HHHHHT-HHHHHHHHHH
T ss_pred             HHhcCCCHHHHHHHHHH
Confidence            34444445554444444

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 ....

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=84.21  E-value=9.6  Score=25.10  Aligned_cols=88  Identities=11%  Similarity=0.014  Sum_probs=55.6

Q ss_pred             HHHHhcCChHHHHHHHHHhHhcCCCCChhhHH-----HHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHc
Q 039637           38 CAYCRTGDMESVMHVMRKLDELAISPDYNTFH-----ILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGK  112 (159)
Q Consensus        38 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~-----~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~  112 (159)
                      ..+...+++++|..-++.....   |....+.     .|-+.....|.+++|+..++.....+.  .......-.+.+..
T Consensus        97 k~~ve~~~~d~A~aqL~~~l~~---t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~~~w--~~~~~elrGDill~  171 (207)
T COG2976          97 KAEVEANNLDKAEAQLKQALAQ---TKDENLKALAALRLARVQLQQKKADAALKTLDTIKEESW--AAIVAELRGDILLA  171 (207)
T ss_pred             HHHHhhccHHHHHHHHHHHHcc---chhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhccccccH--HHHHHHHhhhHHHH
Confidence            3466778888888777766542   3323333     333445667788888887776665443  22334445667777


Q ss_pred             cCCHHHHHHHHHHHHhCC
Q 039637          113 MRAHSEALSVYNMLRYSK  130 (159)
Q Consensus       113 ~g~~~~a~~~~~~~~~~~  130 (159)
                      .|+-++|..-|++.....
T Consensus       172 kg~k~~Ar~ay~kAl~~~  189 (207)
T COG2976         172 KGDKQEARAAYEKALESD  189 (207)
T ss_pred             cCchHHHHHHHHHHHHcc
Confidence            888888888888777654

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=84.13  E-value=10  Score=25.31  Aligned_cols=89  Identities=17%  Similarity=0.070  Sum_probs=54.4

Q ss_pred             HHHHhcCChHHHHHHHHHhHhcCCCCCh------hhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHH
Q 039637           38 CAYCRTGDMESVMHVMRKLDELAISPDY------NTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLG  111 (159)
Q Consensus        38 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~------~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  111 (159)
                      +-+.++|++++|..-|...+..  .|..      ..|..-..++.+.+.++.|++--...++.+.. .......-..+|.
T Consensus       103 N~~F~ngdyeeA~skY~~Ale~--cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pt-y~kAl~RRAeaye  179 (271)
T KOG4234|consen  103 NELFKNGDYEEANSKYQEALES--CPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPT-YEKALERRAEAYE  179 (271)
T ss_pred             HHhhhcccHHHHHHHHHHHHHh--CccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCch-hHHHHHHHHHHHH
Confidence            3456778888888888777763  3332      23444445566777777777766666655421 2223333345677


Q ss_pred             ccCCHHHHHHHHHHHHhC
Q 039637          112 KMRAHSEALSVYNMLRYS  129 (159)
Q Consensus       112 ~~g~~~~a~~~~~~~~~~  129 (159)
                      +...+++|..=|+++...
T Consensus       180 k~ek~eealeDyKki~E~  197 (271)
T KOG4234|consen  180 KMEKYEEALEDYKKILES  197 (271)
T ss_pred             hhhhHHHHHHHHHHHHHh
Confidence            777788887777777654

>PRK11906 transcriptional regulator; Provisional

Probab=84.08  E-value=16  Score=27.45  Aligned_cols=143  Identities=6%  Similarity=-0.046  Sum_probs=86.7

Q ss_pred             HHHHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHh---------cCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccC
Q 039637           11 FEETKQLAGDFEAK-YDKYD-VVLLNSMLCAYCR---------TGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEK   79 (159)
Q Consensus        11 ~~~A~~~~~~~~~~-~~~~~-~~~~~~ll~~~~~---------~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~   79 (159)
                      .+.|..+|.+.... ...|+ ...|..+..++..         ..+..+|.++-.+.++.+ .-|......+-.+..-.+
T Consensus       274 ~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAveld-~~Da~a~~~~g~~~~~~~  352 (458)
T PRK11906        274 IYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSDIT-TVDGKILAIMGLITGLSG  352 (458)
T ss_pred             HHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHhhc
Confidence            46788889888722 23343 4455554444332         223456777777777744 245666666666667778


Q ss_pred             hHHHHHHHHHHHHHcCCCCc-HHHHHHHHHHHHccCCHHHHHHHHHHHHh-CCCCCCHHHHHHHHHHHHhcCcHHHHhhh
Q 039637           80 MYMLAYRTMVDMHRKGHQPE-EELCSSLIFHLGKMRAHSEALSVYNMLRY-SKRSMCKALHEKILHILISGKLLKDAYIV  157 (159)
Q Consensus        80 ~~~~a~~~~~~m~~~g~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  157 (159)
                      +++.+..+|++....  .|| ..+|-.......-.|+.++|...+++... +..+.-..+....++.|+..+ +++|..+
T Consensus       353 ~~~~a~~~f~rA~~L--~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~~~~~~~~~~~~~~~~~~~-~~~~~~~  429 (458)
T PRK11906        353 QAKVSHILFEQAKIH--STDIASLYYYRALVHFHNEKIEEARICIDKSLQLEPRRRKAVVIKECVDMYVPNP-LKNNIKL  429 (458)
T ss_pred             chhhHHHHHHHHhhc--CCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCchhhHHHHHHHHHHHHcCCc-hhhhHHH
Confidence            899999999998875  354 44555555556678999999999998543 222222222223334555443 4555544

>PF14669 Asp_Glu_race_2: Putative aspartate racemase

Probab=84.08  E-value=5.1  Score=26.31  Aligned_cols=56  Identities=13%  Similarity=0.045  Sum_probs=44.0

Q ss_pred             HHHHHHHccChHHHHHHHHHHHHHcCCC--------------CcHHHHHHHHHHHHccCCHHHHHHHHHH
Q 039637           70 ILIKYFCKEKMYMLAYRTMVDMHRKGHQ--------------PEEELCSSLIFHLGKMRAHSEALSVYNM  125 (159)
Q Consensus        70 ~ll~~~~~~~~~~~a~~~~~~m~~~g~~--------------~~~~~~~~li~~~~~~g~~~~a~~~~~~  125 (159)
                      .++..|-+.-+|.+++++++.|.+..+.              +--..-|.....+.+.|.+|.|..++++
T Consensus       137 S~m~~Yhk~~qW~KGrkvLd~l~el~i~ft~LKGL~g~e~~asrCqivn~AaEiFL~sgsidGA~~vLre  206 (233)
T PF14669_consen  137 SLMYSYHKTLQWSKGRKVLDKLHELQIHFTSLKGLTGPEKLASRCQIVNIAAEIFLKSGSIDGALWVLRE  206 (233)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhccCccCccccCchhhhHHHHHHHHHHcCCchHHHHHHhc
Confidence            5666788888999999999888753222              3345668888999999999999999984

>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=84.06  E-value=1.2  Score=27.13  Aligned_cols=32  Identities=9%  Similarity=0.104  Sum_probs=24.9

Q ss_pred             HccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 039637          111 GKMRAHSEALSVYNMLRYSKRSMCKALHEKILHI  144 (159)
Q Consensus       111 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  144 (159)
                      -..|.-..|.++|++|...|-+||..  +.|+..
T Consensus       106 R~ygsk~DaY~VF~kML~~G~pPddW--~~Ll~~  137 (140)
T PF11663_consen  106 RAYGSKTDAYAVFRKMLERGNPPDDW--DALLKE  137 (140)
T ss_pred             hhhccCCcHHHHHHHHHhCCCCCccH--HHHHHH
Confidence            34466778999999999999999864  566654

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 [].

>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=84.05  E-value=14  Score=26.75  Aligned_cols=58  Identities=16%  Similarity=0.025  Sum_probs=40.5

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHH
Q 039637           11 FEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFH   69 (159)
Q Consensus        11 ~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~   69 (159)
                      +-+|.-+++......+. |...--.++..|...|-...|..+|..+.-..+.-|.-.|.
T Consensus       199 l~~Ai~lLE~~l~~s~~-n~~~~LlLvrlY~~LG~~~~A~~~~~~L~iK~IQ~DTL~h~  256 (365)
T PF09797_consen  199 LLQAIALLEHALKKSPH-NYQLKLLLVRLYSLLGAGSLALEHYESLDIKNIQLDTLGHL  256 (365)
T ss_pred             HHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHhcChHHHHHHHhHHH
Confidence            44566666666655443 66666778888889999999999998887666655554444

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 [].

>KOG2063 consensus Vacuolar assembly/sorting proteins VPS39/VAM6/VPS3 [Intracellular trafficking, secretion, and vesicular transport]

Probab=83.91  E-value=17  Score=29.77  Aligned_cols=113  Identities=12%  Similarity=0.077  Sum_probs=71.3

Q ss_pred             ChhHHHhcCCHHHHHHHHHHHHhCC--CCC-CHHHHHHHHHHHHhcCCh--HHHHHHHHHhHhcCCCCChhhHH------
Q 039637            1 MISAFCRSGCFEETKQLAGDFEAKY--DKY-DVVLLNSMLCAYCRTGDM--ESVMHVMRKLDELAISPDYNTFH------   69 (159)
Q Consensus         1 ll~~~~~~~~~~~A~~~~~~~~~~~--~~~-~~~~~~~ll~~~~~~~~~--~~a~~~~~~m~~~~~~~~~~~~~------   69 (159)
                      |+..|...|+.++|+++|.......  ..+ -...+..+++-+.+.+..  +-+.+.-.+..+..-.-....++      
T Consensus       510 Li~LY~~kg~h~~AL~ll~~l~d~~~~~d~~~~~~~e~ii~YL~~l~~~~~~Li~~y~~wvl~~~p~~gi~Ift~~~~~~  589 (877)
T KOG2063|consen  510 LIELYATKGMHEKALQLLRDLVDEDSDTDSFQLDGLEKIIEYLKKLGAENLDLILEYADWVLNKNPEAGIQIFTSEDKQE  589 (877)
T ss_pred             HHHHHHhccchHHHHHHHHHHhccccccccchhhhHHHHHHHHHHhcccchhHHHHHhhhhhccCchhheeeeeccChhh
Confidence            4667899999999999999988632  111 122344455555555544  44555555544432111111111      


Q ss_pred             ------HHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHcc
Q 039637           70 ------ILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKM  113 (159)
Q Consensus        70 ------~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~  113 (159)
                            ..+-.|......+-+..+++++......++....+.++..|.+.
T Consensus       590 ~~sis~~~Vl~~l~~~~~~l~I~YLE~li~~~~~~~~~lht~ll~ly~e~  639 (877)
T KOG2063|consen  590 AESISRDDVLNYLKSKEPKLLIPYLEHLISDNRLTSTLLHTVLLKLYLEK  639 (877)
T ss_pred             hccCCHHHHHHHhhhhCcchhHHHHHHHhHhccccchHHHHHHHHHHHHH
Confidence                  23344566677788899999999877777888888888888764

>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=83.67  E-value=4.8  Score=21.22  Aligned_cols=51  Identities=12%  Similarity=0.039  Sum_probs=24.9

Q ss_pred             CcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 039637           98 PEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGK  149 (159)
Q Consensus        98 ~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  149 (159)
                      |+...++.++..+++-.-+++++..+.+....|. .+..+|..-++.+++..
T Consensus         6 ~~~~l~~Ql~el~Aed~AieDtiy~L~~al~~g~-I~~d~~lK~vR~LaReQ   56 (65)
T PF09454_consen    6 AEDPLSNQLYELVAEDHAIEDTIYYLDRALQRGS-IDLDTFLKQVRSLAREQ   56 (65)
T ss_dssp             -SSHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTS-S-HHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHHH
Confidence            3344555555555555555555555555554332 34445555555554443

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.

>PRK09462 fur ferric uptake regulator; Provisional

Probab=83.48  E-value=8.3  Score=23.86  Aligned_cols=34  Identities=18%  Similarity=0.129  Sum_probs=15.1

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 039637          116 HSEALSVYNMLRYSKRSMCKALHEKILHILISGK  149 (159)
Q Consensus       116 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  149 (159)
                      .-.|..+++.+...+...+..|.-..+..+...|
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            3344444444444444444444444444444444

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=83.41  E-value=9  Score=32.05  Aligned_cols=144  Identities=15%  Similarity=0.093  Sum_probs=75.6

Q ss_pred             HHhcCCHHHHHHHHHHHHhC-----CCCCCH--HHHHHHHHHHHhcC--ChHHHHHHHHHhH--hcC---CCCChhhHHH
Q 039637            5 FCRSGCFEETKQLAGDFEAK-----YDKYDV--VLLNSMLCAYCRTG--DMESVMHVMRKLD--ELA---ISPDYNTFHI   70 (159)
Q Consensus         5 ~~~~~~~~~A~~~~~~~~~~-----~~~~~~--~~~~~ll~~~~~~~--~~~~a~~~~~~m~--~~~---~~~~~~~~~~   70 (159)
                      --...++.+-+.+++++++.     .+.-|.  .-|...+..+.+.|  -+++++.+.++=.  ..+   .+|+...+..
T Consensus       861 q~SqkDPkEyLP~L~el~~m~~~~rkF~ID~~L~ry~~AL~hLs~~~~~~~~e~~n~I~kh~Ly~~aL~ly~~~~e~~k~  940 (1265)
T KOG1920|consen  861 QKSQKDPKEYLPFLNELKKMETLLRKFKIDDYLKRYEDALSHLSECGETYFPECKNYIKKHGLYDEALALYKPDSEKQKV  940 (1265)
T ss_pred             HHhccChHHHHHHHHHHhhchhhhhheeHHHHHHHHHHHHHHHHHcCccccHHHHHHHHhcccchhhhheeccCHHHHHH
Confidence            34557788888888877632     122222  13455555555555  4555544433210  000   2456666655


Q ss_pred             HHHHHH----ccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 039637           71 LIKYFC----KEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILI  146 (159)
Q Consensus        71 ll~~~~----~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  146 (159)
                      +..+|+    ....+++|--.|+..-+         ..-.+.+|-.+|+|.+|..+-.++...... -..+-..|+.-+.
T Consensus       941 i~~~ya~hL~~~~~~~~Aal~Ye~~Gk---------lekAl~a~~~~~dWr~~l~~a~ql~~~~de-~~~~a~~L~s~L~ 1010 (1265)
T KOG1920|consen  941 IYEAYADHLREELMSDEAALMYERCGK---------LEKALKAYKECGDWREALSLAAQLSEGKDE-LVILAEELVSRLV 1010 (1265)
T ss_pred             HHHHHHHHHHHhccccHHHHHHHHhcc---------HHHHHHHHHHhccHHHHHHHHHhhcCCHHH-HHHHHHHHHHHHH
Confidence            554443    33455555444433221         123566677777777777777666542111 1222356778888


Q ss_pred             hcCcHHHHhhhh
Q 039637          147 SGKLLKDAYIVV  158 (159)
Q Consensus       147 ~~g~~~~A~~~~  158 (159)
                      ..++.-+|-+++
T Consensus      1011 e~~kh~eAa~il 1022 (1265)
T KOG1920|consen 1011 EQRKHYEAAKIL 1022 (1265)
T ss_pred             HcccchhHHHHH
Confidence            888777776653

>PRK11639 zinc uptake transcriptional repressor; Provisional

Probab=82.76  E-value=10  Score=24.22  Aligned_cols=59  Identities=7%  Similarity=-0.002  Sum_probs=26.5

Q ss_pred             HhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCH
Q 039637           57 DELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAH  116 (159)
Q Consensus        57 ~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~  116 (159)
                      .+.|++++..=.. ++......+..-.|.++++.+.+.+..++..|--..|..+.+.|-+
T Consensus        18 ~~~GlR~T~qR~~-IL~~l~~~~~hlSa~eI~~~L~~~~~~is~aTVYRtL~~L~e~Glv   76 (169)
T PRK11639         18 AQRNVRLTPQRLE-VLRLMSLQPGAISAYDLLDLLREAEPQAKPPTVYRALDFLLEQGFV   76 (169)
T ss_pred             HHcCCCCCHHHHH-HHHHHHhcCCCCCHHHHHHHHHhhCCCCCcchHHHHHHHHHHCCCE
Confidence            3445544433332 3333333333445555666655555444444433444445554433

>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=82.42  E-value=7.5  Score=22.58  Aligned_cols=62  Identities=15%  Similarity=0.270  Sum_probs=36.1

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccC--hHHHHHHHHHHHHHcCCC
Q 039637           34 NSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEK--MYMLAYRTMVDMHRKGHQ   97 (159)
Q Consensus        34 ~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~--~~~~a~~~~~~m~~~g~~   97 (159)
                      ..++..|...++.++|...+.++...  .-.......++..+...+  .-+....++..+.+.+.-
T Consensus         6 ~~~l~ey~~~~d~~ea~~~l~el~~~--~~~~~vv~~~l~~~le~~~~~r~~~~~Ll~~L~~~~~~   69 (113)
T PF02847_consen    6 FSILMEYFSSGDVDEAVECLKELKLP--SQHHEVVKVILECALEEKKSYREYYSKLLSHLCKRKLI   69 (113)
T ss_dssp             HHHHHHHHHHT-HHHHHHHHHHTT-G--GGHHHHHHHHHHHHHTSSHHHHHHHHHHHHHHHHTTSS
T ss_pred             HHHHHHHhcCCCHHHHHHHHHHhCCC--ccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHhcCCC
Confidence            45666778889999999999887442  111233344555554442  233455667777776653

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 ....

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=82.20  E-value=3.8  Score=30.27  Aligned_cols=126  Identities=13%  Similarity=0.009  Sum_probs=88.8

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHhHhc----CCCC-ChhhHHHHHHHHHccChHHHHHHHHHHHHH----cC-CCCcHH
Q 039637           32 LLNSMLCAYCRTGDMESVMHVMRKLDEL----AISP-DYNTFHILIKYFCKEKMYMLAYRTMVDMHR----KG-HQPEEE  101 (159)
Q Consensus        32 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~----~g-~~~~~~  101 (159)
                      .|..|-+.|.-.|+++.|+...+.-...    |-+. -...++.+-+++.-.|+++.|.+.|..-..    .| ......
T Consensus       197 a~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEAQ  276 (639)
T KOG1130|consen  197 AYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEAQ  276 (639)
T ss_pred             hhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHHH
Confidence            5667777778889999998877654431    2211 246788899999999999999998876542    22 233556


Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhC-----CCCCCHHHHHHHHHHHHhcCcHHHHhhh
Q 039637          102 LCSSLIFHLGKMRAHSEALSVYNMLRYS-----KRSMCKALHEKILHILISGKLLKDAYIV  157 (159)
Q Consensus       102 ~~~~li~~~~~~g~~~~a~~~~~~~~~~-----~~~~~~~~~~~l~~~~~~~g~~~~A~~~  157 (159)
                      .+-+|...|--...+++|+.++++-..-     ...-....+-++-.++...|..+.|+.+
T Consensus       277 scYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~f  337 (639)
T KOG1130|consen  277 SCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYF  337 (639)
T ss_pred             HHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHH
Confidence            6778889998889999999988743321     1122344677888888888888888764

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=82.14  E-value=21  Score=27.45  Aligned_cols=95  Identities=13%  Similarity=0.084  Sum_probs=65.5

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHH
Q 039637           28 YDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLI  107 (159)
Q Consensus        28 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li  107 (159)
                      .|....-+++..+..+-+++-++.+-.+|..-|  -+...|..++.+|... ..+.-..+|+++.+... -|+..-..|.
T Consensus        64 l~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en-~n~~l~~lWer~ve~df-nDvv~~ReLa  139 (711)
T COG1747          64 LDDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVEYDF-NDVVIGRELA  139 (711)
T ss_pred             ccchHHHHHHHHhccchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcc-hhHHHHHHHH
Confidence            355667788888899888999999999999854  6778888999999888 55666778887777543 2333333444


Q ss_pred             HHHHccCCHHHHHHHHHHHH
Q 039637          108 FHLGKMRAHSEALSVYNMLR  127 (159)
Q Consensus       108 ~~~~~~g~~~~a~~~~~~~~  127 (159)
                      ..|.+ ++.+.+..+|.++.
T Consensus       140 ~~yEk-ik~sk~a~~f~Ka~  158 (711)
T COG1747         140 DKYEK-IKKSKAAEFFGKAL  158 (711)
T ss_pred             HHHHH-hchhhHHHHHHHHH
Confidence            44444 55555555555444

>PF06552 TOM20_plant: Plant specific mitochondrial import receptor subunit TOM20; InterPro: IPR010547 This family consists of several plant specific mitochondrial import receptor subunit TOM20 (translocase of outer membrane 20 kDa subunit) proteins

Probab=82.11  E-value=11  Score=24.41  Aligned_cols=97  Identities=15%  Similarity=0.129  Sum_probs=54.1

Q ss_pred             HHHHHHHHHHHHhCCCCCCHH---HHHHHHHHHHhcCChHHHHHH-------HHHhHhcCCCCCh-hhHHHHHHHHHccC
Q 039637           11 FEETKQLAGDFEAKYDKYDVV---LLNSMLCAYCRTGDMESVMHV-------MRKLDELAISPDY-NTFHILIKYFCKEK   79 (159)
Q Consensus        11 ~~~A~~~~~~~~~~~~~~~~~---~~~~ll~~~~~~~~~~~a~~~-------~~~m~~~~~~~~~-~~~~~ll~~~~~~~   79 (159)
                      ++.|.+-++.-...++. |..   -|...+.-+++.....++..+       |++...  +.|+. .++..+-.++...+
T Consensus         7 FE~ark~aea~y~~nP~-DadnL~~WG~ALLELAqfk~g~es~~miedAisK~eeAL~--I~P~~hdAlw~lGnA~ts~A   83 (186)
T PF06552_consen    7 FEHARKKAEAAYAKNPL-DADNLTNWGGALLELAQFKQGPESKKMIEDAISKFEEALK--INPNKHDALWCLGNAYTSLA   83 (186)
T ss_dssp             HHHHHHHHHHHHHH-TT--HHHHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHHHHHHH--H-TT-HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcH-hHHHHHHHHHHHHHHHhccCcchHHHHHHHHHHHHHHHHh--cCCchHHHHHHHHHHHHHHH
Confidence            56666766665544444 443   455555555555554444444       444444  67874 66666777765543


Q ss_pred             h-----------HHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHc
Q 039637           80 M-----------YMLAYRTMVDMHRKGHQPEEELCSSLIFHLGK  112 (159)
Q Consensus        80 ~-----------~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~  112 (159)
                      .           +++|.+.|++..+  ..|+..+|+.-+....+
T Consensus        84 ~l~~d~~~A~~~F~kA~~~FqkAv~--~~P~ne~Y~ksLe~~~k  125 (186)
T PF06552_consen   84 FLTPDTAEAEEYFEKATEYFQKAVD--EDPNNELYRKSLEMAAK  125 (186)
T ss_dssp             HH---HHHHHHHHHHHHHHHHHHHH--H-TT-HHHHHHHHHHHT
T ss_pred             hhcCChHHHHHHHHHHHHHHHHHHh--cCCCcHHHHHHHHHHHh
Confidence            2           4556666666655  36899999988888643

Most mitochondrial proteins are encoded by the nuclear genome, and are synthesised in the cytosol. TOM20 is a general import receptor that binds to mitochondrial pre-sequences in the early step of protein import into the mitochondria [].; GO: 0045040 protein import into mitochondrial outer membrane, 0005742 mitochondrial outer membrane translocase complex; PDB: 1ZU2_A.

>KOG2422 consensus Uncharacterized conserved protein [Function unknown]

Probab=81.80  E-value=22  Score=27.57  Aligned_cols=90  Identities=10%  Similarity=0.288  Sum_probs=59.6

Q ss_pred             hhHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH-hcCChHHHHHHHHHhHhc---CCCCChhhHH-HHHHHHH
Q 039637            2 ISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYC-RTGDMESVMHVMRKLDEL---AISPDYNTFH-ILIKYFC   76 (159)
Q Consensus         2 l~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~~a~~~~~~m~~~---~~~~~~~~~~-~ll~~~~   76 (159)
                      |+.+.+.|.|..|.++-+.+.+..+..|+...-.+|+.|+ ++.+++-.+++++.....   ..-||. .|+ ++...|.
T Consensus       349 m~~l~~RGC~rTA~E~cKlllsLdp~eDPl~~l~~ID~~ALrareYqwiI~~~~~~e~~n~l~~~PN~-~yS~AlA~f~l  427 (665)
T KOG2422|consen  349 MQSLAQRGCWRTALEWCKLLLSLDPSEDPLGILYLIDIYALRAREYQWIIELSNEPENMNKLSQLPNF-GYSLALARFFL  427 (665)
T ss_pred             HHHHHhcCChHHHHHHHHHHhhcCCcCCchhHHHHHHHHHHHHHhHHHHHHHHHHHHhhccHhhcCCc-hHHHHHHHHHH
Confidence            4566788999999999888888877778888888898887 567788788887766432   233443 444 4444455


Q ss_pred             ccCh---HHHHHHHHHHHH
Q 039637           77 KEKM---YMLAYRTMVDMH   92 (159)
Q Consensus        77 ~~~~---~~~a~~~~~~m~   92 (159)
                      +...   -..|+..+.+..
T Consensus       428 ~~~~~~~rqsa~~~l~qAl  446 (665)
T KOG2422|consen  428 RKNEEDDRQSALNALLQAL  446 (665)
T ss_pred             hcCChhhHHHHHHHHHHHH
Confidence            4443   234444444444

>PF09477 Type_III_YscG: Bacterial type II secretion system chaperone protein (type_III_yscG); InterPro: IPR013348 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)

Probab=81.64  E-value=8.5  Score=22.67  Aligned_cols=18  Identities=22%  Similarity=-0.040  Sum_probs=8.0

Q ss_pred             HccCCHHHHHHHHHHHHh
Q 039637          111 GKMRAHSEALSVYNMLRY  128 (159)
Q Consensus       111 ~~~g~~~~a~~~~~~~~~  128 (159)
                      .+.|--+++...+.++-.
T Consensus        80 ~klGL~~~~e~~l~rla~   97 (116)
T PF09477_consen   80 WKLGLASALESRLTRLAS   97 (116)
T ss_dssp             HHCT-HHHHHHHHHHHCT
T ss_pred             HhhccHHHHHHHHHHHHh
Confidence            344445555555544443

The secretion system delivers effector proteins, designated Yops (Yersinia outer proteins), in Yersinia. This entry consists of YscG from Yersinia, and functionally equivalent type III secretion proteins in other species: e.g. AscG in Aeromonas and LscG in Photorhabdus luminescens.; GO: 0009405 pathogenesis; PDB: 3PH0_D 2UWJ_G 2P58_C.

>PF10475 DUF2450: Protein of unknown function N-terminal domain (DUF2450) ; InterPro: IPR019515 This entry represents Vacuolar protein sorting-associated protein 54, and is thought to be involved in retrograde transport from early and late endosomes to late Golgi found in eukaryotes, but its function is not known

Probab=81.38  E-value=16  Score=25.59  Aligned_cols=87  Identities=9%  Similarity=0.104  Sum_probs=43.9

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHc-----CCCCcHHHH
Q 039637           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRK-----GHQPEEELC  103 (159)
Q Consensus        29 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-----g~~~~~~~~  103 (159)
                      ....-...+..+...|++.+|+++..+..+. + -+..-|+.+=..-   .++.+.......+.+.     -...|+..|
T Consensus       126 ~v~~~~~~l~~ll~~~dy~~Al~li~~~~~~-l-~~l~~~~c~~~L~---~~L~e~~~~i~~~ld~~l~~~~~~Fd~~~Y  200 (291)
T PF10475_consen  126 TVQQTQSRLQELLEEGDYPGALDLIEECQQL-L-EELKGYSCVRHLS---SQLQETLELIEEQLDSDLSKVCQDFDPDKY  200 (291)
T ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH-H-HhcccchHHHHHh---HHHHHHHHHHHHHHHHHHHHHHHhCCHHHH
Confidence            3344455566677788888888887776653 1 1111121111111   1122222222222211     113577788


Q ss_pred             HHHHHHHHccCCHHHHH
Q 039637          104 SSLIFHLGKMRAHSEAL  120 (159)
Q Consensus       104 ~~li~~~~~~g~~~~a~  120 (159)
                      ..+..+|.-.|+...+.
T Consensus       201 ~~v~~AY~lLgk~~~~~  217 (291)
T PF10475_consen  201 SKVQEAYQLLGKTQSAM  217 (291)
T ss_pred             HHHHHHHHHHhhhHHHH
Confidence            88888887777665544

>cd07153 Fur_like Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators

Probab=81.32  E-value=3.3  Score=24.27  Aligned_cols=46  Identities=9%  Similarity=0.055  Sum_probs=33.5

Q ss_pred             hhHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChH
Q 039637            2 ISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDME   47 (159)
Q Consensus         2 l~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~   47 (159)
                      ++.+...+..-.|.++++.+.+.++..+..|--..++.+.+.|-..
T Consensus         7 l~~l~~~~~~~sa~ei~~~l~~~~~~i~~~TVYR~L~~L~~~Gli~   52 (116)
T cd07153           7 LEVLLESDGHLTAEEIYERLRKKGPSISLATVYRTLELLEEAGLVR   52 (116)
T ss_pred             HHHHHhCCCCCCHHHHHHHHHhcCCCCCHHHHHHHHHHHHhCCCEE
Confidence            4455556667778888888888887777777777777777777544

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.

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=81.19  E-value=13  Score=24.51  Aligned_cols=85  Identities=11%  Similarity=-0.035  Sum_probs=59.1

Q ss_pred             HHHHHccChHHHHHHHHHHHHHcCCC--CcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 039637           72 IKYFCKEKMYMLAYRTMVDMHRKGHQ--PEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGK  149 (159)
Q Consensus        72 l~~~~~~~~~~~a~~~~~~m~~~g~~--~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  149 (159)
                      -..+...+++++|+..+++.+.....  ....+--.|.+.....|..|+|...++.....+..+  .....--+.+...|
T Consensus        96 Ak~~ve~~~~d~A~aqL~~~l~~t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~~~w~~--~~~elrGDill~kg  173 (207)
T COG2976          96 AKAEVEANNLDKAEAQLKQALAQTKDENLKALAALRLARVQLQQKKADAALKTLDTIKEESWAA--IVAELRGDILLAKG  173 (207)
T ss_pred             HHHHHhhccHHHHHHHHHHHHccchhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhccccccHHH--HHHHHhhhHHHHcC
Confidence            34578889999999999988753211  112233456778888999999999999887643331  12234457888999


Q ss_pred             cHHHHhhhh
Q 039637          150 LLKDAYIVV  158 (159)
Q Consensus       150 ~~~~A~~~~  158 (159)
                      +-++|..-|
T Consensus       174 ~k~~Ar~ay  182 (207)
T COG2976         174 DKQEARAAY  182 (207)
T ss_pred             chHHHHHHH
Confidence            988887654

>PRK09462 fur ferric uptake regulator; Provisional

Probab=81.00  E-value=11  Score=23.39  Aligned_cols=61  Identities=10%  Similarity=0.019  Sum_probs=45.1

Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHhc-CChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChH
Q 039637           20 DFEAKYDKYDVVLLNSMLCAYCRT-GDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMY   81 (159)
Q Consensus        20 ~~~~~~~~~~~~~~~~ll~~~~~~-~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~   81 (159)
                      .+.+.|.. .+..-..++..+... +..-.|.++++.+.+.+...+..|.-.-|+.+...|-.
T Consensus         7 ~l~~~glr-~T~qR~~Il~~l~~~~~~h~sa~eI~~~l~~~~~~i~~aTVYR~L~~L~e~Gli   68 (148)
T PRK09462          7 ALKKAGLK-VTLPRLKILEVLQEPDNHHVSAEDLYKRLIDMGEEIGLATVYRVLNQFDDAGIV   68 (148)
T ss_pred             HHHHcCCC-CCHHHHHHHHHHHhCCCCCCCHHHHHHHHHhhCCCCCHHHHHHHHHHHHHCCCE
Confidence            35666776 445566666776664 56889999999999988777887777788888877754

>cd00280 TRFH Telomeric Repeat binding Factor or TTAGGG Repeat binding Factor, central (dimerization) domain Homology; TRFH

Probab=80.82  E-value=13  Score=24.26  Aligned_cols=66  Identities=14%  Similarity=0.010  Sum_probs=42.0

Q ss_pred             HHHHHHHHHHHHHcCCCCc--H-----HHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 039637           81 YMLAYRTMVDMHRKGHQPE--E-----ELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGK  149 (159)
Q Consensus        81 ~~~a~~~~~~m~~~g~~~~--~-----~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  149 (159)
                      ++.|+.+|+.+.+.-..|+  .     ..-...+..|.+.|.+++|.+++++....   |+.......+...++.+
T Consensus        85 LESAl~v~~~I~~E~~~~~~lhe~i~~lik~~aV~VCm~~g~Fk~A~eiLkr~~~d---~~~~~~r~kL~~II~~K  157 (200)
T cd00280          85 LESALMVLESIEKEFSLPETLHEEIRKLIKEQAVAVCMENGEFKKAEEVLKRLFSD---PESQKLRMKLLMIIREK  157 (200)
T ss_pred             HHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHhcC---CCchhHHHHHHHHHHcc
Confidence            4578888888876533321  1     12234567789999999999999998863   33333344444444443

Telomeres are protein/DNA complexes that make up the physical ends of eukaryotic linear chromosomes and are essential for chromosome stability, protecting the chromosome ends from degradation and end-to-end fusion. Proteins TRF1, TRF2 and Taz1 bind telomeric DNA and are also involved in recruiting interacting proteins, TIN2, and Rap1, to the telomeres. It has also been demonstrated that PARP1 associates with TRF2 and is capable of poly(ADP-ribosyl)ation of TRF2, which affects binding of TRF2 to telomeric DNA. TRF1, TRF2 and Taz1 proteins contain three functional domains: an N-terminal acidic domain, a central TRF-specific/dimerization domain, and a C-terminal DNA binding domain with a single Myb-like repeat. Homodimerization, a prerequisite to DNA binding, results in the juxtaposition of two Myb DNA binding domains.

>PF13934 ELYS: Nuclear pore complex assembly

Probab=80.72  E-value=15  Score=24.75  Aligned_cols=20  Identities=30%  Similarity=0.451  Sum_probs=9.5

Q ss_pred             HHHHHHhcCChHHHHHHHHH
Q 039637           36 MLCAYCRTGDMESVMHVMRK   55 (159)
Q Consensus        36 ll~~~~~~~~~~~a~~~~~~   55 (159)
                      ++.++.+.|+...|+.++..
T Consensus       114 Il~~L~~~~~~~lAL~y~~~  133 (226)
T PF13934_consen  114 ILQALLRRGDPKLALRYLRA  133 (226)
T ss_pred             HHHHHHHCCChhHHHHHHHh
Confidence            44444444555555444443

>PF03745 DUF309: Domain of unknown function (DUF309); InterPro: IPR005500 This family consists of eubacterial and archaebacterial proteins of unknown function

Probab=80.49  E-value=6.4  Score=20.48  Aligned_cols=16  Identities=25%  Similarity=0.333  Sum_probs=7.1

Q ss_pred             hcCChHHHHHHHHHhH
Q 039637           42 RTGDMESVMHVMRKLD   57 (159)
Q Consensus        42 ~~~~~~~a~~~~~~m~   57 (159)
                      ..|++-+|.++++.+-
T Consensus        11 n~g~f~EaHEvlE~~W   26 (62)
T PF03745_consen   11 NAGDFFEAHEVLEELW   26 (62)
T ss_dssp             HTT-HHHHHHHHHHHC
T ss_pred             cCCCHHHhHHHHHHHH
Confidence            3444445555544443

The proteins contain a motif HXXXEXX(W/Y) where X can be any amino acid. This motif is likely to be functionally important and may be involved in metal binding.; PDB: 2CXD_B 2CWY_A 2IJQ_B.

>COG5159 RPN6 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]

Probab=80.48  E-value=18  Score=25.61  Aligned_cols=124  Identities=19%  Similarity=0.100  Sum_probs=74.1

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHH-------HHHHHHHHhcCChHHHHHHHHHhHhc----CCCCChhhHHHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLL-------NSMLCAYCRTGDMESVMHVMRKLDEL----AISPDYNTFHIL   71 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~-------~~ll~~~~~~~~~~~a~~~~~~m~~~----~~~~~~~~~~~l   71 (159)
                      +...+.+++++|..++.++...|...|..+.       .-+-..|.+.|++...-+......+.    .-...+-....|
T Consensus        11 ~~~v~~~~~~~ai~~yk~iL~kg~s~dek~~nEqE~tvlel~~lyv~~g~~~~l~~~i~~sre~m~~ftk~k~~KiirtL   90 (421)
T COG5159          11 NNAVKSNDIEKAIGEYKRILGKGVSKDEKTLNEQEATVLELFKLYVSKGDYCSLGDTITSSREAMEDFTKPKITKIIRTL   90 (421)
T ss_pred             HHhhhhhhHHHHHHHHHHHhcCCCChhhhhhhHHHHHHHHHHHHHHhcCCcchHHHHHHhhHHHHHHhcchhHHHHHHHH
Confidence            4567889999999999999999887766544       45666788888877655444332221    111123344455


Q ss_pred             HHHHHcc-ChHHHHHHHHHHHHHcCC-----CCcHHHHHHHHHHHHccCCHHHHHHHHHHH
Q 039637           72 IKYFCKE-KMYMLAYRTMVDMHRKGH-----QPEEELCSSLIFHLGKMRAHSEALSVYNML  126 (159)
Q Consensus        72 l~~~~~~-~~~~~a~~~~~~m~~~g~-----~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  126 (159)
                      +.-+... ..++..+++.....+-..     ..-...=.-++..+.+.|++.+|....+.+
T Consensus        91 iekf~~~~dsl~dqi~v~~~~iewA~rEkr~fLr~~Le~Kli~l~y~~~~YsdalalIn~l  151 (421)
T COG5159          91 IEKFPYSSDSLEDQIKVLTALIEWADREKRKFLRLELECKLIYLLYKTGKYSDALALINPL  151 (421)
T ss_pred             HHhcCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHH
Confidence            5554433 234444444443332111     111122245788899999999999876644

>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=80.30  E-value=16  Score=24.88  Aligned_cols=77  Identities=10%  Similarity=0.016  Sum_probs=51.6

Q ss_pred             HHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHH----cC-CCCcHHHHHHHHHHHHccCCHHHHHHH
Q 039637           48 SVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHR----KG-HQPEEELCSSLIFHLGKMRAHSEALSV  122 (159)
Q Consensus        48 ~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~----~g-~~~~~~~~~~li~~~~~~g~~~~a~~~  122 (159)
                      .|.+.|+.....  ......-..+-.-|.+.|++++|.++|+.+..    .| ..+...+...+..++.+.|+.+....+
T Consensus       163 ~A~~~f~~~~~~--R~~~~l~~~~A~ey~~~g~~~~A~~~l~~~~~~yr~egW~~l~~~~l~~l~~Ca~~~~~~~~~l~~  240 (247)
T PF11817_consen  163 KAYEQFKKYGQN--RMASYLSLEMAEEYFRLGDYDKALKLLEPAASSYRREGWWSLLTEVLWRLLECAKRLGDVEDYLTT  240 (247)
T ss_pred             HHHHHHHHhccc--hHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHhCCHHHHHHH
Confidence            455555554431  11223333566778899999999999988862    23 345667778888888899999888876


Q ss_pred             HHHH
Q 039637          123 YNML  126 (159)
Q Consensus       123 ~~~~  126 (159)
                      -=++
T Consensus       241 ~leL  244 (247)
T PF11817_consen  241 SLEL  244 (247)
T ss_pred             HHHH
Confidence            5444

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.

>KOG0403 consensus Neoplastic transformation suppressor Pdcd4/MA-3, contains MA3 domain [Signal transduction mechanisms]

Probab=80.22  E-value=14  Score=27.78  Aligned_cols=55  Identities=11%  Similarity=0.215  Sum_probs=23.2

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHh
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDE   58 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~   58 (159)
                      .-|...|++.+|.++++++-.--+. -..++.+++-+.-+.++-...+.+++..-.
T Consensus       517 eEY~~~GdisEA~~CikeLgmPfFh-HEvVkkAlVm~mEkk~d~t~~ldLLk~cf~  571 (645)
T KOG0403|consen  517 EEYELSGDISEACHCIKELGMPFFH-HEVVKKALVMVMEKKGDSTMILDLLKECFK  571 (645)
T ss_pred             HHHHhccchHHHHHHHHHhCCCcch-HHHHHHHHHHHHHhcCcHHHHHHHHHHHHh
Confidence            3444445555555554333211111 233444555554455544444444444433

---

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	159
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-06

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 45.6 bits (106), Expect = 2e-06
 Identities = 15/147 (10%), Positives = 49/147 (33%), Gaps = 4/147 (2%)

Query: 1   MISAFCRSGCFEETKQLAGDFEAKYDK---YDVVLLNSMLCAYCRTGDMESVMHVMRKLD 57
                  +        L      +  K     + + N+++  + R G  + +++V+  + 
Sbjct: 133 FFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVK 192

Query: 58  ELAISPDYNTFHILIKYFCK-EKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAH 116
           +  ++PD  ++   ++   + ++      R +  M ++G + +    + L+    +    
Sbjct: 193 DAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVL 252

Query: 117 SEALSVYNMLRYSKRSMCKALHEKILH 143
                V        +        K+L 
Sbjct: 253 KAVHKVKPTFSLPPQLPPPVNTSKLLR 279

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	159
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.94
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.93
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.82
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.82
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.67
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.66
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.66
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.66
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.65
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.65
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.65
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.63
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.62
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.62
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.61
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.61
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.6
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.6
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.59
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.58
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.57
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.57
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.57
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.56
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.55
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.55
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.54
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.54
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.54
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.53
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.53
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.52
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.51
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.51
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.5
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.49
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.48
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.47
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.44
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.43
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.43
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.43
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.43
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.43
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.42
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.42
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.42
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.42
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.42
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.41
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.39
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.39
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.39
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.37
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.35
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.35
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.35
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.34
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.34
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.34
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.34
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.33
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.32
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.32
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.31
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.28
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.28
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.26
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.24
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.24
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	99.21
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.2
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.2
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.2
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.19
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.19
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	99.18
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.17
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	99.16
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.15
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	99.14
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.14
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.13
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.13
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	99.12
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	99.12
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	99.11
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	99.1
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.1
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	99.1
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.09
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.09
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.08
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	99.07
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.06
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.04
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.03
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	99.03
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	99.03
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.03
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.02
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.02
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.02
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.02
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	99.01
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	99.0
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	99.0
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.99
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	98.98
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	98.97
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.97
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.97
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	98.97
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	98.95
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.95
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.94
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.94
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	98.93
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.93
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	98.93
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	98.91
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.9
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.89
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.89
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.88
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.88
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.88
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.87
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.87
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.87
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.87
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.86
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	98.86
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.86
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.85
4g1t_A	472	Interferon-induced protein with tetratricopeptide	98.85
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.84
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.84
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.83
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.83
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.83
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.83
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.83
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.83
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	98.82
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.81
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.8
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.78
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.78
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.77
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.77
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.76
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.76
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.76
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.75
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.75
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.74
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.74
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	98.74
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.73
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.73
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.71
4g1t_A	472	Interferon-induced protein with tetratricopeptide	98.7
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.69
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.69
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.66
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.66
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.64
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	98.64
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.62
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.62
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.59
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.58
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.56
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	98.55
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	98.51
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.51
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.5
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.48
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.48
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.45
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	98.45
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.44
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.44
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.43
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.42
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.38
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.32
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	98.32
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.19
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.17
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.16
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.11
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.11
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.05
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.01
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.95
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.93
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.9
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.89
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
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	97.83
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.83
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	97.82
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.81
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.8
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.78
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	97.75
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	97.74
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.72
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	97.63
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	97.58
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.56
1pc2_A	152	Mitochondria fission protein; unknown function; NM	97.4
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.4
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	97.26
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.17
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.13
1pc2_A	152	Mitochondria fission protein; unknown function; NM	97.13
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	97.1
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	97.03
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.0
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.95
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	96.88
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	96.87
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.77
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	96.53
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	96.51
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	96.41
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	96.32
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	96.25
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	96.12
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	96.12
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	95.97
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	95.82
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	95.57
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	95.35
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	95.24
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	95.13
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	94.99
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	94.91
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	94.91
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	94.06
2nsz_A	129	Programmed cell death protein 4; PDCD4, tumor supp	93.8
2ion_A	152	PDCD4, programmed cell death 4, PDCD4; alpha-helic	93.31
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	93.24
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	93.21
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	91.81
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	91.77
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	91.3
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	91.23
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	91.03
2p58_C	116	Putative type III secretion protein YSCG; type III	90.44
3l6a_A	364	Eukaryotic translation initiation factor 4 gamma;	89.52
2xig_A	150	Ferric uptake regulation protein; hpfur, transcrip	89.0
2fe3_A	145	Peroxide operon regulator; oxidative stress regula	88.97
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	88.54
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	87.97
3eiq_C	358	Programmed cell death protein 4; PDCD4, anti-oncog	87.92
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	87.52
1mzb_A	136	Ferric uptake regulation protein; ferric uptake re	87.2
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	86.97
1mzb_A	136	Ferric uptake regulation protein; ferric uptake re	86.97
2xig_A	150	Ferric uptake regulation protein; hpfur, transcrip	86.96
2zu6_B	307	Programmed cell death protein 4; protein-protein c	86.77
2w57_A	150	Ferric uptake regulation protein; gene regulation,	86.69
3eyy_A	145	Putative iron uptake regulatory protein; NUR, nick	86.28
4ets_A	162	Ferric uptake regulation protein; metal binding pr	86.08
3eyy_A	145	Putative iron uptake regulatory protein; NUR, nick	85.93
2fe3_A	145	Peroxide operon regulator; oxidative stress regula	85.75
2nsz_A	129	Programmed cell death protein 4; PDCD4, tumor supp	85.54
3esl_A	202	Checkpoint serine/threonine-protein kinase BUB1; m	85.43
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	85.38
2w57_A	150	Ferric uptake regulation protein; gene regulation,	84.65
2b7e_A	59	PRE-mRNA processing protein PRP40; structural prot	84.59
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	84.53
2ion_A	152	PDCD4, programmed cell death 4, PDCD4; alpha-helic	84.01
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	83.23
4ets_A	162	Ferric uptake regulation protein; metal binding pr	83.22
2wvi_A	164	Mitotic checkpoint serine/threonine-protein kinase	82.92
3mwm_A	139	ZUR, putative metal uptake regulation protein; FUR	82.91
2fu4_A	83	Ferric uptake regulation protein; DNA binding doma	80.49
2rg8_A	165	Programmed cell death protein 4; MA3 domain, heat	80.43
1ug3_A	339	EIF4GI, eukaryotic protein synthesis initiation fa	80.36

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=100.00  E-value=9.1e-39  Score=230.88  Aligned_cols=158  Identities=13%  Similarity=0.120  Sum_probs=153.4

Q ss_pred             hhHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC---------hHHHHHHHHHhHhcCCCCChhhHHHHH
Q 039637            2 ISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGD---------MESVMHVMRKLDELAISPDYNTFHILI   72 (159)
Q Consensus         2 l~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~---------~~~a~~~~~~m~~~~~~~~~~~~~~ll   72 (159)
                      |++|++.|++++|.++|++|.+.|+.||..+||+||.+|++.+.         .+.|.++|++|.+.|+.||..||++||
T Consensus        33 id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~G~~Pd~~tyn~lI  112 (501)
T 4g26_A           33 LDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNEATFTNGA  112 (501)
T ss_dssp             HHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHTTCCCCHHHHHHHH
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHhCCCCCHHHHHHHH
Confidence            78999999999999999999999999999999999999998765         678999999999999999999999999


Q ss_pred             HHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHH
Q 039637           73 KYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLK  152 (159)
Q Consensus        73 ~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  152 (159)
                      .+|++.|++++|.++|++|.+.|+.||..+|+++|.+|++.|++++|.++|++|...|+.||..||+.+|.+|++.|+++
T Consensus       113 ~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~~~g~~d  192 (501)
T 4g26_A          113 RLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDTKNAD  192 (501)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhhCCCHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhhhhC
Q 039637          153 DAYIVVK  159 (159)
Q Consensus       153 ~A~~~~~  159 (159)
                      +|.++|+
T Consensus       193 ~A~~ll~  199 (501)
T 4g26_A          193 KVYKTLQ  199 (501)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9999873

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=100.00  E-value=5.4e-34  Score=206.03  Aligned_cols=150  Identities=13%  Similarity=0.114  Sum_probs=142.5

Q ss_pred             ChhHHHhcCC---------HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHH
Q 039637            1 MISAFCRSGC---------FEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHIL   71 (159)
Q Consensus         1 ll~~~~~~~~---------~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l   71 (159)
                      ||++|++.+.         +++|.++|++|.+.|+.||..+||++|.+|++.|++++|.++|++|.+.|+.||..||+.+
T Consensus        67 Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~l  146 (501)
T 4g26_A           67 LLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPA  146 (501)
T ss_dssp             HHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHH
T ss_pred             HHHHHHhCCchhhhhhcchHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHH
Confidence            3566766544         7899999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCc
Q 039637           72 IKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKL  150 (159)
Q Consensus        72 l~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  150 (159)
                      |.+|++.|++++|.++|++|.+.|+.||..+|++||.+|++.|++++|.++|++|++.+..|+..||+.++.+++..+.
T Consensus       147 I~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~~a  225 (501)
T 4g26_A          147 LFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSEVA  225 (501)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcCcc
Confidence            9999999999999999999999999999999999999999999999999999999999999999999999999987543

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.94  E-value=2.5e-26  Score=173.44  Aligned_cols=128  Identities=8%  Similarity=0.054  Sum_probs=116.7

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHhH---hcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHH
Q 039637           30 VVLLNSMLCAYCRTGDMESVMHVMRKLD---ELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSL  106 (159)
Q Consensus        30 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~l  106 (159)
                      ..+||++|++||+.|+.++|.++|.+|.   ..|+.||..|||+||++||+.|++++|.++|++|.+.|+.||..||+++
T Consensus       127 ~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYntL  206 (1134)
T 3spa_A          127 QQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAA  206 (1134)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHH
Confidence            4589999999999999999999998765   4589999999999999999999999999999999999999999999999


Q ss_pred             HHHHHccCC-HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhh
Q 039637          107 IFHLGKMRA-HSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIV  157 (159)
Q Consensus       107 i~~~~~~g~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  157 (159)
                      |.++++.|+ .++|.++|++|...|+.||..+|+.++..+.+.+-++...++
T Consensus       207 I~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~vL~~Vrkv  258 (1134)
T 3spa_A          207 LQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKV  258 (1134)
T ss_dssp             HHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHHHHHHHGGG
T ss_pred             HHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHHHHHHHHHh
Confidence            999999998 478999999999999999999999998888888777766554

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.93  E-value=5.3e-26  Score=171.72  Aligned_cols=122  Identities=11%  Similarity=0.184  Sum_probs=110.2

Q ss_pred             ChhHHHhcCCHHHHHHHHHHHHh---CCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHc
Q 039637            1 MISAFCRSGCFEETKQLAGDFEA---KYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCK   77 (159)
Q Consensus         1 ll~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~   77 (159)
                      ||++||+.|++++|.++|+.|.+   .|+.||+.+||+||++||+.|++++|.++|++|.+.|+.||..||++||+++|+
T Consensus       133 LIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYntLI~glcK  212 (1134)
T 3spa_A          133 FFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGR  212 (1134)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHh
Confidence            58999999999999999988764   589999999999999999999999999999999999999999999999999999


Q ss_pred             cCh-HHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHH
Q 039637           78 EKM-YMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSV  122 (159)
Q Consensus        78 ~~~-~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~  122 (159)
                      .|+ .++|.++|++|.+.|+.||..+|++++.++.+.+-++...++
T Consensus       213 ~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~vL~~Vrkv  258 (1134)
T 3spa_A          213 QDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKV  258 (1134)
T ss_dssp             HTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHHHHHHHGGG
T ss_pred             CCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHHHHHHHHHh
Confidence            997 578999999999999999999999999877666544444333

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.82  E-value=1.1e-18  Score=127.96  Aligned_cols=154  Identities=9%  Similarity=-0.053  Sum_probs=119.8

Q ss_pred             hhHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChH
Q 039637            2 ISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMY   81 (159)
Q Consensus         2 l~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~   81 (159)
                      ...|.+.|++++|.++|+++.+..+. +..+|+.++.+|.+.|++++|.++|+++.+.+ ..+..+|..+..+|.+.|++
T Consensus       380 ~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~  457 (597)
T 2xpi_A          380 GIYYLCVNKISEARRYFSKSSTMDPQ-FGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQHMQLGNI  457 (597)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCCH
Confidence            45677888888888888887765443 67788888888888888888888888887643 24667888888888888888


Q ss_pred             HHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhC----CCCCC--HHHHHHHHHHHHhcCcHHHHh
Q 039637           82 MLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYS----KRSMC--KALHEKILHILISGKLLKDAY  155 (159)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~~~--~~~~~~l~~~~~~~g~~~~A~  155 (159)
                      ++|.++|+++.+.. +.++.+|+.++..|.+.|++++|..+|+++...    +..|+  ..+|..+..+|.+.|++++|.
T Consensus       458 ~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~  536 (597)
T 2xpi_A          458 LLANEYLQSSYALF-QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAI  536 (597)
T ss_dssp             HHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHH
Confidence            88888888887754 346778888888888888888888888877654    55666  678888888888888888887


Q ss_pred             hhh
Q 039637          156 IVV  158 (159)
Q Consensus       156 ~~~  158 (159)
                      +.|
T Consensus       537 ~~~  539 (597)
T 2xpi_A          537 DAL  539 (597)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            765

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.82  E-value=1.3e-18  Score=127.71  Aligned_cols=155  Identities=10%  Similarity=-0.013  Sum_probs=139.8

Q ss_pred             hhHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChH
Q 039637            2 ISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMY   81 (159)
Q Consensus         2 l~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~   81 (159)
                      +..|.+.|++++|.++|+++.+.++. +..+|+.++.+|.+.|++++|.++|+++.+.. ..+..+|+.+..++.+.|++
T Consensus       414 ~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~  491 (597)
T 2xpi_A          414 AHSFAIEGEHDQAISAYTTAARLFQG-THLPYLFLGMQHMQLGNILLANEYLQSSYALF-QYDPLLLNELGVVAFNKSDM  491 (597)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHTTTT-CSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCcc-chHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCH
Confidence            56789999999999999999987654 88999999999999999999999999999864 34688999999999999999


Q ss_pred             HHHHHHHHHHHHc----CCCCc--HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHh
Q 039637           82 MLAYRTMVDMHRK----GHQPE--EELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAY  155 (159)
Q Consensus        82 ~~a~~~~~~m~~~----g~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  155 (159)
                      ++|.++|+++.+.    +..|+  ..+|..++.+|.+.|++++|..+|+++...+ +.+..+|..+..+|.+.|++++|.
T Consensus       492 ~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~g~~~~A~  570 (597)
T 2xpi_A          492 QTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLS-TNDANVHTAIALVYLHKKIPGLAI  570 (597)
T ss_dssp             HHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHH
Confidence            9999999999876    66787  7899999999999999999999999988654 557899999999999999999999


Q ss_pred             hhhC
Q 039637          156 IVVK  159 (159)
Q Consensus       156 ~~~~  159 (159)
                      +.|+
T Consensus       571 ~~~~  574 (597)
T 2xpi_A          571 THLH  574 (597)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8763

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.67  E-value=2.4e-14  Score=93.16  Aligned_cols=150  Identities=11%  Similarity=0.056  Sum_probs=109.8

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC-hhhHHHHHHHHHcc---
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKE---   78 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~---   78 (159)
                      ..+.+.|++++|...|+...+..+. +...|..+...+.+.|++++|+..|++..+.  .|+ ...+..+..++...   
T Consensus        13 ~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~~~~   89 (217)
T 2pl2_A           13 VQLYALGRYDAALTLFERALKENPQ-DPEALYWLARTQLKLGLVNPALENGKTLVAR--TPRYLGGYMVLSEAYVALYRQ   89 (217)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTTSSS-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHhhhh
Confidence            3566778888888888887776554 6777888888888888888888888887774  343 46666777777777   


Q ss_pred             --------ChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCc
Q 039637           79 --------KMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKL  150 (159)
Q Consensus        79 --------~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  150 (159)
                              |++++|+..+++..+.. +-+...+..+...|...|++++|...|++.....  .+...+..+...|...|+
T Consensus        90 ~~~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~la~~~~~~g~  166 (217)
T 2pl2_A           90 AEDRERGKGYLEQALSVLKDAERVN-PRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSALAELYLSMGR  166 (217)
T ss_dssp             CSSHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTC
T ss_pred             hhhhcccccCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHHHHHHHHHcCC
Confidence                    88888888887777653 2355667777777777788888888777776655  566677777777777777


Q ss_pred             HHHHhhhh
Q 039637          151 LKDAYIVV  158 (159)
Q Consensus       151 ~~~A~~~~  158 (159)
                      +++|...|
T Consensus       167 ~~~A~~~~  174 (217)
T 2pl2_A          167 LDEALAQY  174 (217)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            77777655

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.66  E-value=1.7e-14  Score=100.88  Aligned_cols=149  Identities=14%  Similarity=0.108  Sum_probs=105.2

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCC-ChhhHHHHHHHHHccChHHH
Q 039637            5 FCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP-DYNTFHILIKYFCKEKMYML   83 (159)
Q Consensus         5 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~~~~~~   83 (159)
                      +...|++++|.+.|++..+..+. +..++..+...+.+.|++++|.+.|+++.+.  .| +..+|..+..++.+.|++++
T Consensus       213 ~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~  289 (388)
T 1w3b_A          213 LKEARIFDRAVAAYLRALSLSPN-HAVVHGNLACVYYEQGLIDLAIDTYRRAIEL--QPHFPDAYCNLANALKEKGSVAE  289 (388)
T ss_dssp             HHTTTCTTHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--CSSCHHHHHHHHHHHHHHSCHHH
T ss_pred             HHHcCCHHHHHHHHHHHHhhCcC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHcCCHHH
Confidence            34445555555555555444332 5667777777777888888888888777764  34 35677777778888888888


Q ss_pred             HHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637           84 AYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus        84 a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      |.+.++++.+.. +.+..++..+...+.+.|++++|...++++... .+.+..++..+...|.+.|++++|...|
T Consensus       290 A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~-~p~~~~~~~~l~~~~~~~g~~~~A~~~~  362 (388)
T 1w3b_A          290 AEDCYNTALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRKALEV-FPEFAAAHSNLASVLQQQGKLQEALMHY  362 (388)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTS-CTTCHHHHHHHHHHHHTTTCCHHHHHHH
T ss_pred             HHHHHHHHHhhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc-CCCcHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            888888877653 456777778888888888888888888877753 3445677788888888888888887765

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.66  E-value=7.6e-14  Score=88.12  Aligned_cols=153  Identities=14%  Similarity=0.024  Sum_probs=132.4

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYM   82 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   82 (159)
                      ..|.+.|++++|.+.|++..+..+. +..+|..+..+|.+.|++++|...+.+..... ..+...+..+...+...++++
T Consensus        13 ~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~   90 (184)
T 3vtx_A           13 DKKRTKGDFDGAIRAYKKVLKADPN-NVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILGSANFMIDEKQ   90 (184)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHHHHHHHcCCHH
Confidence            4678899999999999999988766 88999999999999999999999999988753 234566777778899999999


Q ss_pred             HHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhhC
Q 039637           83 LAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVVK  159 (159)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  159 (159)
                      .+...+.+..+.. +.+...+..+...|.+.|++++|...|++..... +.+..++..+...|.+.|++++|...|+
T Consensus        91 ~a~~~~~~a~~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~  165 (184)
T 3vtx_A           91 AAIDALQRAIALN-TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYEGKGLRDEAVKYFK  165 (184)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHHHCCCHHHHHHHHH
Confidence            9999999988764 3467888999999999999999999999888643 4567889999999999999999998763

>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=99.66  E-value=5.2e-14  Score=92.81  Aligned_cols=153  Identities=11%  Similarity=-0.067  Sum_probs=101.0

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCC-ChhhHHHHHHHHHccChH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP-DYNTFHILIKYFCKEKMY   81 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~~~~   81 (159)
                      ..|...|++++|.+.|++..+..+. +...+..+...+...|++++|.+.++++.+.+..| +...+..+..++...|++
T Consensus        79 ~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~  157 (252)
T 2ho1_A           79 VVFQTEMEPKLADEEYRKALASDSR-NARVLNNYGGFLYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKP  157 (252)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCcC-cHHHHHHHHHHHHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCH
Confidence            3456667777777777776665443 56667777777777777777777777766633334 345566666677777777


Q ss_pred             HHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637           82 MLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      ++|.+++.+..+.. +.+...+..+...|...|++++|...++..... .+.+...+..+...+.+.|+.++|.+.+
T Consensus       158 ~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~g~~~~A~~~~  232 (252)
T 2ho1_A          158 AQAKEYFEKSLRLN-RNQPSVALEMADLLYKEREYVPARQYYDLFAQG-GGQNARSLLLGIRLAKVFEDRDTAASYG  232 (252)
T ss_dssp             HHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT-SCCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CcCcHHHHHHHHHHHHHccCHHHHHHHH
Confidence            77777777766653 234566667777777777777777777776642 3345566667777777777777776654

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.65  E-value=6.1e-14  Score=90.63  Aligned_cols=153  Identities=8%  Similarity=-0.060  Sum_probs=117.8

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHcc-ChH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKE-KMY   81 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~-~~~   81 (159)
                      ..+...|++++|.+.|+...+..+. +...|..+...+...|++++|.+.+++..+.. ..+..++..+...+... |++
T Consensus        16 ~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~   93 (225)
T 2vq2_A           16 MEYMRGQDYRQATASIEDALKSDPK-NELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGWFLCGRLNRP   93 (225)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCCH
T ss_pred             HHHHHHhhHHHHHHHHHHHHHhCcc-chHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCcH
Confidence            4567788888888888888776544 67788888888888888888888888887753 23466777788888888 888


Q ss_pred             HHHHHHHHHHHHcCCCC-cHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637           82 MLAYRTMVDMHRKGHQP-EEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus        82 ~~a~~~~~~m~~~g~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      ++|...++++.+.+..| +...+..+...+...|++++|...++++.... +.+...+..+...+.+.|++++|...+
T Consensus        94 ~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~  170 (225)
T 2vq2_A           94 AESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQ-PQFPPAFKELARTKMLAGQLGDADYYF  170 (225)
T ss_dssp             HHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCchHHHHHHHHHHHcCCHHHHHHHH
Confidence            88888888888733333 35677778888888888888888888777532 335677788888888888888888765

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.65  E-value=1.4e-14  Score=94.28  Aligned_cols=151  Identities=13%  Similarity=0.021  Sum_probs=123.7

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc-----------CChHHHHHHHHHhHhcCCCCC-hhhHHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRT-----------GDMESVMHVMRKLDELAISPD-YNTFHI   70 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~-----------~~~~~a~~~~~~m~~~~~~~~-~~~~~~   70 (159)
                      ..+.+.|++++|.+.|++..+..+. +...|..+..++.+.           |++++|...|++..+.  .|+ ...+..
T Consensus        47 ~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~P~~~~~~~~  123 (217)
T 2pl2_A           47 RTQLKLGLVNPALENGKTLVARTPR-YLGGYMVLSEAYVALYRQAEDRERGKGYLEQALSVLKDAERV--NPRYAPLHLQ  123 (217)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHh--CcccHHHHHH
Confidence            4678899999999999999987765 788999999999999           9999999999999984  464 677888


Q ss_pred             HHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCc
Q 039637           71 LIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKL  150 (159)
Q Consensus        71 ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  150 (159)
                      +-.++...|++++|+..+++..+..  .++..+..+...|...|++++|...|++.... .|.+...+..+...+.+.|+
T Consensus       124 lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~-~P~~~~~~~~la~~~~~~g~  200 (217)
T 2pl2_A          124 RGLVYALLGERDKAEASLKQALALE--DTPEIRSALAELYLSMGRLDEALAQYAKALEQ-APKDLDLRVRYASALLLKGK  200 (217)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH-STTCHHHHHHHHHHHTC---
T ss_pred             HHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCCChHHHHHHHHHHHHccC
Confidence            8899999999999999999999887  68889999999999999999999999998864 34467888999999999999


Q ss_pred             HHHHhhhhC
Q 039637          151 LKDAYIVVK  159 (159)
Q Consensus       151 ~~~A~~~~~  159 (159)
                      +++|...|+
T Consensus       201 ~~~A~~~~~  209 (217)
T 2pl2_A          201 AEEAARAAA  209 (217)
T ss_dssp             ---------
T ss_pred             HHHHHHHHH
Confidence            999998764

>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=99.65  E-value=3.2e-14  Score=99.52  Aligned_cols=148  Identities=11%  Similarity=-0.048  Sum_probs=91.8

Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC-hhhHHHHHHHHHccChHHHH
Q 039637            6 CRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYMLA   84 (159)
Q Consensus         6 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~~~a   84 (159)
                      .+.|++++|.+.|+++.+.++. +...|..+...+...|++++|...|.+..+.  .|+ ..++..+..++.+.|++++|
T Consensus       180 ~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A  256 (388)
T 1w3b_A          180 NAQGEIWLAIHHFEKAVTLDPN-FLDAYINLGNVLKEARIFDRAVAAYLRALSL--SPNHAVVHGNLACVYYEQGLIDLA  256 (388)
T ss_dssp             HTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCTTHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHcCCHHHHHHHHHHHHhcCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CcCCHHHHHHHHHHHHHcCCHHHH
Confidence            3334444444444444433322 3334444444444444444444444444442  233 56666777777788888888


Q ss_pred             HHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637           85 YRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus        85 ~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      .+.++++.+.. +.++.++..+...+.+.|++++|...|+++... .+.+..++..+...+.+.|++++|...+
T Consensus       257 ~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~-~p~~~~~~~~l~~~~~~~g~~~~A~~~~  328 (388)
T 1w3b_A          257 IDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRL-CPTHADSLNNLANIKREQGNIEEAVRLY  328 (388)
T ss_dssp             HHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTTTCHHHHHHHH
T ss_pred             HHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh-CcccHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            88888877653 235667777888888888888888888877753 3556777788888888888888887665

>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=99.63  E-value=5.8e-14  Score=88.02  Aligned_cols=152  Identities=13%  Similarity=0.103  Sum_probs=131.7

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYM   82 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   82 (159)
                      ..+...|++++|.+.|+...+..+. +...+..+...+...|++++|...+++..+.. ..+...+..+...+...|+++
T Consensus        16 ~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~   93 (186)
T 3as5_A           16 ISHAKAGRYSQAVMLLEQVYDADAF-DVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTYVQVQKYD   93 (186)
T ss_dssp             HHHHHHTCHHHHHHHHTTTCCTTSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHhCcc-ChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHH
Confidence            4577889999999999988876544 78899999999999999999999999998853 235678888899999999999


Q ss_pred             HHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637           83 LAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      +|.+.+++..+.. +.+...+..+...+...|++++|...+++..... +.+..++..+...+.+.|++++|...+
T Consensus        94 ~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~  167 (186)
T 3as5_A           94 LAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQMGRHEEALPHF  167 (186)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCHHHHHHHH
Confidence            9999999998764 4577888899999999999999999999887643 456788999999999999999998876

>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=99.62  E-value=5.9e-14  Score=92.53  Aligned_cols=153  Identities=10%  Similarity=0.050  Sum_probs=131.9

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYM   82 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   82 (159)
                      ..+...|++++|.+.|+...+..+. +...+..+...+.+.|++++|.+.|++..+.. ..+...+..+...+...|+++
T Consensus        45 ~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~  122 (252)
T 2ho1_A           45 LGYLQRGNTEQAKVPLRKALEIDPS-SADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGFLYEQKRYE  122 (252)
T ss_dssp             HHHHHTTCTGGGHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCChHHHHHHHHHHHhcCCC-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHHhHHH
Confidence            4678899999999999999877654 78899999999999999999999999998853 235678888999999999999


Q ss_pred             HHHHHHHHHHHcCCCC-cHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637           83 LAYRTMVDMHRKGHQP-EEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus        83 ~a~~~~~~m~~~g~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      +|.++++++.+.+..| +...+..+...+.+.|++++|...+++..... +.+..++..+...+.+.|++++|...+
T Consensus       123 ~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~  198 (252)
T 2ho1_A          123 EAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN-RNQPSVALEMADLLYKEREYVPARQYY  198 (252)
T ss_dssp             HHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            9999999998743344 56788889999999999999999999888643 346788899999999999999998876

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.62  E-value=1.3e-13  Score=90.20  Aligned_cols=152  Identities=10%  Similarity=-0.035  Sum_probs=116.2

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYM   82 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   82 (159)
                      ..+...|++++|.+.|+...+..+. +..++..+...+...|++++|...+++..+.. ..+...+..+...+...|+++
T Consensus        65 ~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~  142 (243)
T 2q7f_A           65 NLLSSVNELERALAFYDKALELDSS-AATAYYGAGNVYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPK  142 (243)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHcCCc-chHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHH
Confidence            4567778888888888887766544 67788888888888888888888888887753 235667777778888888888


Q ss_pred             HHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637           83 LAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      +|...+++..+.. +.+...+..+...+.+.|++++|...+++.... .+.+..++..+...|.+.|++++|...+
T Consensus       143 ~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~la~~~~~~~~~~~A~~~~  216 (243)
T 2q7f_A          143 LALPYLQRAVELN-ENDTEARFQFGMCLANEGMLDEALSQFAAVTEQ-DPGHADAFYNAGVTYAYKENREKALEML  216 (243)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCTTHHHHHH
T ss_pred             HHHHHHHHHHHhC-CccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CcccHHHHHHHHHHHHHccCHHHHHHHH
Confidence            8888888887653 345667778888888888888888888877653 2345677788888888888888887765

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.61  E-value=1.1e-13  Score=98.29  Aligned_cols=152  Identities=10%  Similarity=-0.017  Sum_probs=100.1

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYM   82 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   82 (159)
                      ..+.+.|++++|.++|+.+.+..+. +..+|..+..++.+.|++++|...|.++.+.+ +.+..++..+..++.+.|+++
T Consensus        34 ~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~  111 (450)
T 2y4t_A           34 KKLLAAGQLADALSQFHAAVDGDPD-NYIAYYRRATVFLAMGKSKAALPDLTKVIQLK-MDFTAARLQRGHLLLKQGKLD  111 (450)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHH
Confidence            4567778888888888777765443 67777777777777888888888877777653 123566677777777777777


Q ss_pred             HHHHHHHHHHHcCCCCcH---HHHHHH------------HHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 039637           83 LAYRTMVDMHRKGHQPEE---ELCSSL------------IFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILIS  147 (159)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~---~~~~~l------------i~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  147 (159)
                      +|.+.|+++.+.. +.+.   ..+..+            ...+.+.|++++|...|+++... .+.+..++..+..+|.+
T Consensus       112 ~A~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~  189 (450)
T 2y4t_A          112 EAEDDFKKVLKSN-PSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEV-CVWDAELRELRAECFIK  189 (450)
T ss_dssp             HHHHHHHHHHTSC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcC-CCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCCChHHHHHHHHHHHH
Confidence            7777777777643 1223   344433            33366667777777777766642 23355566666666777


Q ss_pred             cCcHHHHhhhh
Q 039637          148 GKLLKDAYIVV  158 (159)
Q Consensus       148 ~g~~~~A~~~~  158 (159)
                      .|++++|...|
T Consensus       190 ~g~~~~A~~~~  200 (450)
T 2y4t_A          190 EGEPRKAISDL  200 (450)
T ss_dssp             TTCGGGGHHHH
T ss_pred             CCCHHHHHHHH
Confidence            77766666554

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.61  E-value=3.1e-13  Score=87.30  Aligned_cols=154  Identities=9%  Similarity=-0.116  Sum_probs=131.2

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc-CChHHHHHHHHHhHhcCCCCC-hhhHHHHHHHHHccCh
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRT-GDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKM   80 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~-~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~   80 (159)
                      ..|...|++++|.+.|+...+..+. +..++..+...+... |++++|...++++.+.+..|+ ...+..+..++...|+
T Consensus        50 ~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  128 (225)
T 2vq2_A           50 EIYQYLKVNDKAQESFRQALSIKPD-SAEINNNYGWFLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQ  128 (225)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHcCChHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCC
Confidence            5678899999999999999877654 788999999999999 999999999999988433343 5778888899999999


Q ss_pred             HHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637           81 YMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus        81 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      +++|...+.++.+.. +.+...+..+...+.+.|++++|...++.........+...+..+...+...|+.++|..++
T Consensus       129 ~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  205 (225)
T 2vq2_A          129 FGLAEAYLKRSLAAQ-PQFPPAFKELARTKMLAGQLGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYE  205 (225)
T ss_dssp             HHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHH
Confidence            999999999998764 34578889999999999999999999998876433256778888889999999999988765

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.60  E-value=7.5e-14  Score=99.13  Aligned_cols=152  Identities=11%  Similarity=-0.089  Sum_probs=130.7

Q ss_pred             hhHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCCh----hhHHHH------
Q 039637            2 ISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDY----NTFHIL------   71 (159)
Q Consensus         2 l~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~----~~~~~l------   71 (159)
                      ...|...|++++|.+.|+.+.+.++. +..+|..+...|.+.|++++|...|+++.+.  .|+.    ..+..+      
T Consensus        67 ~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~  143 (450)
T 2y4t_A           67 ATVFLAMGKSKAALPDLTKVIQLKMD-FTAARLQRGHLLLKQGKLDEAEDDFKKVLKS--NPSENEEKEAQSQLIKSDEM  143 (450)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhcCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCChhhHHHHHHHHHHHHH
Confidence            35688899999999999999987765 7899999999999999999999999999884  4553    455555      


Q ss_pred             ------HHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 039637           72 ------IKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHIL  145 (159)
Q Consensus        72 ------l~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  145 (159)
                            ...+...|++++|..+++++.+.. +.+..++..+..+|.+.|++++|..+|+++... .+.+..++..+...|
T Consensus       144 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~  221 (450)
T 2y4t_A          144 QRLRSQALNAFGSGDYTAAIAFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKL-KNDNTEAFYKISTLY  221 (450)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHH-HCSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHH
Confidence                  344889999999999999999764 457788999999999999999999999998763 345688999999999


Q ss_pred             HhcCcHHHHhhhh
Q 039637          146 ISGKLLKDAYIVV  158 (159)
Q Consensus       146 ~~~g~~~~A~~~~  158 (159)
                      ...|++++|...|
T Consensus       222 ~~~g~~~~A~~~~  234 (450)
T 2y4t_A          222 YQLGDHELSLSEV  234 (450)
T ss_dssp             HHTTCHHHHHHHH
T ss_pred             HHcCCHHHHHHHH
Confidence            9999999999876

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.60  E-value=1.9e-13  Score=92.71  Aligned_cols=147  Identities=8%  Similarity=0.041  Sum_probs=88.8

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKY-DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMY   81 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~   81 (159)
                      ..+...++.++|.+.++.+...+..| +...+..+..++.+.|++++|++.+++      ..+...+..+...+.+.|++
T Consensus        73 ~~~~~~~~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~  146 (291)
T 3mkr_A           73 EYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRL  146 (291)
T ss_dssp             HHHHCSTTHHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCH
T ss_pred             HHHcCCCcHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCH
Confidence            34566677777777777766554323 455555666666677777777766665      24556666666666677777


Q ss_pred             HHHHHHHHHHHHcCCCCcHHHH---HHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637           82 MLAYRTMVDMHRKGHQPEEELC---SSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~~~~---~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      ++|.+.++++.+..  |+....   ..++..+...|++++|..+|+++... .+.+..+++.+..++.+.|++++|...|
T Consensus       147 ~~A~~~l~~~~~~~--p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~-~p~~~~~~~~la~~~~~~g~~~eA~~~l  223 (291)
T 3mkr_A          147 DLARKELKKMQDQD--EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK-CSPTLLLLNGQAACHMAQGRWEAAEGVL  223 (291)
T ss_dssp             HHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH-SCCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHhhC--cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh-CCCcHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            77777776666543  332111   12233334446677777777666653 3445666666666677777777666654

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.59  E-value=7.7e-14  Score=96.77  Aligned_cols=59  Identities=15%  Similarity=0.128  Sum_probs=34.2

Q ss_pred             cHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637           99 EEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus        99 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      ++.++..+...|.+.|++++|...|++.... .+.+..++..+...|.+.|++++|...|
T Consensus       212 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~-~p~~~~~~~~l~~~~~~~g~~~~A~~~~  270 (365)
T 4eqf_A          212 DPDLQTGLGVLFHLSGEFNRAIDAFNAALTV-RPEDYSLWNRLGATLANGDRSEEAVEAY  270 (365)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            3455566666666666666666666655542 2334555666666666666666665544

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.58  E-value=1.6e-13  Score=89.83  Aligned_cols=152  Identities=14%  Similarity=0.060  Sum_probs=123.3

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYM   82 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   82 (159)
                      ..+...|++++|.+.|+...+..+. +...+..+...+.+.|++++|...+++..+.. ..+...+..+...+...|+++
T Consensus        31 ~~~~~~~~~~~A~~~~~~~l~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~  108 (243)
T 2q7f_A           31 GRGSEFGDYEKAAEAFTKAIEENKE-DAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAGNVYVVKEMYK  108 (243)
T ss_dssp             -----------CCTTHHHHHTTCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHhhCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHHHHHHhccHH
Confidence            4567889999999999999886654 78899999999999999999999999998853 235678888999999999999


Q ss_pred             HHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637           83 LAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      +|.+.+++..+.. +.+...+..+...+.+.|++++|...+++.... .+.+...+..+...+.+.|++++|...|
T Consensus       109 ~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~  182 (243)
T 2q7f_A          109 EAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVEL-NENDTEARFQFGMCLANEGMLDEALSQF  182 (243)
T ss_dssp             HHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHHTCCHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHh-CCccHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            9999999998864 346778889999999999999999999988764 3446778899999999999999998876

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.57  E-value=2.2e-13  Score=89.74  Aligned_cols=153  Identities=15%  Similarity=0.100  Sum_probs=75.1

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCC--C----HHHHHHHHHHHHhcCChHHHHHHHHHhHhcC-----------------
Q 039637            4 AFCRSGCFEETKQLAGDFEAKYDKY--D----VVLLNSMLCAYCRTGDMESVMHVMRKLDELA-----------------   60 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~~~~--~----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~-----------------   60 (159)
                      .|...|++++|.+.|+...+..+..  +    ..+|..+...+.+.|++++|...|++..+..                 
T Consensus        47 ~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~a~~  126 (258)
T 3uq3_A           47 AEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFARIGNAYHKLGDLKKTIEYYQKSLTEHRTADILTKLRNAEKELK  126 (258)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhcCchhHHHHHHhHHHHHHH
Confidence            3444555555555555544332110  1    3455555555555555555555555555421                 


Q ss_pred             -------CCC-ChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCC
Q 039637           61 -------ISP-DYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRS  132 (159)
Q Consensus        61 -------~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  132 (159)
                             ..| +...+..+...+...|++++|...+++..+.. +.+..++..+...|.+.|++++|...+++..... +
T Consensus       127 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~  204 (258)
T 3uq3_A          127 KAEAEAYVNPEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-P  204 (258)
T ss_dssp             HHHHHHHCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-T
T ss_pred             HHHHHHHcCcchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-H
Confidence                   111 12334444455555555555555555555432 2244455555555555555555555555554322 2


Q ss_pred             CCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637          133 MCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus       133 ~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      .+..++..+...+.+.|++++|...|
T Consensus       205 ~~~~~~~~l~~~~~~~g~~~~A~~~~  230 (258)
T 3uq3_A          205 NFVRAYIRKATAQIAVKEYASALETL  230 (258)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhhHHHHHHHH
Confidence            23445555555555555555555543

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.57  E-value=7.6e-13  Score=91.58  Aligned_cols=58  Identities=14%  Similarity=0.074  Sum_probs=31.8

Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637          100 EELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus       100 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      ..++..+...|.+.|++++|...|++.... .+.+..++..+...+.+.|++++|...|
T Consensus       217 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~  274 (368)
T 1fch_A          217 PDVQCGLGVLFNLSGEYDKAVDCFTAALSV-RPNDYLLWNKLGATLANGNQSEEAVAAY  274 (368)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CcCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            445555556666666666666666555442 2223455555555666666666555543

>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A*

Probab=99.57  E-value=2.8e-13  Score=101.97  Aligned_cols=151  Identities=11%  Similarity=0.008  Sum_probs=133.7

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC-hhhHHHHHHHHHccChH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMY   81 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~   81 (159)
                      ..|.+.|++++|.+.|++..+..+. +..+|+.+..+|.+.|++++|+..|++..+.  .|+ ...|..+-.++...|++
T Consensus        17 ~~~~~~G~~~eAi~~~~kAl~l~P~-~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l--~P~~~~a~~nLg~~l~~~g~~   93 (723)
T 4gyw_A           17 NIKREQGNIEEAVRLYRKALEVFPE-FAAAHSNLASVLQQQGKLQEALMHYKEAIRI--SPTFADAYSNMGNTLKEMQDV   93 (723)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCH
Confidence            4678899999999999999987665 7899999999999999999999999999984  565 68899999999999999


Q ss_pred             HHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637           82 MLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      ++|++.|++.++.. +-+..++..+...|.+.|++++|...|++..+.. +-+...+..+...|...|++++|.+.+
T Consensus        94 ~~A~~~~~kAl~l~-P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~-P~~~~a~~~L~~~l~~~g~~~~A~~~~  168 (723)
T 4gyw_A           94 QGALQCYTRAIQIN-PAFADAHSNLASIHKDSGNIPEAIASYRTALKLK-PDFPDAYCNLAHCLQIVCDWTDYDERM  168 (723)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCCTTHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHhhhhhHHHhcccHHHHHHHH
Confidence            99999999999864 3467899999999999999999999999888643 346788999999999999999998765

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.56  E-value=1.9e-12  Score=89.63  Aligned_cols=153  Identities=10%  Similarity=-0.050  Sum_probs=96.4

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCC---------------------
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAI---------------------   61 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~---------------------   61 (159)
                      ..|.+.|++++|.+.|+...+..+. +..++..+...+...|++++|...+.++.+...                     
T Consensus       106 ~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  184 (368)
T 1fch_A          106 TTQAENEQELLAISALRRCLELKPD-NQTALMALAVSFTNESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPS  184 (368)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTGGGCC--------------
T ss_pred             HHHHHCcCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHhhhhcccHH
Confidence            3455666666666666666655433 556666666666666666666666666665321                     


Q ss_pred             --------------------------CC---ChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHc
Q 039637           62 --------------------------SP---DYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGK  112 (159)
Q Consensus        62 --------------------------~~---~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~  112 (159)
                                                .|   +..++..+...+...|++++|...+++..+.. +.+..++..+...+.+
T Consensus       185 ~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~  263 (368)
T 1fch_A          185 KRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLAN  263 (368)
T ss_dssp             -CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHH
Confidence                                      01   23455566666777777777777777766543 2345666777777777


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637          113 MRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus       113 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      .|++++|...|++.... .+.+..++..+...|.+.|++++|...|
T Consensus       264 ~g~~~~A~~~~~~al~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~  308 (368)
T 1fch_A          264 GNQSEEAVAAYRRALEL-QPGYIRSRYNLGISCINLGAHREAVEHF  308 (368)
T ss_dssp             TTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHh-CCCcHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            77777777777766643 2334566677777777777777776654

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=99.55  E-value=4.1e-13  Score=91.30  Aligned_cols=152  Identities=12%  Similarity=0.029  Sum_probs=131.1

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHH
Q 039637            5 FCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLA   84 (159)
Q Consensus         5 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   84 (159)
                      +...|++++|.+.++...+..+. +..++..+...+.+.|++++|...+.+..+.. +.+..++..+...+...|++++|
T Consensus       148 ~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A  225 (327)
T 3cv0_A          148 FAAPNEYRECRTLLHAALEMNPN-DAQLHASLGVLYNLSNNYDSAAANLRRAVELR-PDDAQLWNKLGATLANGNRPQEA  225 (327)
T ss_dssp             TTSHHHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcccHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHH
Confidence            67789999999999999887655 78999999999999999999999999998853 23467888999999999999999


Q ss_pred             HHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCC-----------CHHHHHHHHHHHHhcCcHHH
Q 039637           85 YRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSM-----------CKALHEKILHILISGKLLKD  153 (159)
Q Consensus        85 ~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~-----------~~~~~~~l~~~~~~~g~~~~  153 (159)
                      ...+++..+.. +.+..++..+...|.+.|++++|...+++........           +..++..+..++.+.|+.++
T Consensus       226 ~~~~~~a~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  304 (327)
T 3cv0_A          226 LDAYNRALDIN-PGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDL  304 (327)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHcC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHH
Confidence            99999998764 3467889999999999999999999999887533221           46788999999999999999


Q ss_pred             HhhhhC
Q 039637          154 AYIVVK  159 (159)
Q Consensus       154 A~~~~~  159 (159)
                      |..+++
T Consensus       305 A~~~~~  310 (327)
T 3cv0_A          305 VELTYA  310 (327)
T ss_dssp             HHHHTT
T ss_pred             HHHHHH
Confidence            998764

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.55  E-value=4.2e-13  Score=88.34  Aligned_cols=153  Identities=12%  Similarity=-0.020  Sum_probs=116.1

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCC--CCC----hhhHHHHHHHHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAI--SPD----YNTFHILIKYFC   76 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~--~~~----~~~~~~ll~~~~   76 (159)
                      ..+...|++++|.+.|+...+.. ......++.- .++...|++++|...+.+..+..-  .|+    ..++..+..++.
T Consensus        13 ~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~-~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~   90 (258)
T 3uq3_A           13 NKFYKARQFDEAIEHYNKAWELH-KDITYLNNRA-AAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFARIGNAYH   90 (258)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-CCTHHHHHHH-HHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhccHHHHHHHHHHHHHhh-ccHHHHHHHH-HHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHHHHH
Confidence            46778899999999999887666 4344444442 346788899999999988877421  111    477888888899


Q ss_pred             ccChHHHHHHHHHHHHHcC------------------------CC-CcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCC
Q 039637           77 KEKMYMLAYRTMVDMHRKG------------------------HQ-PEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKR  131 (159)
Q Consensus        77 ~~~~~~~a~~~~~~m~~~g------------------------~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  131 (159)
                      ..|++++|...+++..+..                        .. .+...+..+...+...|++++|...+++..... 
T Consensus        91 ~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-  169 (258)
T 3uq3_A           91 KLGDLKKTIEYYQKSLTEHRTADILTKLRNAEKELKKAEAEAYVNPEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKRA-  169 (258)
T ss_dssp             HTTCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-
T ss_pred             HcccHHHHHHHHHHHHhcCchhHHHHHHhHHHHHHHHHHHHHHcCcchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-
Confidence            9999999999998888732                        12 345677888888899999999999999887633 


Q ss_pred             CCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637          132 SMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus       132 ~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      +.+..++..+...|.+.|++++|...|
T Consensus       170 ~~~~~~~~~l~~~~~~~~~~~~A~~~~  196 (258)
T 3uq3_A          170 PEDARGYSNRAAALAKLMSFPEAIADC  196 (258)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHhCCHHHHHHHH
Confidence            446778888999999999999998765

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.54  E-value=1.6e-12  Score=88.45  Aligned_cols=152  Identities=11%  Similarity=-0.024  Sum_probs=107.7

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC-ChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTG-DMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMY   81 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~-~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~   81 (159)
                      ..+...|++++|.+.++.+.+..+. +...|..+...+...| ++++|...|.+..+.. +.+...|..+...+...|++
T Consensus        64 ~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~  141 (330)
T 3hym_B           64 GTLVELNKANELFYLSHKLVDLYPS-NPVSWFAVGCYYLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVESEH  141 (330)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHCTT-STHHHHHHHHHHHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTCH
T ss_pred             HHHHHhhhHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccCH
Confidence            3456667777777777777665543 5667777777777777 7778888887777642 12356677777777888888


Q ss_pred             HHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637           82 MLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      ++|...+++..+.. +.+...+..+...|...|++++|...+++.... .+.+..++..+...+.+.|++++|...+
T Consensus       142 ~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~  216 (330)
T 3hym_B          142 DQAMAAYFTAAQLM-KGCHLPMLYIGLEYGLTNNSKLAERFFSQALSI-APEDPFVMHEVGVVAFQNGEWKTAEKWF  216 (330)
T ss_dssp             HHHHHHHHHHHHHT-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHTT-CTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhc-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh-CCCChHHHHHHHHHHHHcccHHHHHHHH
Confidence            88888887777654 224456666777788888888888888877753 3445677778888888888888887765

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.54  E-value=5.9e-13  Score=90.62  Aligned_cols=150  Identities=13%  Similarity=-0.055  Sum_probs=64.1

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHH
Q 039637            5 FCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLA   84 (159)
Q Consensus         5 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   84 (159)
                      +...|++++|.+.|+...+..+. +...+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|
T Consensus       135 ~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A  212 (330)
T 3hym_B          135 FAVESEHDQAMAAYFTAAQLMKG-CHLPMLYIGLEYGLTNNSKLAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTA  212 (330)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHTTT-CSHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHccCHHHHHHHHHHHHHhccc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHH
Confidence            33444444444444444433322 22333334444444444444444444444321 11234444444444444555555


Q ss_pred             HHHHHHHHHcC--------CCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhh
Q 039637           85 YRTMVDMHRKG--------HQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYI  156 (159)
Q Consensus        85 ~~~~~~m~~~g--------~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  156 (159)
                      ...+++..+..        .+.+..++..+...|.+.|++++|...+++..... +.+..++..+...+.+.|++++|.+
T Consensus       213 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~  291 (330)
T 3hym_B          213 EKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALDYHRQALVLI-PQNASTYSAIGYIHSLMGNFENAVD  291 (330)
T ss_dssp             HHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhC-ccchHHHHHHHHHHHHhccHHHHHH
Confidence            44444444321        01123344444444555555555555554444321 1233344444455555555555544


Q ss_pred             h
Q 039637          157 V  157 (159)
Q Consensus       157 ~  157 (159)
                      .
T Consensus       292 ~  292 (330)
T 3hym_B          292 Y  292 (330)
T ss_dssp             H
T ss_pred             H
Confidence            3

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.54  E-value=2.7e-13  Score=94.05  Aligned_cols=152  Identities=8%  Similarity=0.000  Sum_probs=122.1

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYM   82 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   82 (159)
                      ..+.+.|++++|.+.|+.+.+..+. +..+|..+...+.+.|++++|...|++..+.. +.+..++..+..++...|+++
T Consensus        73 ~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~  150 (365)
T 4eqf_A           73 LKRLKEGDLPVTILFMEAAILQDPG-DAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAVSYTNTSHQQ  150 (365)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHccccHH
Confidence            4678899999999999999987665 88999999999999999999999999999853 234788999999999999999


Q ss_pred             HHHHHHHHHHHcCCCCc-----------HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHHhcCc
Q 039637           83 LAYRTMVDMHRKGHQPE-----------EELCSSLIFHLGKMRAHSEALSVYNMLRYSKRS-MCKALHEKILHILISGKL  150 (159)
Q Consensus        83 ~a~~~~~~m~~~g~~~~-----------~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~  150 (159)
                      +|...++++.+..  |+           ...+..+...+.+.|++++|...++++...... ++..++..+...|.+.|+
T Consensus       151 ~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~~~g~  228 (365)
T 4eqf_A          151 DACEALKNWIKQN--PKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVLFHLSGE  228 (365)
T ss_dssp             HHHHHHHHHHHHC--HHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHhC--ccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHHHHHCCC
Confidence            9999999998753  22           223344588999999999999999988864322 268899999999999999


Q ss_pred             HHHHhhhh
Q 039637          151 LKDAYIVV  158 (159)
Q Consensus       151 ~~~A~~~~  158 (159)
                      +++|.+.|
T Consensus       229 ~~~A~~~~  236 (365)
T 4eqf_A          229 FNRAIDAF  236 (365)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99999876

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.53  E-value=1.7e-12  Score=88.12  Aligned_cols=146  Identities=8%  Similarity=-0.035  Sum_probs=119.5

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHH---HHHHHHHccC
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFH---ILIKYFCKEK   79 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~---~ll~~~~~~~   79 (159)
                      ..+.+.|++++|++.++.      +.+...+..+...+.+.|++++|...|+++.+.  .|+....+   ..+..+...|
T Consensus       109 ~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~l~~a~~~l~~~~~  180 (291)
T 3mkr_A          109 SIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKELKKMQDQ--DEDATLTQLATAWVSLAAGGE  180 (291)
T ss_dssp             HHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh--CcCcHHHHHHHHHHHHHhCch
Confidence            567889999999999876      357889999999999999999999999999986  36643222   2334445569


Q ss_pred             hHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHH-Hhhhh
Q 039637           80 MYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKD-AYIVV  158 (159)
Q Consensus        80 ~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~-A~~~~  158 (159)
                      ++++|..+|+++.+. .+.++..++.+..++.+.|++++|...|++.... .+-+..++..++..+...|+.++ +.+++
T Consensus       181 ~~~eA~~~~~~~l~~-~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~-~p~~~~~l~~l~~~~~~~g~~~eaa~~~~  258 (291)
T 3mkr_A          181 KLQDAYYIFQEMADK-CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDK-DSGHPETLINLVVLSQHLGKPPEVTNRYL  258 (291)
T ss_dssp             HHHHHHHHHHHHHHH-SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHh-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCCHHHHHHHH
Confidence            999999999999987 4568889999999999999999999999998864 34577888999999999999876 44443

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.53  E-value=2.8e-12  Score=88.06  Aligned_cols=87  Identities=7%  Similarity=-0.047  Sum_probs=44.4

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCC-ChhhHHHHHHHHHccChHH
Q 039637            4 AFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP-DYNTFHILIKYFCKEKMYM   82 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~~~~~   82 (159)
                      .+.+.|++++|.+.|+...+..+. +..+|..+...+...|++++|...|++..+.  .| +...+..+..++...|+++
T Consensus        12 ~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~   88 (359)
T 3ieg_A           12 KLLAAGQLADALSQFHAAVDGDPD-NYIAYYRRATVFLAMGKSKAALPDLTKVIAL--KMDFTAARLQRGHLLLKQGKLD   88 (359)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHcCCHHHHHHHHHHHHhhCcc-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCcchHHHHHHHHHHHcCChH
Confidence            344555555555555555544333 4455555555555555555555555555543  12 2344444555555555555


Q ss_pred             HHHHHHHHHHH
Q 039637           83 LAYRTMVDMHR   93 (159)
Q Consensus        83 ~a~~~~~~m~~   93 (159)
                      +|...+++..+
T Consensus        89 ~A~~~~~~~~~   99 (359)
T 3ieg_A           89 EAEDDFKKVLK   99 (359)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHHh
Confidence            55555555544

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.52  E-value=2.8e-12  Score=88.09  Aligned_cols=151  Identities=12%  Similarity=-0.075  Sum_probs=130.3

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCC---C-hhhHHHH-------
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP---D-YNTFHIL-------   71 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~---~-~~~~~~l-------   71 (159)
                      ..+...|++++|.+.|+...+..+. +...|..+...+.+.|++++|...|++..+.  .|   + ...+..+       
T Consensus        45 ~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~  121 (359)
T 3ieg_A           45 TVFLAMGKSKAALPDLTKVIALKMD-FTAARLQRGHLLLKQGKLDEAEDDFKKVLKS--NPSEQEEKEAESQLVKADEMQ  121 (359)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHccCHHHHHHHHHHHHHhCCC-cchHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCcccChHHHHHHHHHHHHHH
Confidence            4678899999999999999887654 7789999999999999999999999999884  46   3 4444444       


Q ss_pred             -----HHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 039637           72 -----IKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILI  146 (159)
Q Consensus        72 -----l~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  146 (159)
                           ...+...|++++|.++++++.+.. +.+...+..+...+...|++++|...+++.... .+.+..++..+...+.
T Consensus       122 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~la~~~~  199 (359)
T 3ieg_A          122 RLRSQALDAFDGADYTAAITFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKL-KSDNTEAFYKISTLYY  199 (359)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT-CSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHH
Confidence                 477889999999999999999864 357788999999999999999999999999864 4557889999999999


Q ss_pred             hcCcHHHHhhhh
Q 039637          147 SGKLLKDAYIVV  158 (159)
Q Consensus       147 ~~g~~~~A~~~~  158 (159)
                      ..|++++|...|
T Consensus       200 ~~~~~~~A~~~~  211 (359)
T 3ieg_A          200 QLGDHELSLSEV  211 (359)
T ss_dssp             HHTCHHHHHHHH
T ss_pred             HcCCHHHHHHHH
Confidence            999999999876

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.51  E-value=9.8e-13  Score=94.84  Aligned_cols=152  Identities=14%  Similarity=0.014  Sum_probs=123.1

Q ss_pred             hHHHhcCCH-HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHcc---
Q 039637            3 SAFCRSGCF-EETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKE---   78 (159)
Q Consensus         3 ~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~---   78 (159)
                      ..|...|++ ++|.+.|++..+..+. +...|..+...|.+.|++++|...|++..+.  .|+...+..+..++...   
T Consensus       110 ~~~~~~g~~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~lg~~~~~~~~~  186 (474)
T 4abn_A          110 KALNVTPDYSPEAEVLLSKAVKLEPE-LVEAWNQLGEVYWKKGDVTSAHTCFSGALTH--CKNKVSLQNLSMVLRQLQTD  186 (474)
T ss_dssp             HHHTSSSSCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT--CCCHHHHHHHHHHHTTCCCS
T ss_pred             HHHHhccccHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCHHHHHHHHHHHHHhccC
Confidence            356677888 9999999888877654 6788899999999999999999999888874  57777888888888888   


Q ss_pred             ------ChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHcc--------CCHHHHHHHHHHHHhCCCC--CCHHHHHHHH
Q 039637           79 ------KMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKM--------RAHSEALSVYNMLRYSKRS--MCKALHEKIL  142 (159)
Q Consensus        79 ------~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~--------g~~~~a~~~~~~~~~~~~~--~~~~~~~~l~  142 (159)
                            |++++|++.+++..+.. +-+...+..+..+|...        |++++|...|++.......  -+...|..+.
T Consensus       187 ~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~lg  265 (474)
T 4abn_A          187 SGDEHSRHVMDSVRQAKLAVQMD-VLDGRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKVDRKASSNPDLHLNRA  265 (474)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHCGGGGGCHHHHHHHH
T ss_pred             ChhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhCCCcccCHHHHHHHH
Confidence                  89999999998888764 34677888888888888        8899999999888764210  4677888888


Q ss_pred             HHHHhcCcHHHHhhhh
Q 039637          143 HILISGKLLKDAYIVV  158 (159)
Q Consensus       143 ~~~~~~g~~~~A~~~~  158 (159)
                      ..|...|++++|.+.|
T Consensus       266 ~~~~~~g~~~~A~~~~  281 (474)
T 4abn_A          266 TLHKYEESYGEALEGF  281 (474)
T ss_dssp             HHHHHTTCHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHH
Confidence            9999999999888765

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=99.51  E-value=1.5e-12  Score=88.46  Aligned_cols=52  Identities=6%  Similarity=-0.049  Sum_probs=23.5

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhH
Q 039637            5 FCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLD   57 (159)
Q Consensus         5 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~   57 (159)
                      +.+.|++++|.+.|+...+..+. +..++..+...+...|++++|...+++..
T Consensus        65 ~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~  116 (327)
T 3cv0_A           65 QAENEKDGLAIIALNHARMLDPK-DIAVHAALAVSHTNEHNANAALASLRAWL  116 (327)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHhcCcC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            34444444444444444443322 34444444444444444444444444443

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.50  E-value=3.1e-12  Score=85.09  Aligned_cols=153  Identities=9%  Similarity=0.012  Sum_probs=123.0

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC--hhhHHHHHHHHHccCh
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD--YNTFHILIKYFCKEKM   80 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~--~~~~~~ll~~~~~~~~   80 (159)
                      ..+...|++++|.+.|+...+..+. +...+..+...+.+.|++++|...+++..+..-.|+  ...|..+...+...|+
T Consensus        11 ~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~~~~~~   89 (272)
T 3u4t_A           11 DFLFKNNNYAEAIEVFNKLEAKKYN-SPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKILMKKGQ   89 (272)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHHTTCC-CSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHhcCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHHccc
Confidence            4678899999999999999887654 666888899999999999999999999988432222  2237888899999999


Q ss_pred             HHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637           81 YMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus        81 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      +++|.+.+++..+.. +.+..++..+...|...|++++|...|++.... .+.+..++..+...+...+++++|.+.|
T Consensus        90 ~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~  165 (272)
T 3u4t_A           90 DSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRP-TTTDPKVFYELGQAYYYNKEYVKADSSF  165 (272)
T ss_dssp             HHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCS-SCCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHhhc-CCCcHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999998864 346678999999999999999999999988864 3445667777773444455999988765

>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=99.49  E-value=6.6e-12  Score=74.45  Aligned_cols=123  Identities=16%  Similarity=0.111  Sum_probs=95.2

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYM   82 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   82 (159)
                      ..+...|++++|.++|+.+.+.++. +...+..+...+...|++++|...++++.+.+ ..+...+..+...+...|+++
T Consensus         9 ~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~   86 (136)
T 2fo7_A            9 NAYYKQGDYDEAIEYYQKALELDPR-SAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYD   86 (136)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHH
T ss_pred             HHHHHcCcHHHHHHHHHHHHHcCCc-chhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHHHHhcCHH
Confidence            4567788888888888888766544 67778888888888888888888888887753 234566777788888888888


Q ss_pred             HHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHh
Q 039637           83 LAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRY  128 (159)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  128 (159)
                      +|.++++++.+.. +.+...+..+...+.+.|++++|...++++..
T Consensus        87 ~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  131 (136)
T 2fo7_A           87 EAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALE  131 (136)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHHc
Confidence            8888888887754 33566777788888888888888888887764

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}

Probab=99.48  E-value=9.4e-12  Score=81.03  Aligned_cols=145  Identities=6%  Similarity=-0.129  Sum_probs=120.9

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC-hhhHHHHHHHHHccChH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMY   81 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~   81 (159)
                      ..+.+.|++++|.+.|+...+..+.++...+..+..++.+.|++++|+..|++..+.  .|+ ...+..+..++...|++
T Consensus        15 ~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~   92 (228)
T 4i17_A           15 NDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKK--NYNLANAYIGKSAAYRDMKNN   92 (228)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--TCSHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHh--CcchHHHHHHHHHHHHHcccH
Confidence            457789999999999999998876568888888999999999999999999999874  454 57788899999999999


Q ss_pred             HHHHHHHHHHHHcCCCCcH-------HHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCC--CHHHHHHHHHHHHhcCcH
Q 039637           82 MLAYRTMVDMHRKGHQPEE-------ELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSM--CKALHEKILHILISGKLL  151 (159)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~-------~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~  151 (159)
                      ++|...+++..+.. +.+.       ..|..+...+...|++++|...|++..... +.  +...+..+...|...|+.
T Consensus        93 ~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~l~~~~~~~~~~  169 (228)
T 4i17_A           93 QEYIATLTEGIKAV-PGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDVT-SKKWKTDALYSLGVLFYNNGAD  169 (228)
T ss_dssp             HHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSS-CHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhcC-CCcccHHHHHHHHHHHHHHHHH
Confidence            99999999998764 2244       457788888999999999999999998642 22  356778888888888877

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.47  E-value=1.3e-11  Score=81.99  Aligned_cols=117  Identities=10%  Similarity=0.021  Sum_probs=56.5

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHH
Q 039637            4 AFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYML   83 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~   83 (159)
                      .+...|++++|.+.|+...+..+. +..+|..+...+...|++++|...|++..+.. +.+...+..+..++...|++++
T Consensus        52 ~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~  129 (275)
T 1xnf_A           52 LYDSLGLRALARNDFSQALAIRPD-MPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKL  129 (275)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcccHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC-ccccHHHHHHHHHHHHhccHHH
Confidence            344555555555555555544332 45555555555555555555555555555431 1124445555555555555555


Q ss_pred             HHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHH
Q 039637           84 AYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYN  124 (159)
Q Consensus        84 a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~  124 (159)
                      |...++++.+..  |+.......+..+...|++++|...++
T Consensus       130 A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~  168 (275)
T 1xnf_A          130 AQDDLLAFYQDD--PNDPFRSLWLYLAEQKLDEKQAKEVLK  168 (275)
T ss_dssp             HHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCHHHHHHHHH
T ss_pred             HHHHHHHHHHhC--CCChHHHHHHHHHHHhcCHHHHHHHHH
Confidence            555555555432  222222222333333444555544443

>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=99.44  E-value=2.2e-11  Score=72.14  Aligned_cols=125  Identities=14%  Similarity=0.028  Sum_probs=107.0

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHH
Q 039637           31 VLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHL  110 (159)
Q Consensus        31 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~  110 (159)
                      ..|..+...+...|++++|..++.++.+.. ..+...+..+...+...|++++|..+++++.+.+ +.+...+..+...+
T Consensus         2 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~   79 (136)
T 2fo7_A            2 EAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAY   79 (136)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHH
Confidence            357788899999999999999999998754 2356778888899999999999999999998764 34677888899999


Q ss_pred             HccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637          111 GKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus       111 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      ...|++++|.+.++.+.... +.+..++..+...+.+.|++++|...+
T Consensus        80 ~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~  126 (136)
T 2fo7_A           80 YKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYY  126 (136)
T ss_dssp             HTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHH
Confidence            99999999999999888643 446778889999999999999998876

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.43  E-value=4.9e-12  Score=90.98  Aligned_cols=151  Identities=8%  Similarity=-0.086  Sum_probs=131.1

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYM   82 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   82 (159)
                      ..+...|++++|.+.|+...+..+.  ...|..+...+...|++++|...+++..+.. ..+...+..+...+...|+++
T Consensus       245 ~~~~~~~~~~~A~~~~~~~l~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~  321 (514)
T 2gw1_A          245 IFKFLKNDPLGAHEDIKKAIELFPR--VNSYIYMALIMADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQMNFILQNYD  321 (514)
T ss_dssp             HHHHHSSCHHHHHHHHHHHHHHCCC--HHHHHHHHHHHHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHHHHHHTTCTT
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCcc--HHHHHHHHHHHHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHHHHHHhCCHH
Confidence            4678899999999999999887655  8899999999999999999999999998753 235678888999999999999


Q ss_pred             HHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637           83 LAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      +|...+.+..+.. +.+...+..+...|...|++++|...++++.... +.+..++..+...+.+.|++++|...+
T Consensus       322 ~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~  395 (514)
T 2gw1_A          322 QAGKDFDKAKELD-PENIFPYIQLACLAYRENKFDDCETLFSEAKRKF-PEAPEVPNFFAEILTDKNDFDKALKQY  395 (514)
T ss_dssp             HHHHHHHHHHHTC-SSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-ccCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            9999999999864 3467788999999999999999999999988643 335678899999999999999998876

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.43  E-value=6.3e-12  Score=84.85  Aligned_cols=157  Identities=11%  Similarity=0.067  Sum_probs=125.9

Q ss_pred             hhHHHhcCCHHHHHHHHHHHHhC-------CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhc------CCCC-Chhh
Q 039637            2 ISAFCRSGCFEETKQLAGDFEAK-------YDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDEL------AISP-DYNT   67 (159)
Q Consensus         2 l~~~~~~~~~~~A~~~~~~~~~~-------~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~------~~~~-~~~~   67 (159)
                      ...+...|++++|.++|+...+.       .......++..+...|...|++++|...+.+..+.      +-.| ...+
T Consensus        34 ~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  113 (311)
T 3nf1_A           34 VIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKDHPAVAAT  113 (311)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHH
Confidence            35678899999999999998763       23335678899999999999999999999998864      2223 3567


Q ss_pred             HHHHHHHHHccChHHHHHHHHHHHHHc------CCCC-cHHHHHHHHHHHHccCCHHHHHHHHHHHHhC------CCCC-
Q 039637           68 FHILIKYFCKEKMYMLAYRTMVDMHRK------GHQP-EEELCSSLIFHLGKMRAHSEALSVYNMLRYS------KRSM-  133 (159)
Q Consensus        68 ~~~ll~~~~~~~~~~~a~~~~~~m~~~------g~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~------~~~~-  133 (159)
                      +..+...+...|++++|...+.+..+.      +..| ....+..+...|...|++++|..++++....      +..| 
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            788889999999999999999998864      2223 4567788999999999999999999987653      2122 


Q ss_pred             CHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637          134 CKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus       134 ~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      ...++..+...|.+.|++++|.+.+
T Consensus       194 ~~~~~~~la~~~~~~g~~~~A~~~~  218 (311)
T 3nf1_A          194 VAKTKNNLASCYLKQGKFKQAETLY  218 (311)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            3457888999999999999999876

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=99.43  E-value=1.6e-12  Score=86.49  Aligned_cols=157  Identities=12%  Similarity=0.059  Sum_probs=124.8

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhC------CC-CCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhc------CCCC-ChhhH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAK------YD-KYDVVLLNSMLCAYCRTGDMESVMHVMRKLDEL------AISP-DYNTF   68 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~------~~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~------~~~~-~~~~~   68 (159)
                      ..|...|++++|.+.|+...+.      +. +....++..+...|...|++++|.+.|.+..+.      .-.| ...++
T Consensus        51 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  130 (283)
T 3edt_B           51 LVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQL  130 (283)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHH
Confidence            4678899999999999987754      22 224668999999999999999999999998864      1123 35778


Q ss_pred             HHHHHHHHccChHHHHHHHHHHHHHc------CCCC-cHHHHHHHHHHHHccCCHHHHHHHHHHHHhC------------
Q 039637           69 HILIKYFCKEKMYMLAYRTMVDMHRK------GHQP-EEELCSSLIFHLGKMRAHSEALSVYNMLRYS------------  129 (159)
Q Consensus        69 ~~ll~~~~~~~~~~~a~~~~~~m~~~------g~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~------------  129 (159)
                      ..+...+...|++++|..++++..+.      +..| ...++..+...|.+.|++++|...+++....            
T Consensus       131 ~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~  210 (283)
T 3edt_B          131 NNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGD  210 (283)
T ss_dssp             HHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSS
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchh
Confidence            88899999999999999999998865      2223 4567888999999999999999999877642            


Q ss_pred             ------------------------------------CCCCCHHHHHHHHHHHHhcCcHHHHhhhhC
Q 039637          130 ------------------------------------KRSMCKALHEKILHILISGKLLKDAYIVVK  159 (159)
Q Consensus       130 ------------------------------------~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  159 (159)
                                                          ..+....++..+...|.+.|++++|...|+
T Consensus       211 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~  276 (283)
T 3edt_B          211 NKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPTVNTTLRSLGALYRRQGKLEAAHTLED  276 (283)
T ss_dssp             CCCHHHHHHHHHHTTCCCCC------------CCCCCCHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence                                                112234567889999999999999998763

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.43  E-value=6.2e-12  Score=84.87  Aligned_cols=157  Identities=11%  Similarity=0.059  Sum_probs=125.0

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhC------C-CCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhc------CCCC-ChhhH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAK------Y-DKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDEL------AISP-DYNTF   68 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~------~-~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~------~~~~-~~~~~   68 (159)
                      ..|...|++++|.+.|++..+.      + ......++..+...+...|++++|...+.+..+.      +-.| ....+
T Consensus        77 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~  156 (311)
T 3nf1_A           77 LVYRDQNKYKDAANLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQL  156 (311)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHH
Confidence            4678889999999999988754      2 2234678899999999999999999999998874      2223 34667


Q ss_pred             HHHHHHHHccChHHHHHHHHHHHHHc------CCCC-cHHHHHHHHHHHHccCCHHHHHHHHHHHHhC------------
Q 039637           69 HILIKYFCKEKMYMLAYRTMVDMHRK------GHQP-EEELCSSLIFHLGKMRAHSEALSVYNMLRYS------------  129 (159)
Q Consensus        69 ~~ll~~~~~~~~~~~a~~~~~~m~~~------g~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~------------  129 (159)
                      ..+...+...|++++|.+++++..+.      +..| ...++..+...|...|++++|...+++....            
T Consensus       157 ~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  236 (311)
T 3nf1_A          157 NNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDE  236 (311)
T ss_dssp             HHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC-----
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcc
Confidence            78889999999999999999998864      2233 3557888999999999999999999987742            


Q ss_pred             ------------------------------------CCCCCHHHHHHHHHHHHhcCcHHHHhhhhC
Q 039637          130 ------------------------------------KRSMCKALHEKILHILISGKLLKDAYIVVK  159 (159)
Q Consensus       130 ------------------------------------~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  159 (159)
                                                          ..+....++..+...|.+.|++++|.+.|+
T Consensus       237 ~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~  302 (311)
T 3nf1_A          237 NKPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDSPTVTTTLKNLGALYRRQGKFEAAETLEE  302 (311)
T ss_dssp             -CCHHHHHHHHHHC-------CCSCCCC---------CHHHHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence                                                123345678889999999999999998763

>1ouv_A Conserved hypothetical secreted protein; TPR repeat, HCP repeat, cysteine rich protein, loop-helix-TU repeat protein, hydrolase; 2.00A {Helicobacter pylori} SCOP: a.118.18.1

Probab=99.43  E-value=1.2e-10  Score=77.72  Aligned_cols=143  Identities=13%  Similarity=0.004  Sum_probs=78.5

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHc--
Q 039637            4 AFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCR----TGDMESVMHVMRKLDELAISPDYNTFHILIKYFCK--   77 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~--   77 (159)
                      .|...|++++|.+.|+...+.   -+...+..+...|..    .+++++|...|++..+.+   +...+..+-..+..  
T Consensus        15 ~~~~~~~~~~A~~~~~~a~~~---~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~   88 (273)
T 1ouv_A           15 KSYKEKDFTQAKKYFEKACDL---KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHLLGNLYYSGQ   88 (273)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTS
T ss_pred             HHHhCCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHhCCC
Confidence            344556666666666655541   234455555555665    666666666666655543   44555555555555  


Q ss_pred             --cChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHc----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----
Q 039637           78 --EKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGK----MRAHSEALSVYNMLRYSKRSMCKALHEKILHILIS----  147 (159)
Q Consensus        78 --~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----  147 (159)
                        .+++++|.+++++..+.+   ++..+..+...|..    .+++++|...|++....+   +...+..+...|..    
T Consensus        89 ~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~  162 (273)
T 1ouv_A           89 GVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTILGSLYDAGRGT  162 (273)
T ss_dssp             SSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSS
T ss_pred             CcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHHHHHHHcCCCC
Confidence              566666666666555543   34455555555555    566666666665555433   33444455555555    


Q ss_pred             cCcHHHHhhhh
Q 039637          148 GKLLKDAYIVV  158 (159)
Q Consensus       148 ~g~~~~A~~~~  158 (159)
                      .+++++|...|
T Consensus       163 ~~~~~~A~~~~  173 (273)
T 1ouv_A          163 PKDLKKALASY  173 (273)
T ss_dssp             CCCHHHHHHHH
T ss_pred             CCCHHHHHHHH
Confidence            55555555443

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=99.42  E-value=1.7e-11  Score=88.75  Aligned_cols=151  Identities=9%  Similarity=-0.045  Sum_probs=130.6

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYM   82 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   82 (159)
                      ..+...|++++|.+.|+...+..  |+...|..+...+.+.|++++|...|.+..+.. +.+..++..+...+...|+++
T Consensus       251 ~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~  327 (537)
T 3fp2_A          251 IFHFLKNNLLDAQVLLQESINLH--PTPNSYIFLALTLADKENSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYK  327 (537)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHhcccHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHhcCHHHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHH
Confidence            35677899999999999998864  457889999999999999999999999998853 235778889999999999999


Q ss_pred             HHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637           83 LAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      +|...+++..+.. +.+...+..+...|...|++++|...++++.... +.+..++..+...+.+.|++++|...|
T Consensus       328 ~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~  401 (537)
T 3fp2_A          328 NAKEDFQKAQSLN-PENVYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQY  401 (537)
T ss_dssp             HHHHHHHHHHHHC-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHH
Confidence            9999999999864 3356788999999999999999999999988643 445678899999999999999999876

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.42  E-value=6.2e-11  Score=80.78  Aligned_cols=153  Identities=12%  Similarity=-0.002  Sum_probs=112.8

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHH-HHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHH-HccCh
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVV-LLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYF-CKEKM   80 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~-~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~-~~~~~   80 (159)
                      ..+.+.|++++|.++|++..+..+. +.. +|..+...+.+.|++++|..+|++..+.. .++...|....... ...|+
T Consensus       107 ~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~a~~~~~~~~~  184 (308)
T 2ond_A          107 DYEESRMKYEKVHSIYNRLLAIEDI-DPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKD  184 (308)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTSSSS-CTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-TCCTHHHHHHHHHHHHTSCC
T ss_pred             HHHHhcCCHHHHHHHHHHHHhcccc-CccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHcCC
Confidence            3456778888898888888875443 333 78888888888888888888888888743 12333443332222 23688


Q ss_pred             HHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCC-CCC--CHHHHHHHHHHHHhcCcHHHHhhh
Q 039637           81 YMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSK-RSM--CKALHEKILHILISGKLLKDAYIV  157 (159)
Q Consensus        81 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~-~~~--~~~~~~~l~~~~~~~g~~~~A~~~  157 (159)
                      +++|..+|++..+.. +-++..|..++..+.+.|++++|..+|++..... .+|  +...|..++..+.+.|+.++|..+
T Consensus       185 ~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~  263 (308)
T 2ond_A          185 KSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKV  263 (308)
T ss_dssp             HHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            889999988887653 3367788888888999999999999999888752 344  467888888888999999888876


Q ss_pred             h
Q 039637          158 V  158 (159)
Q Consensus       158 ~  158 (159)
                      +
T Consensus       264 ~  264 (308)
T 2ond_A          264 E  264 (308)
T ss_dssp             H
T ss_pred             H
Confidence            5

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.42  E-value=1.3e-11  Score=82.12  Aligned_cols=150  Identities=11%  Similarity=-0.094  Sum_probs=122.2

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCC---CCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChH
Q 039637            5 FCRSGCFEETKQLAGDFEAKYDK---YDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMY   81 (159)
Q Consensus         5 ~~~~~~~~~A~~~~~~~~~~~~~---~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~   81 (159)
                      +...|++++|.+.|+.+.+....   .+..+|..+...+...|++++|...|++..+.. +.+..++..+...+...|++
T Consensus        15 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~   93 (275)
T 1xnf_A           15 LQPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNF   93 (275)
T ss_dssp             CCCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCH
T ss_pred             cCccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCH
Confidence            34568999999999999876432   246789999999999999999999999999853 23578899999999999999


Q ss_pred             HHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637           82 MLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      ++|.+.+++..+.. +.+..++..+...|.+.|++++|...|+++....  |+..........+...|++++|...+
T Consensus        94 ~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~  167 (275)
T 1xnf_A           94 DAAYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD--PNDPFRSLWLYLAEQKLDEKQAKEVL  167 (275)
T ss_dssp             HHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred             HHHHHHHHHHHhcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHhcCHHHHHHHH
Confidence            99999999999864 3467889999999999999999999999988643  33333444555667778888888765

>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=99.42  E-value=2.3e-13  Score=96.32  Aligned_cols=129  Identities=16%  Similarity=0.131  Sum_probs=44.1

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHH
Q 039637            4 AFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYML   83 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~   83 (159)
                      .+...|++++|...++...+.  .+++.+.+.++.+|.+.|++.++.++++       .|+..+|..+...|...|++++
T Consensus        70 ~ae~~g~~EeAi~yl~~ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yee  140 (449)
T 1b89_A           70 AANTSGNWEELVKYLQMARKK--ARESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDA  140 (449)
T ss_dssp             -----------------------------------------CHHHHTTTTT-------CC----------------CTTT
T ss_pred             HHHhCCCHHHHHHHHHHHHHh--CccchhHHHHHHHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHH
Confidence            444455555555554444432  2344555555556666666655555553       2455566666666666666666


Q ss_pred             HHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhh
Q 039637           84 AYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYI  156 (159)
Q Consensus        84 a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  156 (159)
                      |..+|..+         ..|..++.++.+.|++++|.+.++++      .++.+|..++.+|+..|+++.|..
T Consensus       141 A~~~Y~~a---------~n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~  198 (449)
T 1b89_A          141 AKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQM  198 (449)
T ss_dssp             HHHHHHHT---------TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHh---------hhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHH
Confidence            66666544         25666666666666666666666655      145566666666666666666643

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.42  E-value=7.7e-12  Score=89.94  Aligned_cols=153  Identities=5%  Similarity=-0.004  Sum_probs=115.6

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYM   82 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   82 (159)
                      ..|...|++++|.+.|+...+..+. +...+..+...+.+.|++++|...++++.+.. +.+..++..+...+...|+++
T Consensus       312 ~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~  389 (514)
T 2gw1_A          312 QMNFILQNYDQAGKDFDKAKELDPE-NIFPYIQLACLAYRENKFDDCETLFSEAKRKF-PEAPEVPNFFAEILTDKNDFD  389 (514)
T ss_dssp             HHHHHTTCTTHHHHHHHHHHHTCSS-CSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHHhChh-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-ccCHHHHHHHHHHHHHCCCHH
Confidence            4567778888888888888776554 66778888888888888888888888887742 234567777888888888888


Q ss_pred             HHHHHHHHHHHcCCC-Cc----HHHHHHHHHHHHc---cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHH
Q 039637           83 LAYRTMVDMHRKGHQ-PE----EELCSSLIFHLGK---MRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDA  154 (159)
Q Consensus        83 ~a~~~~~~m~~~g~~-~~----~~~~~~li~~~~~---~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  154 (159)
                      +|...++++.+.... ++    ..++..+...+..   .|++++|...++...... +.+..++..+...|.+.|++++|
T Consensus       390 ~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A  468 (514)
T 2gw1_A          390 KALKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLD-PRSEQAKIGLAQMKLQQEDIDEA  468 (514)
T ss_dssp             HHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhcCHHHH
Confidence            888888887754211 11    3377788888888   888888888888877533 34567778888888888888888


Q ss_pred             hhhh
Q 039637          155 YIVV  158 (159)
Q Consensus       155 ~~~~  158 (159)
                      ...|
T Consensus       469 ~~~~  472 (514)
T 2gw1_A          469 ITLF  472 (514)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8765

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.41  E-value=4.7e-11  Score=79.35  Aligned_cols=154  Identities=8%  Similarity=-0.051  Sum_probs=120.3

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCC---HHHHHHHHHHHHhcCChHHHHHHHHHhHhcCC-CCC-hhhHHHHHHHHHc
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYD---VVLLNSMLCAYCRTGDMESVMHVMRKLDELAI-SPD-YNTFHILIKYFCK   77 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~---~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~-~~~-~~~~~~ll~~~~~   77 (159)
                      ..+.+.|++++|.+.|+.+.+..+. +   ...+..+..+|.+.|++++|...|++..+..- .|. ...+..+..++..
T Consensus        23 ~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~  101 (261)
T 3qky_A           23 MEFYNQGKYDRAIEYFKAVFTYGRT-HEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEYERAMCYYK  101 (261)
T ss_dssp             HHHHHTTCHHHHHHHHHHHGGGCSC-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHHhCCC-CcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHHHHHHHHHH
Confidence            4577899999999999999987654 3   67889999999999999999999999998531 112 3456677778888


Q ss_pred             --------cChHHHHHHHHHHHHHcCCCCcHHHH-----------------HHHHHHHHccCCHHHHHHHHHHHHhCCCC
Q 039637           78 --------EKMYMLAYRTMVDMHRKGHQPEEELC-----------------SSLIFHLGKMRAHSEALSVYNMLRYSKRS  132 (159)
Q Consensus        78 --------~~~~~~a~~~~~~m~~~g~~~~~~~~-----------------~~li~~~~~~g~~~~a~~~~~~~~~~~~~  132 (159)
                              .|++++|...|++..+... -+....                 ..+...|.+.|++++|...|+.+......
T Consensus       102 ~~~~~~~~~~~~~~A~~~~~~~l~~~p-~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~  180 (261)
T 3qky_A          102 LSPPYELDQTDTRKAIEAFQLFIDRYP-NHELVDDATQKIRELRAKLARKQYEAARLYERRELYEAAAVTYEAVFDAYPD  180 (261)
T ss_dssp             HCCCTTSCCHHHHHHHHHHHHHHHHCT-TCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             hcccccccchhHHHHHHHHHHHHHHCc-CchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCC
Confidence                    9999999999999997632 222333                 45688899999999999999988764321


Q ss_pred             -C-CHHHHHHHHHHHHhc----------CcHHHHhhhh
Q 039637          133 -M-CKALHEKILHILISG----------KLLKDAYIVV  158 (159)
Q Consensus       133 -~-~~~~~~~l~~~~~~~----------g~~~~A~~~~  158 (159)
                       + ....+..+..+|.+.          |++++|...|
T Consensus       181 ~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~  218 (261)
T 3qky_A          181 TPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELY  218 (261)
T ss_dssp             STTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHH
T ss_pred             CchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHH
Confidence             1 345677888888866          8889998776

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.39  E-value=7.7e-11  Score=80.32  Aligned_cols=144  Identities=8%  Similarity=0.001  Sum_probs=117.7

Q ss_pred             HHHHHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCCh-h-hHHHHHHHHHccChHHHHHHH
Q 039637           11 FEETKQLAGDFEAK-YDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDY-N-TFHILIKYFCKEKMYMLAYRT   87 (159)
Q Consensus        11 ~~~A~~~~~~~~~~-~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~-~-~~~~ll~~~~~~~~~~~a~~~   87 (159)
                      .++|..+|++..+. .+. +...|..++..+.+.|++++|..+|++..+  +.|+. . .|..+...+.+.|++++|..+
T Consensus        80 ~~~A~~~~~rAl~~~~p~-~~~~~~~~~~~~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~~~~~~~~~~~~~~~A~~~  156 (308)
T 2ond_A           80 SDEAANIYERAISTLLKK-NMLLYFAYADYEESRMKYEKVHSIYNRLLA--IEDIDPTLVYIQYMKFARRAEGIKSGRMI  156 (308)
T ss_dssp             HHHHHHHHHHHHTTTTTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHT--SSSSCTHHHHHHHHHHHHHHHCHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHh--ccccCccHHHHHHHHHHHHhcCHHHHHHH
Confidence            39999999999873 443 778999999999999999999999999998  45653 3 789999999999999999999


Q ss_pred             HHHHHHcCCCCcHHHHHHHHHHHH-ccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhhC
Q 039637           88 MVDMHRKGHQPEEELCSSLIFHLG-KMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVVK  159 (159)
Q Consensus        88 ~~~m~~~g~~~~~~~~~~li~~~~-~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  159 (159)
                      |++..+.. +.+...|........ ..|+.++|..+|++.... .+-+...+..++..+.+.|+.++|..+|+
T Consensus       157 ~~~a~~~~-p~~~~~~~~~a~~~~~~~~~~~~A~~~~~~al~~-~p~~~~~~~~~~~~~~~~g~~~~A~~~~~  227 (308)
T 2ond_A          157 FKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKK-YGDIPEYVLAYIDYLSHLNEDNNTRVLFE  227 (308)
T ss_dssp             HHHHHTST-TCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHhcC-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCCcHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            99999864 234555544433322 369999999999988763 23467889999999999999999998873

>1ouv_A Conserved hypothetical secreted protein; TPR repeat, HCP repeat, cysteine rich protein, loop-helix-TU repeat protein, hydrolase; 2.00A {Helicobacter pylori} SCOP: a.118.18.1

Probab=99.39  E-value=2.3e-10  Score=76.41  Aligned_cols=139  Identities=10%  Similarity=-0.016  Sum_probs=86.5

Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHc----cC
Q 039637            8 SGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCR----TGDMESVMHVMRKLDELAISPDYNTFHILIKYFCK----EK   79 (159)
Q Consensus         8 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~----~~   79 (159)
                      .+++++|.+.|++..+.+   +...+..+...|..    .+++++|...|++..+.+   +...+..+-..|..    .+
T Consensus        55 ~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~  128 (273)
T 1ouv_A           55 EKNLKKAASFYAKACDLN---YSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTR  128 (273)
T ss_dssp             CCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCC
T ss_pred             CCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCccc
Confidence            666777777776666543   55666666666666    667777777776666643   45556666666666    66


Q ss_pred             hHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHc----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCcH
Q 039637           80 MYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGK----MRAHSEALSVYNMLRYSKRSMCKALHEKILHILIS----GKLL  151 (159)
Q Consensus        80 ~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~  151 (159)
                      ++++|..++++..+.+   +...+..+...|..    .+++++|...|++....+   +...+..+...|..    .+++
T Consensus       129 ~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~  202 (273)
T 1ouv_A          129 DFKKAVEYFTKACDLN---DGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNF  202 (273)
T ss_dssp             CHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCH
T ss_pred             CHHHHHHHHHHHHhcC---cHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccH
Confidence            6777777766666654   34455555555655    666666666666665542   33455566666666    6666


Q ss_pred             HHHhhhh
Q 039637          152 KDAYIVV  158 (159)
Q Consensus       152 ~~A~~~~  158 (159)
                      ++|...|
T Consensus       203 ~~A~~~~  209 (273)
T 1ouv_A          203 KEALARY  209 (273)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            6666554

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=99.39  E-value=7.5e-12  Score=78.64  Aligned_cols=152  Identities=9%  Similarity=0.024  Sum_probs=117.0

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHH-HHccChH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKY-FCKEKMY   81 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~-~~~~~~~   81 (159)
                      ..+.+.|++++|...|+...+..+. +...+..+...+.+.|++++|...|++....  .|+...+...... +...+..
T Consensus        14 ~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~--~p~~~~~~~~~~~~~~~~~~~   90 (176)
T 2r5s_A           14 SELLQQGEHAQALNVIQTLSDELQS-RGDVKLAKADCLLETKQFELAQELLATIPLE--YQDNSYKSLIAKLELHQQAAE   90 (176)
T ss_dssp             HHHHHTTCHHHHHHHHHTSCHHHHT-SHHHHHHHHHHHHHTTCHHHHHHHHTTCCGG--GCCHHHHHHHHHHHHHHHHTS
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHhhhc--cCChHHHHHHHHHHHHhhccc
Confidence            4578899999999999988776554 7889999999999999999999999998764  3443333222111 1222233


Q ss_pred             HHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637           82 MLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSM-CKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      .++...+++..+.. +-++..+..+...+...|++++|...|+++......+ +...+..+...+...|+.++|...|
T Consensus        91 ~~a~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~~y  167 (176)
T 2r5s_A           91 SPELKRLEQELAAN-PDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIASKY  167 (176)
T ss_dssp             CHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHHHH
T ss_pred             chHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHHHH
Confidence            45788888888753 3367888899999999999999999999998755433 3567889999999999999998765

>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=99.37  E-value=4.9e-12  Score=89.60  Aligned_cols=132  Identities=8%  Similarity=0.039  Sum_probs=88.4

Q ss_pred             ChhHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccCh
Q 039637            1 MISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKM   80 (159)
Q Consensus         1 ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~   80 (159)
                      ++.+|.+.|+++++.++++       .|+..+|+.+.+.|...|.+++|...|.++         ..|..+..++.+.|+
T Consensus       100 Li~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~~~LA~~L~~Lg~  163 (449)
T 1b89_A          100 LIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGE  163 (449)
T ss_dssp             ---------CHHHHTTTTT-------CC----------------CTTTHHHHHHHT---------TCHHHHHHHHHTTTC
T ss_pred             HHHHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhHHHHHHHHHHhcc
Confidence            3568899999999988873       367789999999999999999999999976         489999999999999


Q ss_pred             HHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhhC
Q 039637           81 YMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVVK  159 (159)
Q Consensus        81 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  159 (159)
                      +++|.+.+.++      .++.+|..++.+|...|+++.|......+.     ..+.-...++..|.+.|++++|..+++
T Consensus       164 yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~-----~~ad~l~~lv~~Yek~G~~eEai~lLe  231 (449)
T 1b89_A          164 YQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIV-----VHADELEELINYYQDRGYFEELITMLE  231 (449)
T ss_dssp             HHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTTT-----TCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHHH-----hCHhhHHHHHHHHHHCCCHHHHHHHHH
Confidence            99999999988      267899999999999999999966554422     233345578899999999999987763

>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=99.35  E-value=1.4e-10  Score=72.31  Aligned_cols=123  Identities=15%  Similarity=0.149  Sum_probs=107.6

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYM   82 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   82 (159)
                      ..+...|++++|.+.++...+..+. +...+..+...+...|++++|.+.+++..+.. +.+...+..+..++...|+++
T Consensus        50 ~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~  127 (186)
T 3as5_A           50 IAYVKTGAVDRGTELLERSLADAPD-NVKVATVLGLTYVQVQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFD  127 (186)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHH
Confidence            4678899999999999999877554 78899999999999999999999999998853 345678888889999999999


Q ss_pred             HHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHh
Q 039637           83 LAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRY  128 (159)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  128 (159)
                      +|.+++++..+.. +.+...+..+...+...|++++|...++....
T Consensus       128 ~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  172 (186)
T 3as5_A          128 EAIDSFKIALGLR-PNEGKVHRAIAFSYEQMGRHEEALPHFKKANE  172 (186)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            9999999998864 34678899999999999999999999998764

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=99.35  E-value=1e-10  Score=84.60  Aligned_cols=153  Identities=6%  Similarity=-0.007  Sum_probs=95.3

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYM   82 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   82 (159)
                      ..+...|++++|.+.|+...+..+. +...|..+...+.+.|++++|...+++..+.. +.+...+..+...+...|+++
T Consensus       318 ~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~  395 (537)
T 3fp2_A          318 QMYFILQDYKNAKEDFQKAQSLNPE-NVYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFD  395 (537)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTT-CSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHH
T ss_pred             HHHHhcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHH
Confidence            3455666677777777666655443 45566666666677777777777776666542 223456666666677777777


Q ss_pred             HHHHHHHHHHHcCC-----CCcHHHHHHHHHHHHcc----------CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 039637           83 LAYRTMVDMHRKGH-----QPEEELCSSLIFHLGKM----------RAHSEALSVYNMLRYSKRSMCKALHEKILHILIS  147 (159)
Q Consensus        83 ~a~~~~~~m~~~g~-----~~~~~~~~~li~~~~~~----------g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  147 (159)
                      +|...+++..+...     ......+......+.+.          |++++|...|++.... .+.+..++..+...|.+
T Consensus       396 ~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~-~p~~~~~~~~l~~~~~~  474 (537)
T 3fp2_A          396 TAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACEL-DPRSEQAKIGLAQLKLQ  474 (537)
T ss_dssp             HHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHH
Confidence            77777766654320     01111233334555555          7777777777766653 23456778888888888


Q ss_pred             cCcHHHHhhhh
Q 039637          148 GKLLKDAYIVV  158 (159)
Q Consensus       148 ~g~~~~A~~~~  158 (159)
                      .|++++|.+.|
T Consensus       475 ~g~~~~A~~~~  485 (537)
T 3fp2_A          475 MEKIDEAIELF  485 (537)
T ss_dssp             TTCHHHHHHHH
T ss_pred             hccHHHHHHHH
Confidence            88888888765

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=99.35  E-value=7.4e-11  Score=86.65  Aligned_cols=146  Identities=11%  Similarity=-0.063  Sum_probs=108.8

Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCC-ChhhHHHHHHHHHccChHHHHHH
Q 039637            8 SGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP-DYNTFHILIKYFCKEKMYMLAYR   86 (159)
Q Consensus         8 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~   86 (159)
                      .|++++|.+.|++..+..+. +...|..+...+.+.|++++|.+.|++..+.  .| +...+..+..++...|++++|.+
T Consensus         2 ~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~   78 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHRPQ-DFVAWLMLADAELGMGDTTAGEMAVQRGLAL--HPGHPEAVARLGRVRWTQQRHAEAAV   78 (568)
T ss_dssp             -------------------C-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT--STTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            47889999999988876554 6889999999999999999999999999884  45 46788888899999999999999


Q ss_pred             HHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc---CcHHHHhhhh
Q 039637           87 TMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISG---KLLKDAYIVV  158 (159)
Q Consensus        87 ~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---g~~~~A~~~~  158 (159)
                      .+++..+.. +.+...+..+...|.+.|++++|...+++..... +.+...+..+...+...   |+.++|.+.+
T Consensus        79 ~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~  151 (568)
T 2vsy_A           79 LLQQASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLL-PEEPYITAQLLNWRRRLCDWRALDVLSAQV  151 (568)
T ss_dssp             HHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCTTHHHHHHHH
T ss_pred             HHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhhccccHHHHHHHH
Confidence            999998864 3467788899999999999999999999887643 34677888999999999   9999998765

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=99.34  E-value=1.1e-11  Score=76.04  Aligned_cols=143  Identities=8%  Similarity=-0.098  Sum_probs=113.0

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCC-ChhhHHHHHHHHHccChH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP-DYNTFHILIKYFCKEKMY   81 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~~~~   81 (159)
                      ..+...|++++|++.+.......+. +...+-.+...|.+.|++++|.+.|++..+.  .| +..+|..+-.++...|++
T Consensus         5 ~~~~~~~~~e~ai~~~~~a~~~~p~-~~~~~~~la~~y~~~~~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~~~~   81 (150)
T 4ga2_A            5 SMRRSKADVERYIASVQGSTPSPRQ-KSIKGFYFAKLYYEAKEYDLAKKYICTYINV--QERDPKAHRFLGLLYELEENT   81 (150)
T ss_dssp             --CCCHHHHHHHHHHHHHHSCSHHH-HHTTHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHcChHHHHHHHHHHhcccCcc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCch
Confidence            3456678999999999887754332 4556678899999999999999999999984  45 468889999999999999


Q ss_pred             HHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHH-HHHHHhCCCCCCHHHHHHHHHHHHhcCc
Q 039637           82 MLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSV-YNMLRYSKRSMCKALHEKILHILISGKL  150 (159)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~g~  150 (159)
                      ++|+..|++..+.. +-++.++..+...|.+.|+.++|.+. +++.... .|-+..+|......+.+.|+
T Consensus        82 ~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l-~P~~~~~~~l~~~ll~~~G~  149 (150)
T 4ga2_A           82 DKAVECYRRSVELN-PTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKL-FPGSPAVYKLKEQLLDCEGE  149 (150)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHH-STTCHHHHHHHHHHHHTCCC
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHh-CcCCHHHHHHHHHHHHHhCc
Confidence            99999999999864 33678899999999999999877665 5776653 23467778777777777764

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=99.34  E-value=2.5e-11  Score=80.67  Aligned_cols=153  Identities=10%  Similarity=-0.008  Sum_probs=118.7

Q ss_pred             HhcCCHHHHHHHHHHHHh-------CCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhc------CCCC-ChhhHHHH
Q 039637            6 CRSGCFEETKQLAGDFEA-------KYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDEL------AISP-DYNTFHIL   71 (159)
Q Consensus         6 ~~~~~~~~A~~~~~~~~~-------~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~------~~~~-~~~~~~~l   71 (159)
                      ...|++++|.+.|++..+       ...+....++..+...|...|++++|...+.+..+.      +-.| ...++..+
T Consensus        12 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l   91 (283)
T 3edt_B           12 SGLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNL   91 (283)
T ss_dssp             -CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHH
Confidence            455777777777776543       222335678999999999999999999999998864      2223 35678889


Q ss_pred             HHHHHccChHHHHHHHHHHHHHc------CC-CCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhC------C-CCCCHHH
Q 039637           72 IKYFCKEKMYMLAYRTMVDMHRK------GH-QPEEELCSSLIFHLGKMRAHSEALSVYNMLRYS------K-RSMCKAL  137 (159)
Q Consensus        72 l~~~~~~~~~~~a~~~~~~m~~~------g~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~------~-~~~~~~~  137 (159)
                      ..++...|++++|...+.+..+.      .. +....++..+...|...|++++|...+++....      + .+....+
T Consensus        92 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  171 (283)
T 3edt_B           92 AVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKT  171 (283)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHH
Confidence            99999999999999999998764      21 234668889999999999999999999987753      1 2223567


Q ss_pred             HHHHHHHHHhcCcHHHHhhhh
Q 039637          138 HEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus       138 ~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      +..+...|.+.|++++|...+
T Consensus       172 ~~~la~~~~~~g~~~~A~~~~  192 (283)
T 3edt_B          172 KNNLASCYLKQGKYQDAETLY  192 (283)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHH
Confidence            888999999999999999876

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.34  E-value=8.2e-11  Score=84.85  Aligned_cols=152  Identities=9%  Similarity=0.015  Sum_probs=130.0

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc---------CChHHHHHHHHHhHhcCCCCChhhHHHHHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRT---------GDMESVMHVMRKLDELAISPDYNTFHILIK   73 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~---------~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~   73 (159)
                      ..|.+.|++++|.+.|+...+..  |+...+..+...+...         |++++|...|++..+.. ..+...|..+..
T Consensus       145 ~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~  221 (474)
T 4abn_A          145 EVYWKKGDVTSAHTCFSGALTHC--KNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD-VLDGRSWYILGN  221 (474)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHTTC--CCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhhC--CCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            56788999999999999998865  5578999999999999         99999999999999853 234678888999


Q ss_pred             HHHcc--------ChHHHHHHHHHHHHHcCCC--CcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 039637           74 YFCKE--------KMYMLAYRTMVDMHRKGHQ--PEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILH  143 (159)
Q Consensus        74 ~~~~~--------~~~~~a~~~~~~m~~~g~~--~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  143 (159)
                      ++...        |++++|++.|++..+....  -+...+..+...|...|++++|...|++..... +.+...+..+..
T Consensus       222 ~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~a~~~l~~  300 (474)
T 4abn_A          222 AYLSLYFNTGQNPKISQQALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALD-PAWPEPQQREQQ  300 (474)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHhhccccchHHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            99998        9999999999999986310  378899999999999999999999999887643 346778889999


Q ss_pred             HHHhcCcHHHHhhhh
Q 039637          144 ILISGKLLKDAYIVV  158 (159)
Q Consensus       144 ~~~~~g~~~~A~~~~  158 (159)
                      .+...|++++|.+.+
T Consensus       301 ~~~~lg~~~eAi~~~  315 (474)
T 4abn_A          301 LLEFLSRLTSLLESK  315 (474)
T ss_dssp             HHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHh
Confidence            999999999998654

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.34  E-value=3.9e-10  Score=73.47  Aligned_cols=152  Identities=9%  Similarity=0.037  Sum_probs=115.6

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCC-C-CHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChh----hHHHHHHHHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDK-Y-DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYN----TFHILIKYFC   76 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~-~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~----~~~~ll~~~~   76 (159)
                      ..+.+.|++++|.+.|+.+.+..+. | ....+..+..++.+.|++++|...|++..+.  .|+..    .+..+..++.
T Consensus        12 ~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~--~P~~~~~~~a~~~~g~~~~   89 (225)
T 2yhc_A           12 QQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRL--NPTHPNIDYVMYMRGLTNM   89 (225)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--CcCCCcHHHHHHHHHHHHH
Confidence            4578899999999999999876554 2 2467888999999999999999999999885  35432    3444444444


Q ss_pred             c------------------cChHHHHHHHHHHHHHcCCCCc-HHHH-----------------HHHHHHHHccCCHHHHH
Q 039637           77 K------------------EKMYMLAYRTMVDMHRKGHQPE-EELC-----------------SSLIFHLGKMRAHSEAL  120 (159)
Q Consensus        77 ~------------------~~~~~~a~~~~~~m~~~g~~~~-~~~~-----------------~~li~~~~~~g~~~~a~  120 (159)
                      .                  .|++++|...|+++.+..  |+ ....                 ..+...|.+.|++++|.
T Consensus        90 ~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--P~~~~a~~a~~~l~~~~~~~~~~~~~~a~~~~~~~~~~~A~  167 (225)
T 2yhc_A           90 ALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGY--PNSQYTTDATKRLVFLKDRLAKYEYSVAEYYTERGAWVAVV  167 (225)
T ss_dssp             HHHC--------------CCHHHHHHHHHHHHHHTTC--TTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             hhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHC--cCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcHHHHH
Confidence            3                  679999999999999753  33 2222                 24566788999999999


Q ss_pred             HHHHHHHhCCCC-C-CHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637          121 SVYNMLRYSKRS-M-CKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus       121 ~~~~~~~~~~~~-~-~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      ..|+++...... | ....+..+..+|.+.|+.++|.+.+
T Consensus       168 ~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~  207 (225)
T 2yhc_A          168 NRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVA  207 (225)
T ss_dssp             HHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHH
Confidence            999998864221 1 1356888999999999999998876

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.33  E-value=5.9e-11  Score=76.55  Aligned_cols=149  Identities=9%  Similarity=-0.076  Sum_probs=108.4

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHH----------------HHHHHHhcCChHHHHHHHHHhHhcCCCC-Chh
Q 039637            4 AFCRSGCFEETKQLAGDFEAKYDKYDVVLLNS----------------MLCAYCRTGDMESVMHVMRKLDELAISP-DYN   66 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~----------------ll~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~   66 (159)
                      .+.+.|++++|.+.|+...+..+. +...|..                +..+|.+.|++++|...|++..+.  .| +..
T Consensus        13 ~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~   89 (208)
T 3urz_A           13 AAIEAGQNGQAVSYFRQTIALNID-RTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQK--APNNVD   89 (208)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCHH-HHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCCC-ChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--CCCCHH
Confidence            467889999999999999876544 5566766                899999999999999999999885  45 467


Q ss_pred             hHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCC--HHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 039637           67 TFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRA--HSEALSVYNMLRYSKRSMCKALHEKILHI  144 (159)
Q Consensus        67 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~--~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  144 (159)
                      .+..+..++...|++++|...|++..+.. +-++.++..+...|...|.  .+.+...++....  .+|....+...-.+
T Consensus        90 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~a~~~~g~~  166 (208)
T 3urz_A           90 CLEACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYYYLTAEQEKKKLETDYKKLSS--PTKMQYARYRDGLS  166 (208)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHC---C--CCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhC--CCchhHHHHHHHHH
Confidence            88889999999999999999999999864 3467788888777766553  3344455554432  22222233344455


Q ss_pred             HHhcCcHHHHhhhh
Q 039637          145 LISGKLLKDAYIVV  158 (159)
Q Consensus       145 ~~~~g~~~~A~~~~  158 (159)
                      +...|++++|...|
T Consensus       167 ~~~~~~~~~A~~~~  180 (208)
T 3urz_A          167 KLFTTRYEKARNSL  180 (208)
T ss_dssp             HHHHHTHHHHHHHH
T ss_pred             HHHccCHHHHHHHH
Confidence            66677777777655

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.32  E-value=6.3e-11  Score=80.12  Aligned_cols=152  Identities=9%  Similarity=-0.014  Sum_probs=123.7

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHH-HHHHHccChH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHIL-IKYFCKEKMY   81 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l-l~~~~~~~~~   81 (159)
                      ..+.+.|++++|.+.|+...+..+. +...+..+...+.+.|++++|...+++....  .|+....... ...+...++.
T Consensus       125 ~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~~~~~~l~~~~~~  201 (287)
T 3qou_A          125 MQLMQESNYTDALPLLXDAWQLSNQ-NGEIGLLLAETLIALNRSEDAEAVLXTIPLQ--DQDTRYQGLVAQIELLXQAAD  201 (287)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHTTS-CHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG--GCSHHHHHHHHHHHHHHHHTS
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCCc-chhHHHHHHHHHHHCCCHHHHHHHHHhCchh--hcchHHHHHHHHHHHHhhccc
Confidence            3567889999999999999887765 7889999999999999999999999998774  4654433322 2336677788


Q ss_pred             HHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637           82 MLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRS-MCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      ++|...+++..+.. +.+...+..+...+...|++++|...|+++...... .+...+..+...+...|+.++|...+
T Consensus       202 ~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~a~~~~  278 (287)
T 3qou_A          202 TPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALGTGDALASXY  278 (287)
T ss_dssp             CHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             CccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcCCCCcHHHHH
Confidence            88999999888764 457788899999999999999999999988865432 22668899999999999999987655

>2h6f_A Protein farnesyltransferase/geranylgeranyltransferase type I alpha subunit; ftase, farnesyltransferase, farnesyl transferase, prenyltransferase, CAAX, RAS, lipid modification, prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP: a.118.6.1 PDB: 1jcq_A* 1ld7_A* 1mzc_A* 1s63_A* 1sa4_A* 1tn6_A* 1ld8_A* 2h6g_A* 2h6h_A* 2h6i_A* 2iej_A* 3e37_A* 2f0y_A* 3ksl_A* 2zir_A* 2zis_A* 1o5m_A* 3ksq_A* 1o1t_A* 1o1s_A* ...

Probab=99.32  E-value=6.2e-11  Score=83.33  Aligned_cols=147  Identities=9%  Similarity=0.040  Sum_probs=127.5

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC-hHHHHHHHHHhHhcCCCC-ChhhHHHHHHHHHccCh
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGD-MESVMHVMRKLDELAISP-DYNTFHILIKYFCKEKM   80 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~-~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~~~   80 (159)
                      ..+.+.|++++|++.|+...+..+. +..+|+.+..++.+.|+ +++|+..|++..+.  .| +...|..+-.++...|+
T Consensus       105 ~~~~~~g~~~~Al~~~~~al~l~P~-~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l--~P~~~~a~~~~g~~~~~~g~  181 (382)
T 2h6f_A          105 AVLQRDERSERAFKLTRDAIELNAA-NYTVWHFRRVLLKSLQKDLHEEMNYITAIIEE--QPKNYQVWHHRRVLVEWLRD  181 (382)
T ss_dssp             HHHHHTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHCCChHHHHHHHHHHHHhCcc-CHHHHHHHHHHHHHcccCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHccC
Confidence            3567789999999999999987766 88999999999999996 99999999999984  45 46888999999999999


Q ss_pred             HHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh-cCcHHHH
Q 039637           81 YMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILIS-GKLLKDA  154 (159)
Q Consensus        81 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~g~~~~A  154 (159)
                      +++|+..+++.++.. +-+...|..+..++.+.|++++|...|+++.... +-+...|..+...+.+ .|..++|
T Consensus       182 ~~eAl~~~~kal~ld-P~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~-P~~~~a~~~lg~~l~~l~~~~~eA  254 (382)
T 2h6f_A          182 PSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYNDRA  254 (382)
T ss_dssp             CTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSCSHH
T ss_pred             HHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCcchHH
Confidence            999999999999864 3478899999999999999999999999998744 3467888999999999 6665666

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.31  E-value=3.4e-10  Score=71.19  Aligned_cols=126  Identities=11%  Similarity=-0.018  Sum_probs=110.0

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCC-ChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHH
Q 039637           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP-DYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLI  107 (159)
Q Consensus        29 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li  107 (159)
                      +..+|..+...|.+.|++++|++.|++..+.  .| +..++..+..++.+.|++++|...+....... +.+...+..+.
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~   80 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKA--DPNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILG   80 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHH
Confidence            6788999999999999999999999999885  45 46788889999999999999999999998764 34667788888


Q ss_pred             HHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637          108 FHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus       108 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      ..+...++++.|...+++.... .+.+...+..+...|.+.|++++|.+.|
T Consensus        81 ~~~~~~~~~~~a~~~~~~a~~~-~~~~~~~~~~lg~~~~~~g~~~~A~~~~  130 (184)
T 3vtx_A           81 SANFMIDEKQAAIDALQRAIAL-NTVYADAYYKLGLVYDSMGEHDKAIEAY  130 (184)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHh-CccchHHHHHHHHHHHHhCCchhHHHHH
Confidence            9999999999999999988763 3446788899999999999999999876

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}

Probab=99.28  E-value=6.9e-10  Score=72.12  Aligned_cols=129  Identities=10%  Similarity=-0.150  Sum_probs=110.0

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHH
Q 039637           28 YDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLI  107 (159)
Q Consensus        28 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li  107 (159)
                      .|+..+......+.+.|++++|.+.|.+..+..-.++...+..+..++...|++++|++.+++..+.. +.+..++..+.
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~   83 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKN-YNLANAYIGKS   83 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-CSHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhC-cchHHHHHHHH
Confidence            46788899999999999999999999999986543677777778899999999999999999999864 33677889999


Q ss_pred             HHHHccCCHHHHHHHHHHHHhCCCCCCH-------HHHHHHHHHHHhcCcHHHHhhhh
Q 039637          108 FHLGKMRAHSEALSVYNMLRYSKRSMCK-------ALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus       108 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      ..|...|++++|...+++..... +.+.       .+|..+-..+.+.|++++|.+.|
T Consensus        84 ~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~  140 (228)
T 4i17_A           84 AAYRDMKNNQEYIATLTEGIKAV-PGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENY  140 (228)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHH
Confidence            99999999999999999888643 3344       45788889999999999999876

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.28  E-value=4.4e-10  Score=74.62  Aligned_cols=153  Identities=8%  Similarity=-0.046  Sum_probs=119.7

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCC--CHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccCh
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKY--DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKM   80 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~--~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~   80 (159)
                      ..|...|++++|.+.|+...+.+..+  ...+|..+...+.+.|++++|...|++..+.. +.+..++..+...+...|+
T Consensus        45 ~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~  123 (272)
T 3u4t_A           45 VCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKILMKKGQDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGN  123 (272)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTC
T ss_pred             HHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccC
Confidence            46788999999999999998743222  24468999999999999999999999998853 2345788899999999999


Q ss_pred             HHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCc---HHHHhhh
Q 039637           81 YMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKL---LKDAYIV  157 (159)
Q Consensus        81 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~---~~~A~~~  157 (159)
                      +++|...+++..+.. +.+...+..+...+...+++++|...|++..... +.+...+..+...+...|+   .++|...
T Consensus       124 ~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~~A~~~  201 (272)
T 3u4t_A          124 FPLAIQYMEKQIRPT-TTDPKVFYELGQAYYYNKEYVKADSSFVKVLELK-PNIYIGYLWRARANAAQDPDTKQGLAKPY  201 (272)
T ss_dssp             HHHHHHHHGGGCCSS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHSTTCSSCTTHHH
T ss_pred             HHHHHHHHHHHhhcC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCcchhhHHHHHH
Confidence            999999999988763 3466677777724444569999999999888643 3346777778888888887   6556554


Q ss_pred             h
Q 039637          158 V  158 (159)
Q Consensus       158 ~  158 (159)
                      +
T Consensus       202 ~  202 (272)
T 3u4t_A          202 Y  202 (272)
T ss_dssp             H
T ss_pred             H
Confidence            3

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.26  E-value=1.2e-10  Score=78.91  Aligned_cols=156  Identities=8%  Similarity=-0.142  Sum_probs=119.0

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhC----CCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCC-CC----hhhHHHHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAK----YDKYD-VVLLNSMLCAYCRTGDMESVMHVMRKLDELAIS-PD----YNTFHILI   72 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~----~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~-~~----~~~~~~ll   72 (159)
                      ..|...|++++|.+.|.+..+.    |..++ ..+|+.+..+|.+.|++++|+..|++..+.... .+    ..++..+-
T Consensus        45 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg  124 (292)
T 1qqe_A           45 TIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELG  124 (292)
T ss_dssp             HHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3567789999999999876543    32222 568999999999999999999999988763211 11    35788888


Q ss_pred             HHHHcc-ChHHHHHHHHHHHHHcC----CCCc-HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCH------HHHHH
Q 039637           73 KYFCKE-KMYMLAYRTMVDMHRKG----HQPE-EELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCK------ALHEK  140 (159)
Q Consensus        73 ~~~~~~-~~~~~a~~~~~~m~~~g----~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~------~~~~~  140 (159)
                      ..|... |++++|+..+++..+..    ..+. ..++..+...|.+.|++++|...|++..........      ..|..
T Consensus       125 ~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~  204 (292)
T 1qqe_A          125 EILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLK  204 (292)
T ss_dssp             HHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHH
T ss_pred             HHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHH
Confidence            999996 99999999999887532    1111 356888999999999999999999988864332221      25677


Q ss_pred             HHHHHHhcCcHHHHhhhh
Q 039637          141 ILHILISGKLLKDAYIVV  158 (159)
Q Consensus       141 l~~~~~~~g~~~~A~~~~  158 (159)
                      +..++...|++++|...|
T Consensus       205 lg~~~~~~g~~~~A~~~~  222 (292)
T 1qqe_A          205 KGLCQLAATDAVAAARTL  222 (292)
T ss_dssp             HHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHH
Confidence            888999999999998765

>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A*

Probab=99.24  E-value=4.1e-10  Score=84.96  Aligned_cols=127  Identities=16%  Similarity=0.124  Sum_probs=112.3

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC-hhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHH
Q 039637           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLI  107 (159)
Q Consensus        29 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li  107 (159)
                      +..+|+.+...|.+.|++++|+..|++..+.  .|+ ...|..+-.++.+.|++++|+..|++.++.. +-+...|..+.
T Consensus         8 ~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l--~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~-P~~~~a~~nLg   84 (723)
T 4gyw_A            8 HADSLNNLANIKREQGNIEEAVRLYRKALEV--FPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYSNMG   84 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            4678999999999999999999999999984  565 6888999999999999999999999999864 33678999999


Q ss_pred             HHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhhC
Q 039637          108 FHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVVK  159 (159)
Q Consensus       108 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  159 (159)
                      ..|.+.|++++|...|++..+.. +-+...|..+...|.+.|++++|.+.|+
T Consensus        85 ~~l~~~g~~~~A~~~~~kAl~l~-P~~~~a~~~Lg~~~~~~g~~~eAi~~~~  135 (723)
T 4gyw_A           85 NTLKEMQDVQGALQCYTRAIQIN-PAFADAHSNLASIHKDSGNIPEAIASYR  135 (723)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            99999999999999999888643 3467899999999999999999998763

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=99.24  E-value=2.4e-09  Score=68.66  Aligned_cols=124  Identities=9%  Similarity=0.026  Sum_probs=104.4

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYM   82 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   82 (159)
                      ..+...|++++|.+.|+...    .|+...|..+...+.+.|++++|...|++..+.. ..+...+..+..++...|+++
T Consensus        14 ~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~   88 (213)
T 1hh8_A           14 VLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKYD   88 (213)
T ss_dssp             HHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcccHH
Confidence            45678899999999998764    5688999999999999999999999999998853 235678888999999999999


Q ss_pred             HHHHHHHHHHHcCCC--------------C-cHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCC
Q 039637           83 LAYRTMVDMHRKGHQ--------------P-EEELCSSLIFHLGKMRAHSEALSVYNMLRYSKR  131 (159)
Q Consensus        83 ~a~~~~~~m~~~g~~--------------~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  131 (159)
                      +|...+++..+....              | +...+..+...|.+.|++++|...|++......
T Consensus        89 ~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p  152 (213)
T 1hh8_A           89 LAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKS  152 (213)
T ss_dssp             HHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCc
Confidence            999999999875321              1 236788899999999999999999999886543

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=99.21  E-value=1.5e-09  Score=73.36  Aligned_cols=157  Identities=9%  Similarity=-0.031  Sum_probs=118.5

Q ss_pred             hhHHHhcCCHHHHHHHHHHHHhCCCC-CCHH----HHHHHHHHHHhcCChHHHHHHHHHhHhcCCC-CC----hhhHHHH
Q 039637            2 ISAFCRSGCFEETKQLAGDFEAKYDK-YDVV----LLNSMLCAYCRTGDMESVMHVMRKLDELAIS-PD----YNTFHIL   71 (159)
Q Consensus         2 l~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~----~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~-~~----~~~~~~l   71 (159)
                      +..+.+.|++++|.+.++...+.... |+..    .+..+...+...+++++|+..|.+..+.... ++    ..+++.+
T Consensus        82 i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~l  161 (293)
T 3u3w_A           82 VIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAI  161 (293)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHHH
Confidence            35577889999999999998865432 3321    3445777777888999999999999874332 22    2368889


Q ss_pred             HHHHHccChHHHHHHHHHHHHH----c-CCCC-cHHHHHHHHHHHHccCCHHHHHHHHHHHHh----CCCCCC-HHHHHH
Q 039637           72 IKYFCKEKMYMLAYRTMVDMHR----K-GHQP-EEELCSSLIFHLGKMRAHSEALSVYNMLRY----SKRSMC-KALHEK  140 (159)
Q Consensus        72 l~~~~~~~~~~~a~~~~~~m~~----~-g~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~----~~~~~~-~~~~~~  140 (159)
                      ..+|...|++++|..++++..+    . +..+ ...++..+...|.+.|++++|...+++...    .+..+. ..+|..
T Consensus       162 g~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~~  241 (293)
T 3u3w_A          162 ANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQ  241 (293)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHH
Confidence            9999999999999999999884    1 2222 234778899999999999999999987653    222333 568889


Q ss_pred             HHHHHHhcCc-HHHHhhhh
Q 039637          141 ILHILISGKL-LKDAYIVV  158 (159)
Q Consensus       141 l~~~~~~~g~-~~~A~~~~  158 (159)
                      +-..|.+.|+ .++|.+.+
T Consensus       242 lg~~~~~~g~~~~~A~~~~  260 (293)
T 3u3w_A          242 RGECLRKLEYEEAEIEDAY  260 (293)
T ss_dssp             HHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHhCCcHHHHHHHH
Confidence            9999999994 68888765

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=99.20  E-value=3.4e-10  Score=85.00  Aligned_cols=147  Identities=10%  Similarity=-0.069  Sum_probs=117.9

Q ss_pred             HhcCCHHHHHHHHHHHH--------hCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCC-ChhhHHHHHHHHH
Q 039637            6 CRSGCFEETKQLAGDFE--------AKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP-DYNTFHILIKYFC   76 (159)
Q Consensus         6 ~~~~~~~~A~~~~~~~~--------~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~   76 (159)
                      ...|++++|.+.++...        +..+. +...|..+..++.+.|++++|...|++..+.  .| +...|..+-.++.
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~p~-~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~  478 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDFSE-SVELPLMEVRALLDLGDVAKATRKLDDLAER--VGWRWRLVWYRAVAEL  478 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CCTT-CSHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--HCCCHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhccccccccccc-chhHHHHHHHHHHhcCCHHHHHHHHHHHhcc--CcchHHHHHHHHHHHH
Confidence            46788999999998887        44333 6678888888999999999999999988874  34 4577788888889


Q ss_pred             ccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhh
Q 039637           77 KEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYI  156 (159)
Q Consensus        77 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  156 (159)
                      ..|++++|.+.|++..+.. +-+...+..+..+|.+.|++++ ...|++..... +-+...|..+..++.+.|++++|..
T Consensus       479 ~~g~~~~A~~~~~~al~l~-P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~  555 (681)
T 2pzi_A          479 LTGDYDSATKHFTEVLDTF-PGELAPKLALAATAELAGNTDE-HKFYQTVWSTN-DGVISAAFGLARARSAEGDRVGAVR  555 (681)
T ss_dssp             HHTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhC-CchHHHHHHHHHHHHHcCCHHHHHH
Confidence            9999999999999988764 2356788888888999999999 88888887633 3466788888899999999999987


Q ss_pred             hh
Q 039637          157 VV  158 (159)
Q Consensus       157 ~~  158 (159)
                      .|
T Consensus       556 ~~  557 (681)
T 2pzi_A          556 TL  557 (681)
T ss_dssp             HH
T ss_pred             HH
Confidence            65

>2h6f_A Protein farnesyltransferase/geranylgeranyltransferase type I alpha subunit; ftase, farnesyltransferase, farnesyl transferase, prenyltransferase, CAAX, RAS, lipid modification, prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP: a.118.6.1 PDB: 1jcq_A* 1ld7_A* 1mzc_A* 1s63_A* 1sa4_A* 1tn6_A* 1ld8_A* 2h6g_A* 2h6h_A* 2h6i_A* 2iej_A* 3e37_A* 2f0y_A* 3ksl_A* 2zir_A* 2zis_A* 1o5m_A* 3ksq_A* 1o1t_A* 1o1s_A* ...

Probab=99.20  E-value=1.1e-09  Score=77.08  Aligned_cols=151  Identities=6%  Similarity=-0.018  Sum_probs=123.4

Q ss_pred             hHHHhcCC-HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCC-ChhhHHHHHHHHHccCh
Q 039637            3 SAFCRSGC-FEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP-DYNTFHILIKYFCKEKM   80 (159)
Q Consensus         3 ~~~~~~~~-~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~~~   80 (159)
                      ..+...|+ +++|++.|++..+..+. +...|+.+..++.+.|++++|+..|++..+.  .| +...|..+-.++.+.|+
T Consensus       139 ~~l~~~g~d~~eAl~~~~~al~l~P~-~~~a~~~~g~~~~~~g~~~eAl~~~~kal~l--dP~~~~a~~~lg~~~~~~g~  215 (382)
T 2h6f_A          139 VLLKSLQKDLHEEMNYITAIIEEQPK-NYQVWHHRRVLVEWLRDPSQELEFIADILNQ--DAKNYHAWQHRQWVIQEFKL  215 (382)
T ss_dssp             HHHHHTTCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHcccCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CccCHHHHHHHHHHHHHcCC
Confidence            35667786 99999999999988776 8899999999999999999999999999984  45 56888889999999999


Q ss_pred             HHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHc-cCCHHHH-----HHHHHHHHhCCCCCCHHHHHHHHHHHHhcC--cHH
Q 039637           81 YMLAYRTMVDMHRKGHQPEEELCSSLIFHLGK-MRAHSEA-----LSVYNMLRYSKRSMCKALHEKILHILISGK--LLK  152 (159)
Q Consensus        81 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~-~g~~~~a-----~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~~  152 (159)
                      +++|+..++++++.. +-+...|+.+...+.+ .|..++|     ...|++..... +-+...|..+...+.+.|  +++
T Consensus       216 ~~eAl~~~~~al~l~-P~~~~a~~~lg~~l~~l~~~~~eA~~~~el~~~~~Al~l~-P~~~~a~~~l~~ll~~~g~~~~~  293 (382)
T 2h6f_A          216 WDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYNDRAVLEREVQYTLEMIKLV-PHNESAWNYLKGILQDRGLSKYP  293 (382)
T ss_dssp             CTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSCSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTTTCGGGCH
T ss_pred             hHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCcchHHHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHccCccchH
Confidence            999999999999875 3477888888888888 5665777     47787776533 345678888888888887  577


Q ss_pred             HHhhhh
Q 039637          153 DAYIVV  158 (159)
Q Consensus       153 ~A~~~~  158 (159)
                      +|.+.+
T Consensus       294 ~a~~~~  299 (382)
T 2h6f_A          294 NLLNQL  299 (382)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            777654

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.20  E-value=7e-10  Score=77.53  Aligned_cols=155  Identities=10%  Similarity=-0.037  Sum_probs=121.1

Q ss_pred             HHHhcCCHHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCC-C-----ChhhHHHHH
Q 039637            4 AFCRSGCFEETKQLAGDFEAK----YDKY-DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAIS-P-----DYNTFHILI   72 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~----~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~-~-----~~~~~~~ll   72 (159)
                      .+...|++++|.+.|+...+.    +..+ ...+|..+...|...|++++|...+.+..+.--. +     ...+++.+-
T Consensus       112 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg  191 (383)
T 3ulq_A          112 YELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHSLFA  191 (383)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHHHHH
Confidence            456789999999999998754    2122 3468899999999999999999999988764111 1     135677888


Q ss_pred             HHHHccChHHHHHHHHHHHHHc----CCCC-cHHHHHHHHHHHHccCCHHHHHHHHHHHHhC----CC-CCCHHHHHHHH
Q 039637           73 KYFCKEKMYMLAYRTMVDMHRK----GHQP-EEELCSSLIFHLGKMRAHSEALSVYNMLRYS----KR-SMCKALHEKIL  142 (159)
Q Consensus        73 ~~~~~~~~~~~a~~~~~~m~~~----g~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~  142 (159)
                      .+|...|++++|...+.+..+.    +..+ ...++..+...|...|++++|...+++....    +. +....++..+.
T Consensus       192 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~  271 (383)
T 3ulq_A          192 TNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFLIT  271 (383)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHHHHH
Confidence            9999999999999999888743    2111 2347888999999999999999999987751    33 44467788999


Q ss_pred             HHHHhcCcHHHHhhhh
Q 039637          143 HILISGKLLKDAYIVV  158 (159)
Q Consensus       143 ~~~~~~g~~~~A~~~~  158 (159)
                      ..|.+.|++++|...+
T Consensus       272 ~~~~~~g~~~~A~~~~  287 (383)
T 3ulq_A          272 QIHYKLGKIDKAHEYH  287 (383)
T ss_dssp             HHHHHTTCHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHH
Confidence            9999999999998876

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.19  E-value=2.4e-09  Score=77.98  Aligned_cols=142  Identities=8%  Similarity=-0.019  Sum_probs=72.3

Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCCh--hhHHHHHHHHHccChHHHHHHHHHH
Q 039637           13 ETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDY--NTFHILIKYFCKEKMYMLAYRTMVD   90 (159)
Q Consensus        13 ~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~--~~~~~ll~~~~~~~~~~~a~~~~~~   90 (159)
                      +|.++|++..+.-.+.+...|..++..+.+.|++++|..+|++..+  +.|+.  ..|......+.+.|++++|.++|++
T Consensus       304 ~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~  381 (530)
T 2ooe_A          304 EAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLA--IEDIDPTLVYIQYMKFARRAEGIKSGRMIFKK  381 (530)
T ss_dssp             HHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--SSSSCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhC--ccccCchHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence            6666666665421122456666666666666666666666666665  33432  3555555555556666666666665


Q ss_pred             HHHcCCCCcHHHHHHHHHH-HHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637           91 MHRKGHQPEEELCSSLIFH-LGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus        91 m~~~g~~~~~~~~~~li~~-~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      ..+.. +.+...+...... +...|+.++|..+|+..... .+-+...+..++..+.+.|+.++|..+|
T Consensus       382 Al~~~-~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~-~p~~~~~~~~~~~~~~~~g~~~~Ar~~~  448 (530)
T 2ooe_A          382 AREDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKK-YGDIPEYVLAYIDYLSHLNEDNNTRVLF  448 (530)
T ss_dssp             HHTCT-TCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHTTTTCHHHHHHHH
T ss_pred             HHhcc-CCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHH-CCCCHHHHHHHHHHHHhCCCHhhHHHHH
Confidence            55432 1122222211111 22345555555555544432 1223445555555555555555555544

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.19  E-value=2.3e-09  Score=78.07  Aligned_cols=152  Identities=12%  Similarity=0.016  Sum_probs=119.2

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC-hhhHHHHHH-HHHccC
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYD-VVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIK-YFCKEK   79 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~-~~~~~~   79 (159)
                      ..+.+.|++++|.++|++..+..+. + ...|..++..+.+.|++++|..+|++..+.  .|+ ...|..... .+...|
T Consensus       329 ~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~--~~~~~~~~~~~a~~~~~~~~  405 (530)
T 2ooe_A          329 DYEESRMKYEKVHSIYNRLLAIEDI-DPTLVYIQYMKFARRAEGIKSGRMIFKKARED--ARTRHHVYVTAALMEYYCSK  405 (530)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHSSSS-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTC--TTCCTHHHHHHHHHHHHHTC
T ss_pred             HHHHhcCCHHHHHHHHHHHhCcccc-CchHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--cCCchHHHHHHHHHHHHHcC
Confidence            4566789999999999999986443 4 358999999999999999999999999874  333 222322221 233589


Q ss_pred             hHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCC-CCC--CHHHHHHHHHHHHhcCcHHHHhh
Q 039637           80 MYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSK-RSM--CKALHEKILHILISGKLLKDAYI  156 (159)
Q Consensus        80 ~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~-~~~--~~~~~~~l~~~~~~~g~~~~A~~  156 (159)
                      ++++|..+|+...+.. +-++..|..++..+.+.|+.++|..+|++..... ..|  ....|...+....+.|+.+.+..
T Consensus       406 ~~~~A~~~~e~al~~~-p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~  484 (530)
T 2ooe_A          406 DKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILK  484 (530)
T ss_dssp             CHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHH
T ss_pred             ChhHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            9999999999988763 3467899999999999999999999999988753 233  25578888999999999999887


Q ss_pred             hh
Q 039637          157 VV  158 (159)
Q Consensus       157 ~~  158 (159)
                      ++
T Consensus       485 ~~  486 (530)
T 2ooe_A          485 VE  486 (530)
T ss_dssp             HH
T ss_pred             HH
Confidence            64

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=99.18  E-value=4.4e-10  Score=71.46  Aligned_cols=153  Identities=8%  Similarity=-0.045  Sum_probs=112.2

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhc----CCCC-ChhhHHHHHHHHHccC
Q 039637            5 FCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDEL----AISP-DYNTFHILIKYFCKEK   79 (159)
Q Consensus         5 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~~~~-~~~~~~~ll~~~~~~~   79 (159)
                      ....|++++|.+.++.+.. .+.....++..+...+...|++++|...+.+..+.    +..| ...++..+...+...|
T Consensus         2 ~~~~g~~~~A~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g   80 (203)
T 3gw4_A            2 AFEAHDYALAERQAQALLA-HPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAG   80 (203)
T ss_dssp             -----CHHHHHHHHHHHHT-STTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTT
T ss_pred             ccccccHHHHHHHHHHhcC-ChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcC
Confidence            4568999999996666654 33346788999999999999999999999988762    2222 2456778888899999


Q ss_pred             hHHHHHHHHHHHHHc----CCCC--cHHHHHHHHHHHHccCCHHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHhc
Q 039637           80 MYMLAYRTMVDMHRK----GHQP--EEELCSSLIFHLGKMRAHSEALSVYNMLRYS----KRSM-CKALHEKILHILISG  148 (159)
Q Consensus        80 ~~~~a~~~~~~m~~~----g~~~--~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~  148 (159)
                      ++++|...+.+..+.    +..+  ....+..+...+...|++++|...+++....    +.+. ...++..+...+...
T Consensus        81 ~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~  160 (203)
T 3gw4_A           81 NWDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQE  160 (203)
T ss_dssp             CHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHC
Confidence            999999999887753    2122  2456778889999999999999999876532    2111 123467888999999


Q ss_pred             CcHHHHhhhh
Q 039637          149 KLLKDAYIVV  158 (159)
Q Consensus       149 g~~~~A~~~~  158 (159)
                      |++++|.+.+
T Consensus       161 g~~~~A~~~~  170 (203)
T 3gw4_A          161 KNLLEAQQHW  170 (203)
T ss_dssp             TCHHHHHHHH
T ss_pred             cCHHHHHHHH
Confidence            9999998765

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=99.17  E-value=2.7e-09  Score=68.43  Aligned_cols=123  Identities=8%  Similarity=-0.050  Sum_probs=104.3

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHH
Q 039637           31 VLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHL  110 (159)
Q Consensus        31 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~  110 (159)
                      ..+..+...+.+.|++++|...|.+..    .|+...+..+..++...|++++|...+++..+.. +.+...+..+..+|
T Consensus         7 ~~~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~   81 (213)
T 1hh8_A            7 ISLWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLY   81 (213)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHH
Confidence            445667788889999999999998773    5788899999999999999999999999998764 34678899999999


Q ss_pred             HccCCHHHHHHHHHHHHhCCCC--------------C-CHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637          111 GKMRAHSEALSVYNMLRYSKRS--------------M-CKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus       111 ~~~g~~~~a~~~~~~~~~~~~~--------------~-~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      ...|++++|...|++.......              | ....+..+...|.+.|++++|.+.|
T Consensus        82 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  144 (213)
T 1hh8_A           82 YQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQL  144 (213)
T ss_dssp             HHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHH
Confidence            9999999999999988864321              1 2367889999999999999998876

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=99.16  E-value=7.3e-09  Score=60.32  Aligned_cols=117  Identities=15%  Similarity=0.053  Sum_probs=93.5

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHH
Q 039637           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIF  108 (159)
Q Consensus        29 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~  108 (159)
                      +...|..+...+.+.|++++|.+.|.++.+.. ..+..++..+...+...|++++|..+++++.+.. +.+..++..+..
T Consensus         8 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~   85 (125)
T 1na0_A            8 SAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGN   85 (125)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHH
Confidence            36788889999999999999999999998753 2356778888899999999999999999998764 346778889999


Q ss_pred             HHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 039637          109 HLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISG  148 (159)
Q Consensus       109 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  148 (159)
                      .|...|++++|...++++.... +.+...+..+...+...
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~  124 (125)
T 1na0_A           86 AYYKQGDYDEAIEYYQKALELD-PNNAEAKQNLGNAKQKQ  124 (125)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHhc
Confidence            9999999999999999887643 33455555555555443

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.15  E-value=2.6e-09  Score=72.64  Aligned_cols=144  Identities=9%  Similarity=0.008  Sum_probs=89.7

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCC-----ChhhHHHHHHH--
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDK-YDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP-----DYNTFHILIKY--   74 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-----~~~~~~~ll~~--   74 (159)
                      .++...|++++|++++......++. -+...+..++..+.+.|+.+.|.+.+++|.+.  .|     +..+...+..+  
T Consensus       108 ~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~~--~~d~~~~~d~~l~~Laea~v  185 (310)
T 3mv2_B          108 TAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTNA--IEDTVSGDNEMILNLAESYI  185 (310)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CccccccchHHHHHHHHHHH
Confidence            4566678888888888777665542 25667777778888888888888888887763  45     34555555555  


Q ss_pred             HHccC--hHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhC-----C----CCCCHHHHHHHHH
Q 039637           75 FCKEK--MYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYS-----K----RSMCKALHEKILH  143 (159)
Q Consensus        75 ~~~~~--~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-----~----~~~~~~~~~~l~~  143 (159)
                      ....|  ++.+|..+|+++.+.  .|+...-..++.++.+.|++++|...++.+.+.     +    .+-+..+...+|.
T Consensus       186 ~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~~~p~~~~k~~~~p~~~~~LaN~i~  263 (310)
T 3mv2_B          186 KFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVELLLSDYYSVEQKENAVLYKPTFLANQIT  263 (310)
T ss_dssp             HHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHSHHHHTTTCHHHHSSHHHHHHHHHH
T ss_pred             HHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccccccCCCCCHHHHHHHHH
Confidence            22233  777888888887654  244223334444777778888888887765532     1    1334555545544


Q ss_pred             HHHhcCc
Q 039637          144 ILISGKL  150 (159)
Q Consensus       144 ~~~~~g~  150 (159)
                      .....|+
T Consensus       264 l~~~lgk  270 (310)
T 3mv2_B          264 LALMQGL  270 (310)
T ss_dssp             HHHHTTC
T ss_pred             HHHHhCh
Confidence            4444454

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=99.14  E-value=7.7e-09  Score=63.49  Aligned_cols=120  Identities=10%  Similarity=0.013  Sum_probs=67.4

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHH
Q 039637            4 AFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYML   83 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~   83 (159)
                      .+...|++++|...|+...+..+. +..+|..+...+...|++++|...+.+..+.. ..+...+..+..++...|++++
T Consensus        22 ~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~   99 (166)
T 1a17_A           22 DYFKAKDYENAIKFYSQAIELNPS-NAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKFRA   99 (166)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhccHHH
Confidence            345566666666666666554433 55666666666666666666666666665532 1234555556666666666666


Q ss_pred             HHHHHHHHHHcCCCCcHHHHH--HHHHHHHccCCHHHHHHHHHHH
Q 039637           84 AYRTMVDMHRKGHQPEEELCS--SLIFHLGKMRAHSEALSVYNML  126 (159)
Q Consensus        84 a~~~~~~m~~~g~~~~~~~~~--~li~~~~~~g~~~~a~~~~~~~  126 (159)
                      |...+++..+... .+...+.  ..+..+.+.|++++|...++..
T Consensus       100 A~~~~~~a~~~~p-~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  143 (166)
T 1a17_A          100 ALRDYETVVKVKP-HDKDAKMKYQECNKIVKQKAFERAIAGDEHK  143 (166)
T ss_dssp             HHHHHHHHHHHST-TCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHHHHHHHHHcccch
Confidence            6666666665421 2333332  2233355556666666666544

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.14  E-value=3e-09  Score=71.94  Aligned_cols=154  Identities=6%  Similarity=-0.028  Sum_probs=112.0

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCC---C--CHHHHHHHHHHHHhc-CChHHHHHHHHHhHhcCCCCC-------hhhHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDK---Y--DVVLLNSMLCAYCRT-GDMESVMHVMRKLDELAISPD-------YNTFH   69 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~---~--~~~~~~~ll~~~~~~-~~~~~a~~~~~~m~~~~~~~~-------~~~~~   69 (159)
                      ..|.+.|++++|...|++..+..+.   +  -..+++.+...|... |++++|+..|++..+.  .|+       ..++.
T Consensus        85 ~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~--~~~~~~~~~~~~~~~  162 (292)
T 1qqe_A           85 KCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEW--YAQDQSVALSNKCFI  162 (292)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH--HHHTTCHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHH--HHhCCChHHHHHHHH
Confidence            4577889999999999987643211   1  145788999999996 9999999999998763  221       35678


Q ss_pred             HHHHHHHccChHHHHHHHHHHHHHcCCCCcH------HHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCC-C---HHHHH
Q 039637           70 ILIKYFCKEKMYMLAYRTMVDMHRKGHQPEE------ELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSM-C---KALHE  139 (159)
Q Consensus        70 ~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~------~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~-~---~~~~~  139 (159)
                      .+...+.+.|++++|+..+++..+.......      ..+..+..++...|++++|...|++........ +   ...+.
T Consensus       163 ~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~l~  242 (292)
T 1qqe_A          163 KCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLK  242 (292)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHH
Confidence            8899999999999999999999976432221      156778888999999999999999887532111 1   11344


Q ss_pred             HHHHHHH--hcCcHHHHhhhh
Q 039637          140 KILHILI--SGKLLKDAYIVV  158 (159)
Q Consensus       140 ~l~~~~~--~~g~~~~A~~~~  158 (159)
                      .+...+.  ..+++++|...|
T Consensus       243 ~l~~~~~~~~~~~~~~A~~~~  263 (292)
T 1qqe_A          243 SLIDAVNEGDSEQLSEHCKEF  263 (292)
T ss_dssp             HHHHHHHTTCTTTHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHh
Confidence            5556664  456788887765

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.13  E-value=4.1e-10  Score=79.03  Aligned_cols=155  Identities=11%  Similarity=-0.053  Sum_probs=108.9

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCH----HHHHHHHHHHHhcCChHHHHHHHHHhHhc----CCCC-ChhhHHHHHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDV----VLLNSMLCAYCRTGDMESVMHVMRKLDEL----AISP-DYNTFHILIK   73 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~----~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~~~~-~~~~~~~ll~   73 (159)
                      ..+...|++++|.+.|+...+.++. +.    .+|..+...|...|++++|...+++..+.    +-.| ...++..+..
T Consensus        56 ~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~  134 (411)
T 4a1s_A           56 ERLCNAGDCRAGVAFFQAAIQAGTE-DLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGNLGN  134 (411)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhCcHHHHHHHHHHHHHhccc-ChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHHHHH
Confidence            3567788999999999988876544 33    47888888888899999998888887653    1112 2456677778


Q ss_pred             HHHccChHHHHHHHHHHHHHc----CC-CCcHHHHHHHHHHHHccCC-----------------HHHHHHHHHHHHhC--
Q 039637           74 YFCKEKMYMLAYRTMVDMHRK----GH-QPEEELCSSLIFHLGKMRA-----------------HSEALSVYNMLRYS--  129 (159)
Q Consensus        74 ~~~~~~~~~~a~~~~~~m~~~----g~-~~~~~~~~~li~~~~~~g~-----------------~~~a~~~~~~~~~~--  129 (159)
                      .+...|++++|...+.+..+.    +. .....++..+...|...|+                 +++|...+++....  
T Consensus       135 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~  214 (411)
T 4a1s_A          135 TLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMR  214 (411)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHH
Confidence            888888888888888877643    11 1234467777888888888                 88888887765431  


Q ss_pred             --CC-CCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637          130 --KR-SMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus       130 --~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                        +. +....++..+...|...|++++|...+
T Consensus       215 ~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  246 (411)
T 4a1s_A          215 DLGDRGAQGRACGNLGNTYYLLGDFQAAIEHH  246 (411)
T ss_dssp             HHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHHHHHcCChHHHHHHH
Confidence              11 112346677778888888888887765

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=99.13  E-value=6e-10  Score=83.69  Aligned_cols=142  Identities=11%  Similarity=-0.019  Sum_probs=117.3

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCC-ChhhHHHHHHHHHccChH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP-DYNTFHILIKYFCKEKMY   81 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~~~~   81 (159)
                      ..|.+.|++++|.+.|+...+.++. +...|..+..++.+.|++++|...|++..+.  .| +...+..+-.++.+.|++
T Consensus       441 ~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l--~P~~~~~~~~lg~~~~~~g~~  517 (681)
T 2pzi_A          441 RALLDLGDVAKATRKLDDLAERVGW-RWRLVWYRAVAELLTGDYDSATKHFTEVLDT--FPGELAPKLALAATAELAGNT  517 (681)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--STTCSHHHHHHHHHHHHHTCC
T ss_pred             HHHHhcCCHHHHHHHHHHHhccCcc-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHcCCh
Confidence            4678889999999999999987665 8889999999999999999999999999984  45 467788899999999999


Q ss_pred             HHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCc
Q 039637           82 MLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKL  150 (159)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  150 (159)
                      ++ ++.|++..+.. +-+...+..+..++.+.|++++|...|++..... +-+...+..+..++...++
T Consensus       518 ~~-~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          518 DE-HKFYQTVWSTN-DGVISAAFGLARARSAEGDRVGAVRTLDEVPPTS-RHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             CT-TCHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHTSCTTS-TTHHHHHHHHHHHTC----
T ss_pred             HH-HHHHHHHHHhC-CchHHHHHHHHHHHHHcCCHHHHHHHHHhhcccC-cccHHHHHHHHHHHHccCC
Confidence            99 99999999864 3467789999999999999999999999887532 2235667777777766444

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=99.12  E-value=1.4e-08  Score=68.58  Aligned_cols=157  Identities=8%  Similarity=-0.055  Sum_probs=116.5

Q ss_pred             hhHHHhcCCHHHHHHHHHHHHhCCCCCC-H----HHHHHHHHHHHhcCChHHHHHHHHHhHhcCCC---CC--hhhHHHH
Q 039637            2 ISAFCRSGCFEETKQLAGDFEAKYDKYD-V----VLLNSMLCAYCRTGDMESVMHVMRKLDELAIS---PD--YNTFHIL   71 (159)
Q Consensus         2 l~~~~~~~~~~~A~~~~~~~~~~~~~~~-~----~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~---~~--~~~~~~l   71 (159)
                      +..+...|++++|.+.+....+.....+ .    ..+..+...+...|++++|+..+.+..+....   +.  ..+++.+
T Consensus        82 ~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l  161 (293)
T 2qfc_A           82 VIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAI  161 (293)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHHHHHHH
T ss_pred             HHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHHHHHHH
Confidence            3457789999999999988776543321 1    23445666778889999999999998753221   11  3478888


Q ss_pred             HHHHHccChHHHHHHHHHHHHH---c-CCCC--cHHHHHHHHHHHHccCCHHHHHHHHHHHHhC----CCCCC-HHHHHH
Q 039637           72 IKYFCKEKMYMLAYRTMVDMHR---K-GHQP--EEELCSSLIFHLGKMRAHSEALSVYNMLRYS----KRSMC-KALHEK  140 (159)
Q Consensus        72 l~~~~~~~~~~~a~~~~~~m~~---~-g~~~--~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~~~-~~~~~~  140 (159)
                      ...|...|++++|...+++..+   . +..+  ...++..+...|.+.|++++|...+++....    +.... ..+|..
T Consensus       162 g~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~~~~~~  241 (293)
T 2qfc_A          162 ANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQ  241 (293)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHHHHHHH
Confidence            9999999999999999998872   2 1111  2258889999999999999999999976532    22222 567889


Q ss_pred             HHHHHHhcCcHHHH-hhhh
Q 039637          141 ILHILISGKLLKDA-YIVV  158 (159)
Q Consensus       141 l~~~~~~~g~~~~A-~~~~  158 (159)
                      +...|.+.|+.++| ...+
T Consensus       242 lg~~y~~~g~~~~Ai~~~~  260 (293)
T 2qfc_A          242 RGECLRKLEYEEAEIEDAY  260 (293)
T ss_dssp             HHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHcCCcHHHHHHHH
Confidence            99999999999999 5533

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=99.12  E-value=9.2e-10  Score=68.84  Aligned_cols=123  Identities=10%  Similarity=-0.014  Sum_probs=99.7

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHH-HHccChH--
Q 039637            5 FCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKY-FCKEKMY--   81 (159)
Q Consensus         5 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~-~~~~~~~--   81 (159)
                      +...|++++|.+.++...+..+. +...|..+...|...|++++|...|.+..+.. ..+...+..+..+ +...|++  
T Consensus        20 ~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~~~~~   97 (177)
T 2e2e_A           20 FASQQNPEAQLQALQDKIRANPQ-NSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQASQHMT   97 (177)
T ss_dssp             CC-----CCCCHHHHHHHHHCCS-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTTTCCC
T ss_pred             hhhccCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCCcch
Confidence            45678999999999998877654 78899999999999999999999999998753 2345677777777 7788998  


Q ss_pred             HHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCC
Q 039637           82 MLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSK  130 (159)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  130 (159)
                      ++|...+++..+.. +.+...+..+...|...|++++|...|++.....
T Consensus        98 ~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  145 (177)
T 2e2e_A           98 AQTRAMIDKALALD-SNEITALMLLASDAFMQANYAQAIELWQKVMDLN  145 (177)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhC
Confidence            99999999999864 3457788889999999999999999999887643

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=99.11  E-value=9.9e-09  Score=62.98  Aligned_cols=126  Identities=12%  Similarity=0.013  Sum_probs=102.4

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHH
Q 039637           30 VVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFH  109 (159)
Q Consensus        30 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~  109 (159)
                      ...|..+...+...|++++|...|.+..+.. ..+..++..+..++...|++++|...+.+..+.. +.+...+..+...
T Consensus        13 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~   90 (166)
T 1a17_A           13 AEELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAAS   90 (166)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHH
Confidence            4567888889999999999999999998853 2357788888999999999999999999998864 3467788899999


Q ss_pred             HHccCCHHHHHHHHHHHHhCCCCCCHHHH--HHHHHHHHhcCcHHHHhhhh
Q 039637          110 LGKMRAHSEALSVYNMLRYSKRSMCKALH--EKILHILISGKLLKDAYIVV  158 (159)
Q Consensus       110 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~--~~l~~~~~~~g~~~~A~~~~  158 (159)
                      +...|++++|...|++..... +.+...+  ......+.+.|++++|...+
T Consensus        91 ~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~A~~~~  140 (166)
T 1a17_A           91 NMALGKFRAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGD  140 (166)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence            999999999999999887643 2344454  34445588889999998765

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=99.10  E-value=9.2e-09  Score=59.88  Aligned_cols=107  Identities=16%  Similarity=0.123  Sum_probs=87.5

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYM   82 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   82 (159)
                      ..+...|++++|.+.|+...+..+. +..++..+...+.+.|++++|...++++.+.. ..+..++..+...+...|+++
T Consensus        17 ~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~   94 (125)
T 1na0_A           17 NAYYKQGDYDEAIEYYQKALELDPN-NAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYD   94 (125)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCcC-cHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHH
Confidence            4678899999999999999876554 78899999999999999999999999998853 245678888999999999999


Q ss_pred             HHHHHHHHHHHcCCCCcHHHHHHHHHHHHc
Q 039637           83 LAYRTMVDMHRKGHQPEEELCSSLIFHLGK  112 (159)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~  112 (159)
                      +|...++++.+.. +.+...+..+...+.+
T Consensus        95 ~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~  123 (125)
T 1na0_A           95 EAIEYYQKALELD-PNNAEAKQNLGNAKQK  123 (125)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHHHHHHHh
Confidence            9999999998764 2345555555555443

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.10  E-value=2.6e-09  Score=74.64  Aligned_cols=155  Identities=8%  Similarity=-0.025  Sum_probs=119.4

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCC-CC----CHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCC-----CC-ChhhHHHHH
Q 039637            4 AFCRSGCFEETKQLAGDFEAKYD-KY----DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAI-----SP-DYNTFHILI   72 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~~-~~----~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~-----~~-~~~~~~~ll   72 (159)
                      .+...|++++|.+.|+...+.-. .+    ...++..+...|...|++++|...+.+..+...     .+ ...+++.+-
T Consensus       110 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg  189 (378)
T 3q15_A          110 YEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFVIA  189 (378)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHH
T ss_pred             HHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHHHH
Confidence            35678999999999998875421 12    245788899999999999999999988775311     11 145677888


Q ss_pred             HHHHccChHHHHHHHHHHHHHc----CCCC-cHHHHHHHHHHHHccCCHHHHHHHHHHHHhC----CCCCCHHHHHHHHH
Q 039637           73 KYFCKEKMYMLAYRTMVDMHRK----GHQP-EEELCSSLIFHLGKMRAHSEALSVYNMLRYS----KRSMCKALHEKILH  143 (159)
Q Consensus        73 ~~~~~~~~~~~a~~~~~~m~~~----g~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~~~~~~~~~l~~  143 (159)
                      .+|...|++++|.+.+.+..+.    +..+ ...++..+...|...|++++|...+++....    +.+....++..+..
T Consensus       190 ~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~  269 (378)
T 3q15_A          190 GNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFGLSW  269 (378)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHHHHH
Confidence            8999999999999999887753    2211 2457788899999999999999999987751    22333678889999


Q ss_pred             HHHhcCcHHHHhhhh
Q 039637          144 ILISGKLLKDAYIVV  158 (159)
Q Consensus       144 ~~~~~g~~~~A~~~~  158 (159)
                      .|.+.|++++|...+
T Consensus       270 ~~~~~g~~~~A~~~~  284 (378)
T 3q15_A          270 TLCKAGQTQKAFQFI  284 (378)
T ss_dssp             HHHHTTCHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHH
Confidence            999999999998876

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=99.10  E-value=8.9e-09  Score=60.80  Aligned_cols=120  Identities=13%  Similarity=0.086  Sum_probs=96.5

Q ss_pred             CCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHH
Q 039637           27 KYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSL  106 (159)
Q Consensus        27 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~l  106 (159)
                      +.+...|..+...+.+.|++++|...|++..+.. ..+...+..+..++...|++++|.+.+++..+.. +.+...+..+
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l   90 (133)
T 2lni_A           13 PDLALMVKNKGNECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRK   90 (133)
T ss_dssp             SCHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHH
Confidence            3467789999999999999999999999988742 2356788888899999999999999999998764 3467788899


Q ss_pred             HHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 039637          107 IFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGK  149 (159)
Q Consensus       107 i~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  149 (159)
                      ...+.+.|++++|...|++..... +.+...+..+...+.+.|
T Consensus        91 a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~  132 (133)
T 2lni_A           91 AAALEAMKDYTKAMDVYQKALDLD-SSCKEAADGYQRCMMAQY  132 (133)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-GGGTHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHhc
Confidence            999999999999999999887543 223456666666666554

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.09  E-value=1e-08  Score=60.84  Aligned_cols=110  Identities=13%  Similarity=-0.013  Sum_probs=87.6

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHH
Q 039637           30 VVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFH  109 (159)
Q Consensus        30 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~  109 (159)
                      ...+......|.+.|++++|++.|++..+.. +.+...|..+..++.+.|++++|+..+++.++.. +.+...|..+..+
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            3567888899999999999999999988743 2346788888899999999999999999988764 3467788899999


Q ss_pred             HHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 039637          110 LGKMRAHSEALSVYNMLRYSKRSMCKALHEKIL  142 (159)
Q Consensus       110 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~  142 (159)
                      |...|++++|...|++..... |-+...+..+-
T Consensus        91 ~~~~~~~~~A~~~~~~al~l~-P~~~~a~~~l~  122 (126)
T 4gco_A           91 LVAMREWSKAQRAYEDALQVD-PSNEEAREGVR  122 (126)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHC-cCCHHHHHHHH
Confidence            999999999999999887643 33455544443

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.09  E-value=1.4e-09  Score=76.05  Aligned_cols=154  Identities=7%  Similarity=-0.103  Sum_probs=115.8

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHhHhc----CC-CCChhhHHHHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAK----YDKY-DVVLLNSMLCAYCRTGDMESVMHVMRKLDEL----AI-SPDYNTFHILI   72 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~----~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~~-~~~~~~~~~ll   72 (159)
                      ..|...|++++|.+.|++..+.    +..+ ...++..+...|...|++++|...|++..+.    +. .....++..+.
T Consensus       192 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~  271 (383)
T 3ulq_A          192 TNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFLIT  271 (383)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHHHHH
Confidence            4677889999999999887643    1111 1247888999999999999999999988772    22 22356788889


Q ss_pred             HHHHccChHHHHHHHHHHHHHc----CCCCcHHHHHHHHHHHHccCC---HHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 039637           73 KYFCKEKMYMLAYRTMVDMHRK----GHQPEEELCSSLIFHLGKMRA---HSEALSVYNMLRYSKRSMCKALHEKILHIL  145 (159)
Q Consensus        73 ~~~~~~~~~~~a~~~~~~m~~~----g~~~~~~~~~~li~~~~~~g~---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  145 (159)
                      ..+.+.|++++|...+++..+.    +.+.....+..+...|...|+   .++|..++++..  ..+.....+..+...|
T Consensus       272 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~~--~~~~~~~~~~~la~~y  349 (383)
T 3ulq_A          272 QIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESKM--LYADLEDFAIDVAKYY  349 (383)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCc--CHHHHHHHHHHHHHHH
Confidence            9999999999999999887753    222223346778888888998   777887777662  2222345677889999


Q ss_pred             HhcCcHHHHhhhh
Q 039637          146 ISGKLLKDAYIVV  158 (159)
Q Consensus       146 ~~~g~~~~A~~~~  158 (159)
                      .+.|++++|...+
T Consensus       350 ~~~g~~~~A~~~~  362 (383)
T 3ulq_A          350 HERKNFQKASAYF  362 (383)
T ss_dssp             HHTTCHHHHHHHH
T ss_pred             HHCCCHHHHHHHH
Confidence            9999999998876

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.08  E-value=8.5e-09  Score=70.15  Aligned_cols=140  Identities=9%  Similarity=0.003  Sum_probs=105.6

Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCC-CCChhhHHHHHHHHHccChHHHHHHHHHHHH
Q 039637           14 TKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAI-SPDYNTFHILIKYFCKEKMYMLAYRTMVDMH   92 (159)
Q Consensus        14 A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~   92 (159)
                      |...|+++.+.+ .++..++..+..++...|++++|++++.+-...|- .-+...+..++..+.+.|+.+.|.+.++.|.
T Consensus        85 a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~  163 (310)
T 3mv2_B           85 NIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYT  163 (310)
T ss_dssp             CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            566677666554 44666667888999999999999999998866543 1356778889999999999999999999998


Q ss_pred             HcCCCC-----cHHHHHHHHHHH--HccC--CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637           93 RKGHQP-----EEELCSSLIFHL--GKMR--AHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus        93 ~~g~~~-----~~~~~~~li~~~--~~~g--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      +.  .|     +..+...+..++  ...|  +..+|..+|+++...  .|+...-..++.++.+.|++++|...+
T Consensus       164 ~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L  234 (310)
T 3mv2_B          164 NA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIV  234 (310)
T ss_dssp             HH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             hc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHH
Confidence            75  45     244555565553  3234  899999999998753  344333345555999999999999876

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=99.07  E-value=1.9e-08  Score=59.00  Aligned_cols=120  Identities=13%  Similarity=0.046  Sum_probs=97.7

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHH
Q 039637           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIF  108 (159)
Q Consensus        29 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~  108 (159)
                      +...+..+...+...|++++|...|++..+.. ..+...+..+..++...|++++|.+.+.+..+.. +.+...+..+..
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            56678888899999999999999999988753 2356778888889999999999999999988763 345778888999


Q ss_pred             HHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcH
Q 039637          109 HLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLL  151 (159)
Q Consensus       109 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  151 (159)
                      .+...|++++|...|++..... +.+...+..+...+.+.|+.
T Consensus        89 ~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           89 ALSSLNKHVEAVAYYKKALELD-PDNETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTTC
T ss_pred             HHHHhCCHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHhcC
Confidence            9999999999999999887643 34667777888888777764

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=99.06  E-value=4e-08  Score=63.40  Aligned_cols=147  Identities=13%  Similarity=0.020  Sum_probs=115.6

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC----ChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHc-
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTG----DMESVMHVMRKLDELAISPDYNTFHILIKYFCK-   77 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~----~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~-   77 (159)
                      ..|...+++++|.+.|++..+.|   ++..+..|-..|.. +    ++++|...|++..+.|   +...+..|-..|.. 
T Consensus        26 ~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~~~g---~~~a~~~Lg~~y~~g   98 (212)
T 3rjv_A           26 DTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAEKAVEAG---SKSGEIVLARVLVNR   98 (212)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHTCG
T ss_pred             HHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcC
Confidence            35667899999999999988754   66778888888887 6    8999999999998754   55677778788877 


Q ss_pred             ---cChHHHHHHHHHHHHHcCCC-CcHHHHHHHHHHHHc----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc-
Q 039637           78 ---EKMYMLAYRTMVDMHRKGHQ-PEEELCSSLIFHLGK----MRAHSEALSVYNMLRYSKRSMCKALHEKILHILISG-  148 (159)
Q Consensus        78 ---~~~~~~a~~~~~~m~~~g~~-~~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-  148 (159)
                         .+++++|.++|.+..+.|.. .++..+..|...|..    .++.++|..+|++....+  .+...+..+-..|... 
T Consensus        99 ~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~--~~~~a~~~Lg~~y~~g~  176 (212)
T 3rjv_A           99 QAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSSLS--RTGYAEYWAGMMFQQGE  176 (212)
T ss_dssp             GGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHTS--CTTHHHHHHHHHHHHCB
T ss_pred             CCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHcCC
Confidence               78999999999999887642 126788888888888    789999999999987652  2334566777777654 


Q ss_pred             C-----cHHHHhhhh
Q 039637          149 K-----LLKDAYIVV  158 (159)
Q Consensus       149 g-----~~~~A~~~~  158 (159)
                      |     +.++|...|
T Consensus       177 gg~~~~d~~~A~~~~  191 (212)
T 3rjv_A          177 KGFIEPNKQKALHWL  191 (212)
T ss_dssp             TTTBCCCHHHHHHHH
T ss_pred             CCCCCCCHHHHHHHH
Confidence            3     889988776

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.04  E-value=5.9e-09  Score=72.80  Aligned_cols=154  Identities=12%  Similarity=0.043  Sum_probs=115.2

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHhHhc----CCCCChhhHHHHHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAK----YDKY-DVVLLNSMLCAYCRTGDMESVMHVMRKLDEL----AISPDYNTFHILIK   73 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~----~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~~~~~~~~~~~ll~   73 (159)
                      ..|...|++++|.+.|++..+.    +..+ ...+++.+...|...|++++|.+.|.+..+.    +-+....++..+..
T Consensus       190 ~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~  269 (378)
T 3q15_A          190 GNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFGLSW  269 (378)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHHHHH
Confidence            4677889999999999886642    2221 2357888999999999999999999988762    22223667788889


Q ss_pred             HHHccChHHHHHHHHHHHHHcC----CCCcHHHHHHHHHHHHccCC---HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 039637           74 YFCKEKMYMLAYRTMVDMHRKG----HQPEEELCSSLIFHLGKMRA---HSEALSVYNMLRYSKRSMCKALHEKILHILI  146 (159)
Q Consensus        74 ~~~~~~~~~~a~~~~~~m~~~g----~~~~~~~~~~li~~~~~~g~---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  146 (159)
                      .+.+.|++++|...+++..+..    .+.....+..+...|...++   .++|...+++..  ..+.....+..+...|.
T Consensus       270 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~~--~~~~~~~~~~~la~~y~  347 (378)
T 3q15_A          270 TLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKKN--LHAYIEACARSAAAVFE  347 (378)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhCC--ChhHHHHHHHHHHHHHH
Confidence            9999999999999999988642    22234456677777788888   788888777632  22223446678899999


Q ss_pred             hcCcHHHHhhhh
Q 039637          147 SGKLLKDAYIVV  158 (159)
Q Consensus       147 ~~g~~~~A~~~~  158 (159)
                      +.|++++|...|
T Consensus       348 ~~g~~~~A~~~~  359 (378)
T 3q15_A          348 SSCHFEQAAAFY  359 (378)
T ss_dssp             HTTCHHHHHHHH
T ss_pred             HCCCHHHHHHHH
Confidence            999999998876

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=99.03  E-value=2.4e-08  Score=73.40  Aligned_cols=125  Identities=9%  Similarity=-0.107  Sum_probs=108.6

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYM   82 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   82 (159)
                      ..|.+.|++++|.+.|++..+..+. +...|..+...|.+.|++++|.+.|++..+.. ..+...+..+..++...|+++
T Consensus        31 ~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~  108 (568)
T 2vsy_A           31 DAELGMGDTTAGEMAVQRGLALHPG-HPEAVARLGRVRWTQQRHAEAAVLLQQASDAA-PEHPGIALWLGHALEDAGQAE  108 (568)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHTTSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHH
Confidence            4677889999999999999987655 78899999999999999999999999998853 234678888999999999999


Q ss_pred             HHHHHHHHHHHcCCCCcHHHHHHHHHHHHcc---CCHHHHHHHHHHHHhCC
Q 039637           83 LAYRTMVDMHRKGHQPEEELCSSLIFHLGKM---RAHSEALSVYNMLRYSK  130 (159)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~---g~~~~a~~~~~~~~~~~  130 (159)
                      +|.+.+++..+.. +.+...+..+...+...   |+.++|...+++....+
T Consensus       109 ~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~~  158 (568)
T 2vsy_A          109 AAAAAYTRAHQLL-PEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQG  158 (568)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhcC
Confidence            9999999998864 34677888999999999   99999999999887643

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=99.03  E-value=1.6e-08  Score=59.26  Aligned_cols=111  Identities=12%  Similarity=0.051  Sum_probs=92.3

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYM   82 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   82 (159)
                      ..+...|++++|.+.|+...+..+. +...|..+...+...|++++|...+.+..+.. ..+...+..+..++...|+++
T Consensus        20 ~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~   97 (131)
T 2vyi_A           20 NEQMKVENFEAAVHFYGKAIELNPA-NAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGLALSSLNKHV   97 (131)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHccCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHHHHHHhCCHH
Confidence            4677889999999999998876554 78899999999999999999999999998853 234677888889999999999


Q ss_pred             HHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCH
Q 039637           83 LAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAH  116 (159)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~  116 (159)
                      +|...+.+..+.. +.+...+..+..++.+.|+.
T Consensus        98 ~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           98 EAVAYYKKALELD-PDNETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHhcC-ccchHHHHHHHHHHHHHhcC
Confidence            9999999998764 23666777777777776653

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=99.03  E-value=4e-09  Score=64.44  Aligned_cols=110  Identities=16%  Similarity=-0.022  Sum_probs=88.9

Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcC
Q 039637           16 QLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKG   95 (159)
Q Consensus        16 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g   95 (159)
                      +.|+...+..+. +...+..+...+.+.|++++|...|.+..... +.+...|..+-.++...|++++|...+++..+..
T Consensus         8 ~~~~~al~~~p~-~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~   85 (148)
T 2vgx_A            8 GTIAMLNEISSD-TLEQLYSLAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD   85 (148)
T ss_dssp             CSHHHHTTCCHH-HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             hhHHHHHcCCHh-hHHHHHHHHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            344555543322 56778888999999999999999999998753 2356778888899999999999999999998764


Q ss_pred             CCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHh
Q 039637           96 HQPEEELCSSLIFHLGKMRAHSEALSVYNMLRY  128 (159)
Q Consensus        96 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  128 (159)
                       +.++..+..+..+|...|++++|...|++...
T Consensus        86 -p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~  117 (148)
T 2vgx_A           86 -IXEPRFPFHAAECLLQXGELAEAESGLFLAQE  117 (148)
T ss_dssp             -TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             -CCCchHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence             34667888899999999999999999998775

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.03  E-value=4e-08  Score=58.30  Aligned_cols=102  Identities=9%  Similarity=0.089  Sum_probs=84.1

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYM   82 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   82 (159)
                      ..|.+.|++++|++.|++..+..+. +...|..+..+|.+.|++++|+..|++..+.. +.+...|..+..++...|+++
T Consensus        21 ~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~   98 (126)
T 4gco_A           21 NEYFKKGDYPTAMRHYNEAVKRDPE-NAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYIRKAACLVAMREWS   98 (126)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHHHHHHHHHHCCCHH
Confidence            4578899999999999999887665 88999999999999999999999999998843 234678888999999999999


Q ss_pred             HHHHHHHHHHHcCCCCcHHHHHHHH
Q 039637           83 LAYRTMVDMHRKGHQPEEELCSSLI  107 (159)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~~li  107 (159)
                      +|.+.|++.++.. +-+......+-
T Consensus        99 ~A~~~~~~al~l~-P~~~~a~~~l~  122 (126)
T 4gco_A           99 KAQRAYEDALQVD-PSNEEAREGVR  122 (126)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHC-cCCHHHHHHHH
Confidence            9999999998863 23455554443

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=99.02  E-value=5.6e-09  Score=71.11  Aligned_cols=155  Identities=11%  Similarity=-0.030  Sum_probs=109.9

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCC---CCC--hhhHHHHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAK----YDKY-DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAI---SPD--YNTFHILI   72 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~----~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~---~~~--~~~~~~ll   72 (159)
                      ..|...|++++|.+.|.+..+.    +..+ -..+|+.+...|.+.|++++|+..|++..+.-.   .|.  ..++..+-
T Consensus        44 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg  123 (307)
T 2ifu_A           44 VAFKNAKQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAG  123 (307)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3567778999998888876533    1111 145788888999999999999999988765311   121  35677778


Q ss_pred             HHHHccChHHHHHHHHHHHHHc----CCCC-cHHHHHHHHHHHHccCCHHHHHHHHHHHHhC----CCCCC-HHHHHHHH
Q 039637           73 KYFCKEKMYMLAYRTMVDMHRK----GHQP-EEELCSSLIFHLGKMRAHSEALSVYNMLRYS----KRSMC-KALHEKIL  142 (159)
Q Consensus        73 ~~~~~~~~~~~a~~~~~~m~~~----g~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~~~-~~~~~~l~  142 (159)
                      ..|.. |++++|+..+++..+.    +..+ ...++..+...|.+.|++++|...|++....    +..+. ...+..+.
T Consensus       124 ~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g  202 (307)
T 2ifu_A          124 KLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQV  202 (307)
T ss_dssp             HHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHH
Confidence            88888 9999999999887743    2111 1457788889999999999999999877642    22111 22566677


Q ss_pred             HHHHhcCcHHHHhhhh
Q 039637          143 HILISGKLLKDAYIVV  158 (159)
Q Consensus       143 ~~~~~~g~~~~A~~~~  158 (159)
                      .++...|++++|...|
T Consensus       203 ~~~~~~g~~~~A~~~~  218 (307)
T 2ifu_A          203 LVQLHRADYVAAQKCV  218 (307)
T ss_dssp             HHHHHTTCHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHH
Confidence            7788889999998765

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=99.02  E-value=9.6e-09  Score=62.80  Aligned_cols=109  Identities=9%  Similarity=0.052  Sum_probs=90.0

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC-hhhHHHHHHHHHccChH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMY   81 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~   81 (159)
                      ..|.+.|++++|.+.|++..+..+. +..+|..+..+|.+.|++++|...|++..+.  .|+ ...+..+...+.+.|++
T Consensus        39 ~~y~~~~~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~~~~  115 (150)
T 4ga2_A           39 KLYYEAKEYDLAKKYICTYINVQER-DPKAHRFLGLLYELEENTDKAVECYRRSVEL--NPTQKDLVLKIAELLCKNDVT  115 (150)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCSS
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCchHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCh
Confidence            5688999999999999999987766 8999999999999999999999999999984  564 67888899999999998


Q ss_pred             HHHHHH-HHHHHHcCCCCcHHHHHHHHHHHHccCC
Q 039637           82 MLAYRT-MVDMHRKGHQPEEELCSSLIFHLGKMRA  115 (159)
Q Consensus        82 ~~a~~~-~~~m~~~g~~~~~~~~~~li~~~~~~g~  115 (159)
                      +++.+. +++..+.. +-++.+|......+.+.|+
T Consensus       116 ~~aa~~~~~~al~l~-P~~~~~~~l~~~ll~~~G~  149 (150)
T 4ga2_A          116 DGRAKYWVERAAKLF-PGSPAVYKLKEQLLDCEGE  149 (150)
T ss_dssp             SSHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTCCC
T ss_pred             HHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCc
Confidence            776554 57777653 3366778777777766664

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.02  E-value=2e-08  Score=66.56  Aligned_cols=152  Identities=10%  Similarity=0.009  Sum_probs=113.5

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCC-C-CHHHHHHHHHHHHh--------cCChHHHHHHHHHhHhcCCCCCh-hhH---
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDK-Y-DVVLLNSMLCAYCR--------TGDMESVMHVMRKLDELAISPDY-NTF---   68 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~-~-~~~~~~~ll~~~~~--------~~~~~~a~~~~~~m~~~~~~~~~-~~~---   68 (159)
                      ..|.+.|++++|.+.|+...+..+. | ....+..+..++.+        .|++++|...|++..+.  .|+. ...   
T Consensus        60 ~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~a~  137 (261)
T 3qky_A           60 RAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDR--YPNHELVDDAT  137 (261)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHH--CTTCTTHHHHH
T ss_pred             HHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHH--CcCchhHHHHH
Confidence            4678899999999999999987542 2 35677888888888        99999999999999885  3542 333   


Q ss_pred             --------------HHHHHHHHccChHHHHHHHHHHHHHcCCC-C-cHHHHHHHHHHHHcc----------CCHHHHHHH
Q 039637           69 --------------HILIKYFCKEKMYMLAYRTMVDMHRKGHQ-P-EEELCSSLIFHLGKM----------RAHSEALSV  122 (159)
Q Consensus        69 --------------~~ll~~~~~~~~~~~a~~~~~~m~~~g~~-~-~~~~~~~li~~~~~~----------g~~~~a~~~  122 (159)
                                    ..+...+.+.|++++|+..|+++.+.... + ....+..+..+|...          |++++|...
T Consensus       138 ~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~  217 (261)
T 3qky_A          138 QKIRELRAKLARKQYEAARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVEL  217 (261)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHH
Confidence                          44577889999999999999999876322 1 345777788888866          899999999


Q ss_pred             HHHHHhCCCCCC--HHHHHHHHHHHHhcCcHHHHhh
Q 039637          123 YNMLRYSKRSMC--KALHEKILHILISGKLLKDAYI  156 (159)
Q Consensus       123 ~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~  156 (159)
                      |+++........  ......+-..+.+.++++++..
T Consensus       218 ~~~~~~~~p~~~~~~~a~~~l~~~~~~~~~~~~~~~  253 (261)
T 3qky_A          218 YERLLQIFPDSPLLRTAEELYTRARQRLTELEGDAS  253 (261)
T ss_dssp             HHHHHHHCTTCTHHHHHHHHHHHHHHHHHHHHTCTT
T ss_pred             HHHHHHHCCCChHHHHHHHHHHHHHHHHHHhhhhhH
Confidence            998886432211  3455566666777777666554

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.02  E-value=2.6e-09  Score=72.37  Aligned_cols=155  Identities=11%  Similarity=-0.058  Sum_probs=110.6

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCC----HHHHHHHHHHHHhcCChHHHHHHHHHhHhc----CCCCC-hhhHHHHHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYD----VVLLNSMLCAYCRTGDMESVMHVMRKLDEL----AISPD-YNTFHILIK   73 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~~~~~-~~~~~~ll~   73 (159)
                      ..+...|++++|...|+...+..+. +    ...+..+...+...|++++|.+.+.+..+.    +-.|. ..++..+..
T Consensus        13 ~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~   91 (338)
T 3ro2_A           13 ERLCKSGDCRAGVSFFEAAVQVGTE-DLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGN   91 (338)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHhccHHHHHHHHHHHHhhCcc-cHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHHHHH
Confidence            3567889999999999998876544 3    367888888999999999999998886543    11222 456677788


Q ss_pred             HHHccChHHHHHHHHHHHHHc----CCCC-cHHHHHHHHHHHHccCC--------------------HHHHHHHHHHHHh
Q 039637           74 YFCKEKMYMLAYRTMVDMHRK----GHQP-EEELCSSLIFHLGKMRA--------------------HSEALSVYNMLRY  128 (159)
Q Consensus        74 ~~~~~~~~~~a~~~~~~m~~~----g~~~-~~~~~~~li~~~~~~g~--------------------~~~a~~~~~~~~~  128 (159)
                      .+...|++++|...+.+..+.    +..+ ...++..+...|...|+                    +++|...+++...
T Consensus        92 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~  171 (338)
T 3ro2_A           92 TLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLS  171 (338)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHHHH
Confidence            888889999999888887643    1111 13467778888888888                    8888888876542


Q ss_pred             C----CC-CCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637          129 S----KR-SMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus       129 ~----~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      .    +. +....++..+...+...|++++|...+
T Consensus       172 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~  206 (338)
T 3ro2_A          172 LVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAH  206 (338)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHH
Confidence            1    11 112346777778888888888887765

>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A

Probab=99.01  E-value=1.9e-08  Score=69.52  Aligned_cols=123  Identities=9%  Similarity=-0.059  Sum_probs=89.1

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC----------------hhhHHHHHHHHHccChHHHHHHHHHHHH
Q 039637           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD----------------YNTFHILIKYFCKEKMYMLAYRTMVDMH   92 (159)
Q Consensus        29 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~----------------~~~~~~ll~~~~~~~~~~~a~~~~~~m~   92 (159)
                      +...|..+...+.+.|++++|...|++..+.  .|+                ...|..+..++.+.|++++|+..+++.+
T Consensus       146 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al  223 (336)
T 1p5q_A          146 QSTIVKERGTVYFKEGKYKQALLQYKKIVSW--LEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKAL  223 (336)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--TTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--hhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4556777777788888888888888877764  343                3677777777888888888888888777


Q ss_pred             HcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHh
Q 039637           93 RKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAY  155 (159)
Q Consensus        93 ~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  155 (159)
                      +.. +.+...+..+..+|...|++++|...|++..... +.+..++..+...+.+.|+.++|.
T Consensus       224 ~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a~  284 (336)
T 1p5q_A          224 ELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQQRIRRQLARE  284 (336)
T ss_dssp             HHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHHH
Confidence            753 3366677777888888888888888888776532 335667777777777777777763

>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A

Probab=99.00  E-value=3.6e-08  Score=68.09  Aligned_cols=123  Identities=8%  Similarity=0.030  Sum_probs=103.4

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCC--------------HHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYD--------------VVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTF   68 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~--------------~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~   68 (159)
                      ..|.+.|++++|.+.|++..+..+...              ..+|..+..+|.+.|++++|+..+++..+.. +.+...|
T Consensus       155 ~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~  233 (336)
T 1p5q_A          155 TVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELD-SNNEKGL  233 (336)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHH
Confidence            467889999999999999988765532              6899999999999999999999999999853 2357888


Q ss_pred             HHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHH-HHHHHHH
Q 039637           69 HILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEAL-SVYNMLR  127 (159)
Q Consensus        69 ~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~-~~~~~~~  127 (159)
                      ..+..++...|++++|+..|++.++.. +-+..++..+..++.+.|+.++|. ..++.|.
T Consensus       234 ~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~~  292 (336)
T 1p5q_A          234 SRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQQRIRRQLAREKKLYANMF  292 (336)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            899999999999999999999999864 346778889999999999999884 4555553

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=99.00  E-value=2.3e-08  Score=59.02  Aligned_cols=109  Identities=9%  Similarity=0.021  Sum_probs=89.4

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYM   82 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   82 (159)
                      ..+.+.|++++|.+.|+...+..+. +...+..+...+...|++++|...+++..+.. ..+...+..+..++...|+++
T Consensus        24 ~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~  101 (133)
T 2lni_A           24 NECFQKGDYPQAMKHYTEAIKRNPK-DAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRKAAALEAMKDYT  101 (133)
T ss_dssp             HHHHHTTCSHHHHHHHHHHHTTCTT-CHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHHhhHH
Confidence            4678899999999999999877554 78899999999999999999999999998853 234678888899999999999


Q ss_pred             HHHHHHHHHHHcCCCCcHHHHHHHHHHHHccC
Q 039637           83 LAYRTMVDMHRKGHQPEEELCSSLIFHLGKMR  114 (159)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g  114 (159)
                      +|.+.+++..+.. +.+...+..+...+.+.|
T Consensus       102 ~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~  132 (133)
T 2lni_A          102 KAMDVYQKALDLD-SSCKEAADGYQRCMMAQY  132 (133)
T ss_dssp             HHHHHHHHHHHHC-GGGTHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhC-CCchHHHHHHHHHHHHhc
Confidence            9999999998753 234556666666666554

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.99  E-value=1e-08  Score=62.94  Aligned_cols=99  Identities=10%  Similarity=0.008  Sum_probs=85.1

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCC-ChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHH
Q 039637           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP-DYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLI  107 (159)
Q Consensus        29 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li  107 (159)
                      +...+..+...+.+.|++++|...|++....  .| +...|..+-.++...|++++|+..|++..+.. +-++..+..+.
T Consensus        35 ~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~-P~~~~~~~~lg  111 (151)
T 3gyz_A           35 MMDDIYSYAYDFYNKGRIEEAEVFFRFLCIY--DFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALG-KNDYTPVFHTG  111 (151)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SSCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-CCCcHHHHHHH
Confidence            5667888889999999999999999999884  45 46788888899999999999999999998864 34677888999


Q ss_pred             HHHHccCCHHHHHHHHHHHHhCC
Q 039637          108 FHLGKMRAHSEALSVYNMLRYSK  130 (159)
Q Consensus       108 ~~~~~~g~~~~a~~~~~~~~~~~  130 (159)
                      .+|.+.|++++|...|++.....
T Consensus       112 ~~~~~lg~~~eA~~~~~~al~l~  134 (151)
T 3gyz_A          112 QCQLRLKAPLKAKECFELVIQHS  134 (151)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC
Confidence            99999999999999999888643

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=98.98  E-value=5.3e-09  Score=72.93  Aligned_cols=155  Identities=11%  Similarity=-0.064  Sum_probs=107.3

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCC----HHHHHHHHHHHHhcCChHHHHHHHHHhHhc----CCCCC-hhhHHHHHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYD----VVLLNSMLCAYCRTGDMESVMHVMRKLDEL----AISPD-YNTFHILIK   73 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~~~~~-~~~~~~ll~   73 (159)
                      ..+...|++++|...|+...+.++. +    ..+|..+...+...|++++|...+.+....    +-.|. ..++..+..
T Consensus        17 ~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~   95 (406)
T 3sf4_A           17 ERLCKSGDCRAGVSFFEAAVQVGTE-DLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGN   95 (406)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhccHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHH
Confidence            3567788999999999888876544 3    356788888888899999998888876543    11122 456667777


Q ss_pred             HHHccChHHHHHHHHHHHHHc----CCCC-cHHHHHHHHHHHHccCC--------------------HHHHHHHHHHHHh
Q 039637           74 YFCKEKMYMLAYRTMVDMHRK----GHQP-EEELCSSLIFHLGKMRA--------------------HSEALSVYNMLRY  128 (159)
Q Consensus        74 ~~~~~~~~~~a~~~~~~m~~~----g~~~-~~~~~~~li~~~~~~g~--------------------~~~a~~~~~~~~~  128 (159)
                      .+...|++++|...+.+..+.    +..+ ...++..+...|...|+                    +++|...+++...
T Consensus        96 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~  175 (406)
T 3sf4_A           96 TLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLS  175 (406)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHHHHHHHHHH
Confidence            888888888888888777643    1111 13467777788888888                    8888888776542


Q ss_pred             C----CCCC-CHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637          129 S----KRSM-CKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus       129 ~----~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      .    +..| ...++..+...|...|++++|...+
T Consensus       176 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  210 (406)
T 3sf4_A          176 LVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAH  210 (406)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHH
T ss_pred             HHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHH
Confidence            1    1111 1345677778888888888887765

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=98.97  E-value=2.6e-09  Score=74.97  Aligned_cols=156  Identities=10%  Similarity=-0.038  Sum_probs=93.9

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhC----CC-CCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhc----CCCC-ChhhHHHHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAK----YD-KYDVVLLNSMLCAYCRTGDMESVMHVMRKLDEL----AISP-DYNTFHILI   72 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~----~~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~~~~-~~~~~~~ll   72 (159)
                      ..|...|++++|.+.|++..+.    +. .....++..+...|...|++++|...+.+..+.    +-.| ...++..+.
T Consensus        94 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~  173 (411)
T 4a1s_A           94 NAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLG  173 (411)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHH
Confidence            3556677888888877765532    11 123456777777777778888877777776553    1111 134566666


Q ss_pred             HHHHccCh-----------------HHHHHHHHHHHHHc----CCCC-cHHHHHHHHHHHHccCCHHHHHHHHHHHHhCC
Q 039637           73 KYFCKEKM-----------------YMLAYRTMVDMHRK----GHQP-EEELCSSLIFHLGKMRAHSEALSVYNMLRYSK  130 (159)
Q Consensus        73 ~~~~~~~~-----------------~~~a~~~~~~m~~~----g~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  130 (159)
                      ..+...|+                 +++|.+.+.+..+.    +..+ ...++..+...|...|++++|...+++.....
T Consensus       174 ~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  253 (411)
T 4a1s_A          174 NVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIA  253 (411)
T ss_dssp             HHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHH
Confidence            77777777                 77777777665432    1111 23456666777777777777777776554321


Q ss_pred             C-CCC----HHHHHHHHHHHHhcCcHHHHhhhh
Q 039637          131 R-SMC----KALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus       131 ~-~~~----~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      . .++    ..++..+...|...|++++|...+
T Consensus       254 ~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  286 (411)
T 4a1s_A          254 REFGDRAAERRANSNLGNSHIFLGQFEDAAEHY  286 (411)
T ss_dssp             HHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHH
T ss_pred             HhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHH
Confidence            0 011    225566667777777777776654

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.97  E-value=6.4e-08  Score=62.21  Aligned_cols=132  Identities=9%  Similarity=0.009  Sum_probs=97.2

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC-hhhHHHHHHHHHccCh-
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKM-   80 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~-   80 (159)
                      ..|.+.|++++|.+.|++..+..+. +...|..+...+...|++++|...|++..+.  .|+ ..++..+..++...|+ 
T Consensus        62 ~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~~~~  138 (208)
T 3urz_A           62 LAYKKNRNYDKAYLFYKELLQKAPN-NVDCLEACAEMQVCRGQEKDALRMYEKILQL--EADNLAANIFLGNYYYLTAEQ  138 (208)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHHhHH
Confidence            4577899999999999999988766 8899999999999999999999999999984  464 6777778777766654 


Q ss_pred             -HHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 039637           81 -YMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKI  141 (159)
Q Consensus        81 -~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l  141 (159)
                       ...+...+.....  ..|....+.....++...|++++|...|++...  ..|+......+
T Consensus       139 ~~~~~~~~~~~~~~--~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~--l~P~~~~~~~l  196 (208)
T 3urz_A          139 EKKKLETDYKKLSS--PTKMQYARYRDGLSKLFTTRYEKARNSLQKVIL--RFPSTEAQKTL  196 (208)
T ss_dssp             HHHHHHHHHC---C--CCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTT--TSCCHHHHHHH
T ss_pred             HHHHHHHHHHHHhC--CCchhHHHHHHHHHHHHccCHHHHHHHHHHHHH--hCCCHHHHHHH
Confidence             3445555555432  222223344455666778999999999999985  35666544433

>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=98.97  E-value=2.1e-08  Score=59.60  Aligned_cols=106  Identities=15%  Similarity=0.065  Sum_probs=74.0

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC-hhhHHHHHHHHHccChHHHHHHHHHHHHHcC--CCCc----HHHH
Q 039637           31 VLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYMLAYRTMVDMHRKG--HQPE----EELC  103 (159)
Q Consensus        31 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g--~~~~----~~~~  103 (159)
                      ..+..+...+.+.|++++|++.|.+..+.  .|+ ...|..+-.+|...|++++|++.+++.++..  ..++    ..+|
T Consensus         9 ~a~~~lG~~~~~~~~~~~A~~~y~~Al~~--~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~   86 (127)
T 4gcn_A            9 IAEKDLGNAAYKQKDFEKAHVHYDKAIEL--DPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAM   86 (127)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHH
Confidence            45667778888888888888888887774  344 5667777788888888888888887776532  1111    2356


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHH
Q 039637          104 SSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEK  140 (159)
Q Consensus       104 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  140 (159)
                      ..+..++...|++++|...|++....  .|+..+...
T Consensus        87 ~~lg~~~~~~~~~~~A~~~~~kal~~--~~~~~~~~~  121 (127)
T 4gcn_A           87 SRAGNAFQKQNDLSLAVQWFHRSLSE--FRDPELVKK  121 (127)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--SCCHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhh--CcCHHHHHH
Confidence            67778888888888888888876643  345554433

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=98.97  E-value=4e-08  Score=68.22  Aligned_cols=155  Identities=11%  Similarity=-0.024  Sum_probs=115.0

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHH----HHHHHHHHHHhcCChHHHHHHHHHhHhcCC-CCC----hhhHHHHHHH
Q 039637            4 AFCRSGCFEETKQLAGDFEAKYDKYDVV----LLNSMLCAYCRTGDMESVMHVMRKLDELAI-SPD----YNTFHILIKY   74 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~----~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~-~~~----~~~~~~ll~~   74 (159)
                      .+...|++++|...++......+..+..    +++.+...+...|++++|...+.+.....- .++    ..++..+...
T Consensus        23 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~  102 (373)
T 1hz4_A           23 VAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEI  102 (373)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH
Confidence            4567899999999999987655433332    567777888899999999999998775311 111    1335567778


Q ss_pred             HHccChHHHHHHHHHHHHHc----CCC--C-cHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCC----CCCHHHHHHHHH
Q 039637           75 FCKEKMYMLAYRTMVDMHRK----GHQ--P-EEELCSSLIFHLGKMRAHSEALSVYNMLRYSKR----SMCKALHEKILH  143 (159)
Q Consensus        75 ~~~~~~~~~a~~~~~~m~~~----g~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~----~~~~~~~~~l~~  143 (159)
                      +...|++++|...+++..+.    +..  | ....+..+...+...|++++|...+++......    +....++..+..
T Consensus       103 ~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~  182 (373)
T 1hz4_A          103 LFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQ  182 (373)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHHHH
Confidence            89999999999999888743    222  3 234566788889999999999999997764321    112456778889


Q ss_pred             HHHhcCcHHHHhhhh
Q 039637          144 ILISGKLLKDAYIVV  158 (159)
Q Consensus       144 ~~~~~g~~~~A~~~~  158 (159)
                      .+...|++++|...+
T Consensus       183 ~~~~~g~~~~A~~~l  197 (373)
T 1hz4_A          183 CSLARGDLDNARSQL  197 (373)
T ss_dssp             HHHHHTCHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHH
Confidence            999999999998765

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=98.95  E-value=2.2e-09  Score=74.85  Aligned_cols=148  Identities=8%  Similarity=-0.076  Sum_probs=111.3

Q ss_pred             HHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCC-CCC----hhhHHHHHHHHHccCh
Q 039637           11 FEETKQLAGDFEAK----YDKY-DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAI-SPD----YNTFHILIKYFCKEKM   80 (159)
Q Consensus        11 ~~~A~~~~~~~~~~----~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~-~~~----~~~~~~ll~~~~~~~~   80 (159)
                      +++|.+.++...+.    +..| ...++..+...+...|++++|...+++..+... .++    ..++..+...+...|+
T Consensus       163 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~  242 (406)
T 3sf4_A          163 LQAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGE  242 (406)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCC
Confidence            89999888875432    2122 245788899999999999999999998876311 111    2377888899999999


Q ss_pred             HHHHHHHHHHHHHc----CCCC-cHHHHHHHHHHHHccCCHHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHhcCc
Q 039637           81 YMLAYRTMVDMHRK----GHQP-EEELCSSLIFHLGKMRAHSEALSVYNMLRYS----KRSM-CKALHEKILHILISGKL  150 (159)
Q Consensus        81 ~~~a~~~~~~m~~~----g~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~g~  150 (159)
                      +++|...+++..+.    +..+ ...++..+...|...|++++|...+++....    +..+ ...++..+...|.+.|+
T Consensus       243 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~  322 (406)
T 3sf4_A          243 FETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGN  322 (406)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTC
T ss_pred             hHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCC
Confidence            99999999988743    2111 1567788999999999999999999877642    1111 15577888999999999


Q ss_pred             HHHHhhhh
Q 039637          151 LKDAYIVV  158 (159)
Q Consensus       151 ~~~A~~~~  158 (159)
                      +++|...+
T Consensus       323 ~~~A~~~~  330 (406)
T 3sf4_A          323 HDQAMHFA  330 (406)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99998876

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.95  E-value=4.2e-08  Score=60.14  Aligned_cols=88  Identities=11%  Similarity=0.026  Sum_probs=49.5

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC-hhhHHHHHHHHHccChHH
Q 039637            4 AFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYM   82 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~~   82 (159)
                      .+.+.|++++|.+.|+...+..|. +...|..+..+|.+.|++++|+..|++..+.  .|+ ...|..+-.++...|+++
T Consensus        45 ~~~~~g~~~eA~~~~~~al~~~P~-~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l--~P~~~~~~~~lg~~~~~lg~~~  121 (151)
T 3gyz_A           45 DFYNKGRIEEAEVFFRFLCIYDFY-NVDYIMGLAAIYQIKEQFQQAADLYAVAFAL--GKNDYTPVFHTGQCQLRLKAPL  121 (151)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SSSCCHHHHHHHHHHHHTTCHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHccHHHHHHHHHHHHhh--CCCCcHHHHHHHHHHHHcCCHH
Confidence            344556666666666665555443 5555666666666666666666666655553  232 445555555566666666


Q ss_pred             HHHHHHHHHHHc
Q 039637           83 LAYRTMVDMHRK   94 (159)
Q Consensus        83 ~a~~~~~~m~~~   94 (159)
                      +|...|++..+.
T Consensus       122 eA~~~~~~al~l  133 (151)
T 3gyz_A          122 KAKECFELVIQH  133 (151)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            666666655553

>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=98.94  E-value=3.8e-09  Score=67.30  Aligned_cols=146  Identities=8%  Similarity=-0.072  Sum_probs=96.9

Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCC-CC--------------hhhHHHH
Q 039637            7 RSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAIS-PD--------------YNTFHIL   71 (159)
Q Consensus         7 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~-~~--------------~~~~~~l   71 (159)
                      ..|.++++.+.|+.-.+..+ .....+..+...+.+.|++++|...|.+..+..-. |+              ...+..+
T Consensus        16 ~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l   94 (198)
T 2fbn_A           16 NLYFQGAKKSIYDYTDEEKV-QSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNL   94 (198)
T ss_dssp             ------CCCSGGGCCHHHHH-HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHH
T ss_pred             hhhhccccCchhhCCHHHHH-HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHH
Confidence            34555555555542221111 13456777788888889999999999888763211 10              1577778


Q ss_pred             HHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcH
Q 039637           72 IKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLL  151 (159)
Q Consensus        72 l~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  151 (159)
                      ..++...|++++|+..+.+..+.. +.+...+..+..+|...|++++|...|++..... +-+..++..+..++...++.
T Consensus        95 a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~  172 (198)
T 2fbn_A           95 ATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASLN-PNNLDIRNSYELCVNKLKEA  172 (198)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHHHH
Confidence            888888899999999988888763 3467788888888888999999999988877532 33566777777777777766


Q ss_pred             HHHh
Q 039637          152 KDAY  155 (159)
Q Consensus       152 ~~A~  155 (159)
                      +++.
T Consensus       173 ~~~~  176 (198)
T 2fbn_A          173 RKKD  176 (198)
T ss_dssp             HC--
T ss_pred             HHHH
Confidence            6554

>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=98.94  E-value=3e-07  Score=52.77  Aligned_cols=109  Identities=14%  Similarity=0.033  Sum_probs=81.3

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHH
Q 039637           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIF  108 (159)
Q Consensus        29 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~  108 (159)
                      +...+..+...+...|++++|...|++..... +.+...+..+..++...|++++|...+++..+.. +.+...+..+..
T Consensus         3 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~   80 (118)
T 1elw_A            3 QVNELKEKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAA   80 (118)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHH
Confidence            45567778888888889999988888887743 2256677778888888889999988888888764 335677888888


Q ss_pred             HHHccCCHHHHHHHHHHHHhCCCCCCHHHHHH
Q 039637          109 HLGKMRAHSEALSVYNMLRYSKRSMCKALHEK  140 (159)
Q Consensus       109 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  140 (159)
                      .+...|++++|...+++..... +.+...+..
T Consensus        81 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~  111 (118)
T 1elw_A           81 ALEFLNRFEEAKRTYEEGLKHE-ANNPQLKEG  111 (118)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHHcC-CCCHHHHHH
Confidence            8888899999999988887543 234444333

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=98.93  E-value=2.7e-09  Score=72.27  Aligned_cols=148  Identities=9%  Similarity=-0.084  Sum_probs=110.5

Q ss_pred             HHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCC-CCC----hhhHHHHHHHHHccCh
Q 039637           11 FEETKQLAGDFEAK----YDKY-DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAI-SPD----YNTFHILIKYFCKEKM   80 (159)
Q Consensus        11 ~~~A~~~~~~~~~~----~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~-~~~----~~~~~~ll~~~~~~~~   80 (159)
                      +++|.+.++...+.    +..+ ...++..+...+...|++++|...+++..+... .++    ..++..+...+...|+
T Consensus       159 ~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  238 (338)
T 3ro2_A          159 LQAAVDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGE  238 (338)
T ss_dssp             HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCC
Confidence            88898888875432    2122 245788889999999999999999998775311 011    2377888889999999


Q ss_pred             HHHHHHHHHHHHHc----CCCC-cHHHHHHHHHHHHccCCHHHHHHHHHHHHhC----CC-CCCHHHHHHHHHHHHhcCc
Q 039637           81 YMLAYRTMVDMHRK----GHQP-EEELCSSLIFHLGKMRAHSEALSVYNMLRYS----KR-SMCKALHEKILHILISGKL  150 (159)
Q Consensus        81 ~~~a~~~~~~m~~~----g~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~g~  150 (159)
                      +++|...+++..+.    +..+ ...++..+...|...|++++|...+++....    +. .....++..+...|.+.|+
T Consensus       239 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~  318 (338)
T 3ro2_A          239 FETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGN  318 (338)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCC
Confidence            99999999887743    1111 1557788899999999999999999877542    11 1114467789999999999


Q ss_pred             HHHHhhhh
Q 039637          151 LKDAYIVV  158 (159)
Q Consensus       151 ~~~A~~~~  158 (159)
                      +++|...+
T Consensus       319 ~~~A~~~~  326 (338)
T 3ro2_A          319 HDQAMHFA  326 (338)
T ss_dssp             HHHHHHHH
T ss_pred             hHHHHHHH
Confidence            99999876

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.93  E-value=2e-07  Score=55.93  Aligned_cols=113  Identities=13%  Similarity=-0.011  Sum_probs=91.3

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC----hhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHH
Q 039637           28 YDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD----YNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELC  103 (159)
Q Consensus        28 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~  103 (159)
                      .+...+..+...+.+.|++++|...|++..+.  .|+    ...+..+..++...|++++|...+.+..+.. +.+...+
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            36778899999999999999999999999874  566    5778888889999999999999999988763 3367788


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 039637          104 SSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHI  144 (159)
Q Consensus       104 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  144 (159)
                      ..+..+|...|++++|...|++..... +.+...+..+...
T Consensus       103 ~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~  142 (148)
T 2dba_A          103 YRRSQALEKLGRLDQAVLDLQRCVSLE-PKNKVFQEALRNI  142 (148)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHH
Confidence            889999999999999999999887642 3344444444433

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=98.93  E-value=4.6e-07  Score=65.39  Aligned_cols=13  Identities=0%  Similarity=-0.156  Sum_probs=5.1

Q ss_pred             CCHHHHHHHHHHH
Q 039637            9 GCFEETKQLAGDF   21 (159)
Q Consensus         9 ~~~~~A~~~~~~~   21 (159)
                      ++.++|.+.|++.
T Consensus        93 ~~~~~A~~~~~~a  105 (490)
T 2xm6_A           93 QDYAQAVIWYKKA  105 (490)
T ss_dssp             CCHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHH
Confidence            3344444444333

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=98.91  E-value=7.3e-07  Score=64.35  Aligned_cols=139  Identities=6%  Similarity=-0.167  Sum_probs=109.3

Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHc----cC
Q 039637            8 SGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCR----TGDMESVMHVMRKLDELAISPDYNTFHILIKYFCK----EK   79 (159)
Q Consensus         8 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~----~~   79 (159)
                      .+++++|.+.|+...+.|   +...+..|...|..    .+++++|...|.+..+.|   +...+..|-..|..    .+
T Consensus        56 ~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~  129 (490)
T 2xm6_A           56 TKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---LPQAQQNLGVMYHEGNGVKV  129 (490)
T ss_dssp             CCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCC
T ss_pred             CcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCC
Confidence            789999999999988753   56788888888888    899999999999988864   55666667777777    78


Q ss_pred             hHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHc----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCcH
Q 039637           80 MYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGK----MRAHSEALSVYNMLRYSKRSMCKALHEKILHILIS----GKLL  151 (159)
Q Consensus        80 ~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~  151 (159)
                      ++++|.++|++..+.|   ++..+..+...|..    .++.++|...|++....+   +...+..+...|..    .++.
T Consensus       130 ~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~  203 (490)
T 2xm6_A          130 DKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWSCNQLGYMYSRGLGVERND  203 (490)
T ss_dssp             CHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCH
T ss_pred             CHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCCCcCH
Confidence            8999999999888765   45566667777776    678888888888877653   55666777777777    7778


Q ss_pred             HHHhhhh
Q 039637          152 KDAYIVV  158 (159)
Q Consensus       152 ~~A~~~~  158 (159)
                      ++|...|
T Consensus       204 ~~A~~~~  210 (490)
T 2xm6_A          204 AISAQWY  210 (490)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            8777665

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.90  E-value=4.7e-08  Score=55.77  Aligned_cols=100  Identities=9%  Similarity=-0.028  Sum_probs=77.9

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCC--cHHHHHHH
Q 039637           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQP--EEELCSSL  106 (159)
Q Consensus        29 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~--~~~~~~~l  106 (159)
                      +...|..+...+.+.|++++|...|++..+.. ..+...+..+..++...|++++|...+++..+.. +.  +...+..+
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            44567777888888888888888888887753 2345677778888888888999988888888753 23  56778888


Q ss_pred             HHHHHcc-CCHHHHHHHHHHHHhCC
Q 039637          107 IFHLGKM-RAHSEALSVYNMLRYSK  130 (159)
Q Consensus       107 i~~~~~~-g~~~~a~~~~~~~~~~~  130 (159)
                      ...+.+. |++++|.+.++......
T Consensus        83 ~~~~~~~~~~~~~A~~~~~~~~~~~  107 (112)
T 2kck_A           83 ADALRYIEGKEVEAEIAEARAKLEH  107 (112)
T ss_dssp             HHHHTTCSSCSHHHHHHHHHHGGGC
T ss_pred             HHHHHHHhCCHHHHHHHHHHHhhcc
Confidence            8888888 99999999888887643

>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=98.89  E-value=2.2e-07  Score=53.34  Aligned_cols=102  Identities=15%  Similarity=0.055  Sum_probs=83.4

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYM   82 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   82 (159)
                      ..+...|++++|.+.|+...+..+. +...+..+...+.+.|++++|...+++..+.. +.+...+..+..++...|+++
T Consensus        12 ~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~   89 (118)
T 1elw_A           12 NKALSVGNIDDALQCYSEAIKLDPH-NHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNRFE   89 (118)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHHhhHH
Confidence            4677899999999999999877654 78899999999999999999999999998853 234677888899999999999


Q ss_pred             HHHHHHHHHHHcCCCCcHHHHHHHH
Q 039637           83 LAYRTMVDMHRKGHQPEEELCSSLI  107 (159)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~~li  107 (159)
                      +|.+.+.+..+.. +.+...+..+.
T Consensus        90 ~A~~~~~~~~~~~-~~~~~~~~~l~  113 (118)
T 1elw_A           90 EAKRTYEEGLKHE-ANNPQLKEGLQ  113 (118)
T ss_dssp             HHHHHHHHHHTTC-TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHcC-CCCHHHHHHHH
Confidence            9999999998754 23444444443

>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=98.89  E-value=2.8e-08  Score=58.34  Aligned_cols=114  Identities=10%  Similarity=0.042  Sum_probs=78.9

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCC--CCc----HHHH
Q 039637           30 VVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGH--QPE----EELC  103 (159)
Q Consensus        30 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~--~~~----~~~~  103 (159)
                      ...|..+...+...|++++|...|.+..+.. +.+...+..+..++...|++++|...+.+..+...  .++    ..++
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            4566777778888888888888888877643 23456677777778888888888888887775421  111    5677


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 039637          104 SSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILI  146 (159)
Q Consensus       104 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  146 (159)
                      ..+...|...|++++|...|+......  |+......+.....
T Consensus        83 ~~la~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~  123 (131)
T 1elr_A           83 ARIGNSYFKEEKYKDAIHFYNKSLAEH--RTPDVLKKCQQAEK  123 (131)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHhC--CCHHHHHHHHHHHH
Confidence            777888888888888888888777533  35555454444443

>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=98.88  E-value=6.2e-08  Score=65.22  Aligned_cols=89  Identities=12%  Similarity=0.048  Sum_probs=77.7

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCC-ChhhHHHHHHHHHccChH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP-DYNTFHILIKYFCKEKMY   81 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~~~~   81 (159)
                      ..+.+.|++++|.+.|+...+..+. +...|..+..+|.+.|++++|...+.+..+.  .| +...+..+..++...|++
T Consensus        12 ~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~   88 (281)
T 2c2l_A           12 NRLFVGRKYPEAAACYGRAITRNPL-VAVYYTNRALCYLKMQQPEQALADCRRALEL--DGQSVKAHFFLGQCQLEMESY   88 (281)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--CTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCH
Confidence            4677899999999999999887654 8899999999999999999999999998874  45 467788888999999999


Q ss_pred             HHHHHHHHHHHHc
Q 039637           82 MLAYRTMVDMHRK   94 (159)
Q Consensus        82 ~~a~~~~~~m~~~   94 (159)
                      ++|...+.+..+.
T Consensus        89 ~~A~~~~~~al~l  101 (281)
T 2c2l_A           89 DEAIANLQRAYSL  101 (281)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999887753

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.88  E-value=4.2e-08  Score=59.19  Aligned_cols=98  Identities=13%  Similarity=-0.030  Sum_probs=80.8

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHH
Q 039637           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIF  108 (159)
Q Consensus        29 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~  108 (159)
                      +...+..+...+.+.|++++|...|.+..... +.+...|..+..++...|++++|...+++..+.. +.++..+..+..
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            45567777888899999999999999988753 2356777788888999999999999999998764 346677888899


Q ss_pred             HHHccCCHHHHHHHHHHHHh
Q 039637          109 HLGKMRAHSEALSVYNMLRY  128 (159)
Q Consensus       109 ~~~~~g~~~~a~~~~~~~~~  128 (159)
                      +|...|++++|...|+....
T Consensus        95 ~~~~~g~~~~A~~~~~~al~  114 (142)
T 2xcb_A           95 CHLQLGDLDGAESGFYSARA  114 (142)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHH
Confidence            99999999999999997764

>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=98.88  E-value=4.9e-07  Score=53.66  Aligned_cols=119  Identities=6%  Similarity=-0.175  Sum_probs=93.0

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHH
Q 039637           28 YDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLI  107 (159)
Q Consensus        28 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li  107 (159)
                      .+...|..+...+.+.|++++|...|.+..... +.+...|..+..++...|++++|...+++..+.. +.+...+..+.
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~   84 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLG   84 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHHH
Confidence            467889999999999999999999999988853 2346788888899999999999999999998864 34677888999


Q ss_pred             HHHHccCCHHHHHHHHHHHHhC----CCCCCHHHHHHHHHHHHhc
Q 039637          108 FHLGKMRAHSEALSVYNMLRYS----KRSMCKALHEKILHILISG  148 (159)
Q Consensus       108 ~~~~~~g~~~~a~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~  148 (159)
                      .+|...|++++|...|++....    ....+..+...+..+..+.
T Consensus        85 ~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~l~~~~~~~  129 (137)
T 3q49_B           85 QCQLEMESYDEAIANLQRAYSLAKEQRLNFGDDIPSALRIAKKKR  129 (137)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCCCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHHHChhHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999877642    2223444545554444433

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.87  E-value=8.6e-08  Score=54.66  Aligned_cols=90  Identities=7%  Similarity=-0.106  Sum_probs=67.9

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCC---ChhhHHHHHHHHHcc-
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP---DYNTFHILIKYFCKE-   78 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~---~~~~~~~ll~~~~~~-   78 (159)
                      ..+.+.|++++|...|+...+..+. +...|..+...+.+.|++++|...|++..+.  .|   +...+..+..++... 
T Consensus        14 ~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~l~~~~~~~~   90 (112)
T 2kck_A           14 VLQYDAGNYTESIDLFEKAIQLDPE-ESKYWLMKGKALYNLERYEEAVDCYNYVINV--IEDEYNKDVWAAKADALRYIE   90 (112)
T ss_dssp             HHHHSSCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--SCCTTCHHHHHHHHHHHTTCS
T ss_pred             HHHHHhhhHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CcccchHHHHHHHHHHHHHHh
Confidence            3466778888888888887766544 6677788888888888888888888887774  23   356777777788888 


Q ss_pred             ChHHHHHHHHHHHHHcC
Q 039637           79 KMYMLAYRTMVDMHRKG   95 (159)
Q Consensus        79 ~~~~~a~~~~~~m~~~g   95 (159)
                      |++++|.+.+.......
T Consensus        91 ~~~~~A~~~~~~~~~~~  107 (112)
T 2kck_A           91 GKEVEAEIAEARAKLEH  107 (112)
T ss_dssp             SCSHHHHHHHHHHGGGC
T ss_pred             CCHHHHHHHHHHHhhcc
Confidence            88888888888887654

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.87  E-value=2.5e-07  Score=57.02  Aligned_cols=98  Identities=10%  Similarity=-0.110  Sum_probs=68.9

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHH
Q 039637           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIF  108 (159)
Q Consensus        29 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~  108 (159)
                      +...|..+...+.+.|++++|+..|.+..+.. .-+...|..+..++...|++++|+..+++.++.. +.+...+..+..
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            45567777777777777777777777777642 1245666677777777777777777777777653 235667777777


Q ss_pred             HHHccCCHHHHHHHHHHHHh
Q 039637          109 HLGKMRAHSEALSVYNMLRY  128 (159)
Q Consensus       109 ~~~~~g~~~~a~~~~~~~~~  128 (159)
                      +|...|++++|...|++...
T Consensus        88 ~~~~~g~~~~A~~~~~~al~  107 (164)
T 3sz7_A           88 ARFDMADYKGAKEAYEKGIE  107 (164)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHH
Confidence            77777777777777776654

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=98.87  E-value=2.3e-07  Score=59.83  Aligned_cols=137  Identities=12%  Similarity=-0.020  Sum_probs=111.0

Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccC----hHHHHHHH
Q 039637           12 EETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEK----MYMLAYRT   87 (159)
Q Consensus        12 ~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~----~~~~a~~~   87 (159)
                      .+|.+.|+...+.   -++..+..+...|...+++++|...|++..+.|   +...+..|-..|.. +    ++++|.++
T Consensus         3 ~eA~~~~~~aa~~---g~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~   75 (212)
T 3rjv_A            3 TEPGSQYQQQAEA---GDRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQL   75 (212)
T ss_dssp             -CTTHHHHHHHHT---TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHH
T ss_pred             chHHHHHHHHHHC---CCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHH
Confidence            3577788887764   377889999999999999999999999998865   55677777777777 6    89999999


Q ss_pred             HHHHHHcCCCCcHHHHHHHHHHHHc----cCCHHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHHh----cCcHHHHhhhh
Q 039637           88 MVDMHRKGHQPEEELCSSLIFHLGK----MRAHSEALSVYNMLRYSKRS-MCKALHEKILHILIS----GKLLKDAYIVV  158 (159)
Q Consensus        88 ~~~m~~~g~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~----~g~~~~A~~~~  158 (159)
                      |++..+.|   ++..+..|...|..    .+++++|..+|++....+.. .+...+..+-..|..    .++.++|...|
T Consensus        76 ~~~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~  152 (212)
T 3rjv_A           76 AEKAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYF  152 (212)
T ss_dssp             HHHHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHH
T ss_pred             HHHHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHH
Confidence            99998865   55677788888887    88999999999999876532 125677888888888    88899998876

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.87  E-value=8.1e-08  Score=64.55  Aligned_cols=134  Identities=7%  Similarity=0.002  Sum_probs=101.0

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC--hhhHHHHHHHHHccCh
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD--YNTFHILIKYFCKEKM   80 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~--~~~~~~ll~~~~~~~~   80 (159)
                      ..+...|++++|.++|+.+...++. +. ..-.+...+.+.+++++|+..|....... .|.  ...+..+-.++...|+
T Consensus       110 ~~L~~~g~y~eA~~~l~~~~~~~p~-~~-~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~~~a~~~LG~al~~LG~  186 (282)
T 4f3v_A          110 ACEAAQGNYADAMEALEAAPVAGSE-HL-VAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAGAAGVAHGVAAANLAL  186 (282)
T ss_dssp             HHHHHHTCHHHHHHHHTSSCCTTCH-HH-HHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHCCCHHHHHHHHHHHHhcCCc-hH-HHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHHHHHHHHHHHHHHCCC
Confidence            4578889999999999888875543 33 66666678999999999999998654421 111  2366778888999999


Q ss_pred             HHHHHHHHHHHHHcCCCC--cHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 039637           81 YMLAYRTMVDMHRKGHQP--EEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKI  141 (159)
Q Consensus        81 ~~~a~~~~~~m~~~g~~~--~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l  141 (159)
                      +++|+..|++.......|  .+........++.+.|+.++|..+|+++....  |+...+..|
T Consensus       187 ~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~--P~~~~~~aL  247 (282)
T 4f3v_A          187 FTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTH--PEPKVAAAL  247 (282)
T ss_dssp             HHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS--CCHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CcHHHHHHH
Confidence            999999999998544324  34466677888999999999999999998754  334444444

>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=98.86  E-value=2.2e-07  Score=54.62  Aligned_cols=97  Identities=10%  Similarity=-0.045  Sum_probs=73.1

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHH
Q 039637           30 VVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFH  109 (159)
Q Consensus        30 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~  109 (159)
                      ...|..+...+.+.|++++|+..|.+..+.. +.+...|..+..++.+.|++++|+..+++..+.. +.+...+..+..+
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            4566777777888888888888888877742 2245777778888888888888888888887754 2356677778888


Q ss_pred             HHccCCHHHHHHHHHHHHh
Q 039637          110 LGKMRAHSEALSVYNMLRY  128 (159)
Q Consensus       110 ~~~~g~~~~a~~~~~~~~~  128 (159)
                      +...|++++|...|++...
T Consensus        82 ~~~~~~~~~A~~~~~~al~  100 (126)
T 3upv_A           82 QIAVKEYASALETLDAART  100 (126)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhCHHHHHHHHHHHHH
Confidence            8888888888888887764

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=98.86  E-value=1.6e-07  Score=65.15  Aligned_cols=156  Identities=10%  Similarity=-0.053  Sum_probs=108.7

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhC----CCC--C-CHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCC--C--ChhhHHHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAK----YDK--Y-DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAIS--P--DYNTFHIL   71 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~----~~~--~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~--~--~~~~~~~l   71 (159)
                      ..+...|++++|.+.++...+.    +..  | ....+..+...+...|++++|...+.+.....-.  +  ...++..+
T Consensus       101 ~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l  180 (373)
T 1hz4_A          101 EILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAML  180 (373)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHH
Confidence            3567789999999999876543    221  2 2456777888899999999999999988764321  1  13456677


Q ss_pred             HHHHHccChHHHHHHHHHHHHHcCCCCc-HHHHH-----HHHHHHHccCCHHHHHHHHHHHHhCCCCC---CHHHHHHHH
Q 039637           72 IKYFCKEKMYMLAYRTMVDMHRKGHQPE-EELCS-----SLIFHLGKMRAHSEALSVYNMLRYSKRSM---CKALHEKIL  142 (159)
Q Consensus        72 l~~~~~~~~~~~a~~~~~~m~~~g~~~~-~~~~~-----~li~~~~~~g~~~~a~~~~~~~~~~~~~~---~~~~~~~l~  142 (159)
                      ...+...|++++|...+++.......++ ...+.     ..+..+...|+.++|...++........+   ....+..+.
T Consensus       181 a~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la  260 (373)
T 1hz4_A          181 IQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIA  260 (373)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHHHH
Confidence            7888999999999999988875421211 11121     23344778999999999998876533221   133566778


Q ss_pred             HHHHhcCcHHHHhhhh
Q 039637          143 HILISGKLLKDAYIVV  158 (159)
Q Consensus       143 ~~~~~~g~~~~A~~~~  158 (159)
                      ..+...|++++|...+
T Consensus       261 ~~~~~~g~~~~A~~~l  276 (373)
T 1hz4_A          261 RAQILLGEFEPAEIVL  276 (373)
T ss_dssp             HHHHHTTCHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHH
Confidence            8899999999988765

>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=98.86  E-value=1.2e-07  Score=55.46  Aligned_cols=105  Identities=10%  Similarity=0.083  Sum_probs=85.2

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCC--CCC----hhhHHHHHHHHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAI--SPD----YNTFHILIKYFC   76 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~--~~~----~~~~~~ll~~~~   76 (159)
                      ..+...|++++|...|+...+..+. +...+..+...+.+.|++++|...+.+......  .++    ..++..+..++.
T Consensus        12 ~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~   90 (131)
T 1elr_A           12 NDAYKKKDFDTALKHYDKAKELDPT-NMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGNSYF   90 (131)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHHHHHHHH
Confidence            4677899999999999999877654 788999999999999999999999999887532  122    667888889999


Q ss_pred             ccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHH
Q 039637           77 KEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHL  110 (159)
Q Consensus        77 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~  110 (159)
                      ..|++++|.+.+.+..+..  |+......+....
T Consensus        91 ~~~~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~  122 (131)
T 1elr_A           91 KEEKYKDAIHFYNKSLAEH--RTPDVLKKCQQAE  122 (131)
T ss_dssp             HTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHH
T ss_pred             HhccHHHHHHHHHHHHHhC--CCHHHHHHHHHHH
Confidence            9999999999999998864  5665555554443

>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=98.85  E-value=2.2e-08  Score=72.35  Aligned_cols=118  Identities=10%  Similarity=0.028  Sum_probs=94.8

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCC-ChhhHHHHHHHHHccChH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP-DYNTFHILIKYFCKEKMY   81 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~~~~   81 (159)
                      ..+.+.|++++|.+.|++..+..+. +..+|..+..+|.+.|++++|++.+++..+.  .| +...+..+..++...|++
T Consensus        14 ~~~~~~g~~~~A~~~~~~Al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l--~p~~~~~~~~lg~~~~~~g~~   90 (477)
T 1wao_1           14 NDYFKAKDYENAIKFYSQAIELNPS-NAIYYGNRSLAYLRTECYGYALGDATRAIEL--DKKYIKGYYRRAASNMALGKF   90 (477)
T ss_dssp             SSTTTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--CTTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHhCCHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCH
Confidence            3567889999999999999887655 7899999999999999999999999999985  45 467888899999999999


Q ss_pred             HHHHHHHHHHHHcCCCCcHHHHHHHHHH--HHccCCHHHHHHHHH
Q 039637           82 MLAYRTMVDMHRKGHQPEEELCSSLIFH--LGKMRAHSEALSVYN  124 (159)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~~~~~~li~~--~~~~g~~~~a~~~~~  124 (159)
                      ++|.+.+++..+.. +-+...+..+..+  +.+.|++++|...++
T Consensus        91 ~eA~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           91 RAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHHHHS-TTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            99999999998763 2244455555555  888899999999988

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=98.85  E-value=1.4e-07  Score=67.38  Aligned_cols=94  Identities=12%  Similarity=-0.007  Sum_probs=48.5

Q ss_pred             hhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcH--HHHHHHHH-HHHccCCHHHHHHHHHHHHhCC-----------
Q 039637           65 YNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEE--ELCSSLIF-HLGKMRAHSEALSVYNMLRYSK-----------  130 (159)
Q Consensus        65 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~--~~~~~li~-~~~~~g~~~~a~~~~~~~~~~~-----------  130 (159)
                      ..++..+...+...|++++|+..|++.++....+..  ..+..+.. .....|+.++|...|++.....           
T Consensus       334 ~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i~~~~~~~~~~~~  413 (472)
T 4g1t_A          334 FRVCSILASLHALADQYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKINQKSREKEKMKD  413 (472)
T ss_dssp             CCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHSCCCCHHHHHHHH
T ss_pred             hhhhhhHHHHHHHhccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcccHHHHHHHH
Confidence            344555666667777777777777777665332221  11222221 2235567777777666554321           


Q ss_pred             ------------CCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637          131 ------------RSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus       131 ------------~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                                  .+.+..+|..+-..|...|++++|.+.|
T Consensus       414 ~l~~~~~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A~~~y  453 (472)
T 4g1t_A          414 KLQKIAKMRLSKNGADSEALHVLAFLQELNEKMQQADEDS  453 (472)
T ss_dssp             HHHHHHHHHHHHCC-CTTHHHHHHHHHHHHHHCC------
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence                        1233456666777777777777776665

>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=98.84  E-value=1.4e-07  Score=55.95  Aligned_cols=98  Identities=13%  Similarity=0.098  Sum_probs=80.7

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCCh--------hhHHHHHHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDY--------NTFHILIKY   74 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~--------~~~~~ll~~   74 (159)
                      ..+.+.|++++|++.|++..+..+. +...|+.+..+|.+.|++++|++.+.+..+.  .|+.        .+|..+-.+
T Consensus        16 ~~~~~~~~~~~A~~~y~~Al~~~p~-~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~~a~~~~~lg~~   92 (127)
T 4gcn_A           16 NAAYKQKDFEKAHVHYDKAIELDPS-NITFYNNKAAVYFEEKKFAECVQFCEKAVEV--GRETRADYKLIAKAMSRAGNA   92 (127)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HHHTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHhHHHHHHHhhhHHHHHHHHHHHHHh--CcccchhhHHHHHHHHHHHHH
Confidence            4678899999999999999887665 7889999999999999999999999998874  2321        356777788


Q ss_pred             HHccChHHHHHHHHHHHHHcCCCCcHHHHHH
Q 039637           75 FCKEKMYMLAYRTMVDMHRKGHQPEEELCSS  105 (159)
Q Consensus        75 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~  105 (159)
                      +...|++++|++.|++.++.  .|++.+...
T Consensus        93 ~~~~~~~~~A~~~~~kal~~--~~~~~~~~~  121 (127)
T 4gcn_A           93 FQKQNDLSLAVQWFHRSLSE--FRDPELVKK  121 (127)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--SCCHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHhh--CcCHHHHHH
Confidence            89999999999999998874  466655543

>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=98.84  E-value=2.1e-07  Score=59.12  Aligned_cols=124  Identities=7%  Similarity=0.004  Sum_probs=94.0

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCC---------------HHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhh
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYD---------------VVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNT   67 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~---------------~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~   67 (159)
                      ..+.+.|++++|.+.|+...+..+.-.               ..+|..+..+|.+.|++++|+..+.+..+.. ..+...
T Consensus        46 ~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~  124 (198)
T 2fbn_A           46 NEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKA  124 (198)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-cccHHH
Confidence            457788999999999999887544311               2788999999999999999999999998853 235678


Q ss_pred             HHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHH-HHHHHHHh
Q 039637           68 FHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEAL-SVYNMLRY  128 (159)
Q Consensus        68 ~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~-~~~~~~~~  128 (159)
                      +..+..++...|++++|.+.|++..+.. +-+..++..+..++...++.+++. ..|..+..
T Consensus       125 ~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~f~  185 (198)
T 2fbn_A          125 LYKLGVANMYFGFLEEAKENLYKAASLN-PNNLDIRNSYELCVNKLKEARKKDKLTFGGMFD  185 (198)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHC-----------
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            8889999999999999999999998764 336678888888888888877777 45555543

>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=98.83  E-value=2.8e-07  Score=54.16  Aligned_cols=89  Identities=11%  Similarity=0.061  Sum_probs=79.2

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC-hhhHHHHHHHHHccChH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMY   81 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~   81 (159)
                      ..+.+.|++++|.+.|+...+..+. +...|..+..++.+.|++++|+..|++..+.  .|+ ...|..+..++...|++
T Consensus        12 ~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~   88 (126)
T 3upv_A           12 KEYFTKSDWPNAVKAYTEMIKRAPE-DARGYSNRAAALAKLMSFPEAIADCNKAIEK--DPNFVRAYIRKATAQIAVKEY   88 (126)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHhCH
Confidence            4578899999999999999887665 7899999999999999999999999999985  354 67888899999999999


Q ss_pred             HHHHHHHHHHHHc
Q 039637           82 MLAYRTMVDMHRK   94 (159)
Q Consensus        82 ~~a~~~~~~m~~~   94 (159)
                      ++|...+++..+.
T Consensus        89 ~~A~~~~~~al~~  101 (126)
T 3upv_A           89 ASALETLDAARTK  101 (126)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999998865

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.83  E-value=1.4e-07  Score=63.35  Aligned_cols=119  Identities=7%  Similarity=-0.061  Sum_probs=90.6

Q ss_pred             HHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCc--HHHHHHHHHHHHccCC
Q 039637           38 CAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPE--EELCSSLIFHLGKMRA  115 (159)
Q Consensus        38 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~--~~~~~~li~~~~~~g~  115 (159)
                      ..+...|++++|.++|..+...+  |+......+-..+.+.+++++|+..|....... .|.  ..++..+..++.+.|+
T Consensus       110 ~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~~~a~~~LG~al~~LG~  186 (282)
T 4f3v_A          110 ACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAGAAGVAHGVAAANLAL  186 (282)
T ss_dssp             HHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHHHHHHHHHHHHHHCCC
Confidence            45677889999999998887643  654455556667889999999999998554432 121  3467788899999999


Q ss_pred             HHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhcCcHHHHhhhhC
Q 039637          116 HSEALSVYNMLRYSKRSMC--KALHEKILHILISGKLLKDAYIVVK  159 (159)
Q Consensus       116 ~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~  159 (159)
                      +++|+..|++.......|.  .........++.+.|+.++|..+|+
T Consensus       187 ~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~  232 (282)
T 4f3v_A          187 FTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLE  232 (282)
T ss_dssp             HHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            9999999999986443243  4466778889999999999998873

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.83  E-value=1.6e-07  Score=56.63  Aligned_cols=90  Identities=6%  Similarity=-0.104  Sum_probs=78.8

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYM   82 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   82 (159)
                      ..+.+.|++++|.+.|+...+..+. +...|..+..++.+.|++++|...|++..... +.+...+..+..++...|+++
T Consensus        26 ~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~  103 (142)
T 2xcb_A           26 FNQYQAGKWDDAQKIFQALCMLDHY-DARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAAECHLQLGDLD  103 (142)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHccHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHH
Confidence            4577889999999999999987765 88899999999999999999999999999853 234567788889999999999


Q ss_pred             HHHHHHHHHHHc
Q 039637           83 LAYRTMVDMHRK   94 (159)
Q Consensus        83 ~a~~~~~~m~~~   94 (159)
                      +|...++...+.
T Consensus       104 ~A~~~~~~al~~  115 (142)
T 2xcb_A          104 GAESGFYSARAL  115 (142)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            999999998865

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.83  E-value=2.6e-07  Score=56.92  Aligned_cols=90  Identities=12%  Similarity=0.018  Sum_probs=80.1

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC-hhhHHHHHHHHHccChH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMY   81 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~   81 (159)
                      ..+.+.|++++|.+.|+...+..+. +...|..+..+|.+.|++++|+..|++..+..  |+ ...|..+..++...|++
T Consensus        19 ~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~g~~   95 (164)
T 3sz7_A           19 NAAMARKEYSKAIDLYTQALSIAPA-NPIYLSNRAAAYSASGQHEKAAEDAELATVVD--PKYSKAWSRLGLARFDMADY   95 (164)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCc-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHccCH
Confidence            4678899999999999999887665 88999999999999999999999999999853  54 67888899999999999


Q ss_pred             HHHHHHHHHHHHcC
Q 039637           82 MLAYRTMVDMHRKG   95 (159)
Q Consensus        82 ~~a~~~~~~m~~~g   95 (159)
                      ++|...|++..+..
T Consensus        96 ~~A~~~~~~al~~~  109 (164)
T 3sz7_A           96 KGAKEAYEKGIEAE  109 (164)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC
Confidence            99999999998753

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.83  E-value=9.7e-08  Score=56.18  Aligned_cols=94  Identities=7%  Similarity=-0.026  Sum_probs=71.8

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHhHhcCCCC-ChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHH
Q 039637           32 LLNSMLCAYCRTGDMESVMHVMRKLDELAISP-DYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHL  110 (159)
Q Consensus        32 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~  110 (159)
                      .+-.+...+.+.|++++|...|++..+.  .| +...|..+-.++...|++++|+..+++..+.. +-+...+..+...|
T Consensus        19 ~~~~~g~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~~~~~la~~~   95 (121)
T 1hxi_A           19 NPMEEGLSMLKLANLAEAALAFEAVCQK--EPEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSH   95 (121)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            3455666777888888888888888774  34 46677777788888888888888888887754 23566777888888


Q ss_pred             HccCCHHHHHHHHHHHHh
Q 039637          111 GKMRAHSEALSVYNMLRY  128 (159)
Q Consensus       111 ~~~g~~~~a~~~~~~~~~  128 (159)
                      ...|++++|...+++...
T Consensus        96 ~~~g~~~~A~~~~~~al~  113 (121)
T 1hxi_A           96 TNEHNANAALASLRAWLL  113 (121)
T ss_dssp             HHHHHHHHHHHHHHHHHC
T ss_pred             HHcCCHHHHHHHHHHHHH
Confidence            888888888888887775

>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=98.83  E-value=5.9e-08  Score=60.67  Aligned_cols=122  Identities=11%  Similarity=0.111  Sum_probs=92.8

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH-HHhcCChHHHHHHHHHhHhcCCCCC-hhhHHHHHHHHHccCh
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCA-YCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKM   80 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~-~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~   80 (159)
                      ..+.+.|++++|.+.|+...+..+  +...+..+... +.+.++..++...+++..+.  .|+ ...+..+..++...|+
T Consensus        48 ~~~~~~g~~~~A~~~~~~a~~~~p--~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~--~P~~~~~~~~la~~~~~~g~  123 (176)
T 2r5s_A           48 DCLLETKQFELAQELLATIPLEYQ--DNSYKSLIAKLELHQQAAESPELKRLEQELAA--NPDNFELACELAVQYNQVGR  123 (176)
T ss_dssp             HHHHHTTCHHHHHHHHTTCCGGGC--CHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHCCCHHHHHHHHHHhhhccC--ChHHHHHHHHHHHHhhcccchHHHHHHHHHHh--CCCCHHHHHHHHHHHHHccc
Confidence            467889999999999998876544  44444333222 22333445578889888874  464 6788889999999999


Q ss_pred             HHHHHHHHHHHHHcCCCC-cHHHHHHHHHHHHccCCHHHHHHHHHHHHh
Q 039637           81 YMLAYRTMVDMHRKGHQP-EEELCSSLIFHLGKMRAHSEALSVYNMLRY  128 (159)
Q Consensus        81 ~~~a~~~~~~m~~~g~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  128 (159)
                      +++|...++++.+....+ +...+..+...+...|+.++|...|++...
T Consensus       124 ~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~~y~~al~  172 (176)
T 2r5s_A          124 DEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIASKYRRQLY  172 (176)
T ss_dssp             HHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHHHHHHHHH
Confidence            999999999999865332 356888999999999999999999987653

>1xi4_A Clathrin heavy chain; alpha-ZIG-ZAG, beta-propeller, endocytosis-exocyto complex; 7.90A {Bos taurus} SCOP: i.23.1.1 PDB: 1xi5_A 3iyv_A

Probab=98.82  E-value=2.8e-07  Score=73.48  Aligned_cols=112  Identities=13%  Similarity=0.023  Sum_probs=55.3

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHH
Q 039637           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIF  108 (159)
Q Consensus        29 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~  108 (159)
                      |...|.-++.++.+.|++++|.+.|....+..  ++....+.+..+|++.+++++...+.    +   .++...+..+..
T Consensus      1133 D~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI----~---~~n~ad~~~iGd 1203 (1630)
T 1xi4_A         1133 DPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI----N---GPNNAHIQQVGD 1203 (1630)
T ss_pred             ChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH----h---CCCHHHHHHHHH
Confidence            34444444555555555555555554433321  22222223444444444444322221    1   234444555666


Q ss_pred             HHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637          109 HLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus       109 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      .|...|++++|..+|...         ..|..+...|++.|++++|.+.+
T Consensus      1204 ~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaa 1244 (1630)
T 1xi4_A         1204 RCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGA 1244 (1630)
T ss_pred             HHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHH
Confidence            666666666666666653         25666667777777776666554

>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=98.81  E-value=1.9e-07  Score=56.87  Aligned_cols=89  Identities=8%  Similarity=-0.021  Sum_probs=78.9

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCC-ChhhHHHHHHHHHccChH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP-DYNTFHILIKYFCKEKMY   81 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~~~~   81 (159)
                      ..+.+.|++++|...|+...+..+. +...|..+..++.+.|++++|...|++..+.  .| +...+..+..++...|++
T Consensus        29 ~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l--~p~~~~~~~~lg~~~~~~g~~  105 (148)
T 2vgx_A           29 FNQYQSGXYEDAHXVFQALCVLDHY-DSRFFLGLGACRQAMGQYDLAIHSYSYGAVM--DIXEPRFPFHAAECLLQXGEL  105 (148)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCTHHHHHHHHHHHHTTCH
T ss_pred             HHHHHcCChHHHHHHHHHHHHcCcc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc--CCCCchHHHHHHHHHHHcCCH
Confidence            4577899999999999999887665 8899999999999999999999999999885  35 467788899999999999


Q ss_pred             HHHHHHHHHHHHc
Q 039637           82 MLAYRTMVDMHRK   94 (159)
Q Consensus        82 ~~a~~~~~~m~~~   94 (159)
                      ++|...|++..+.
T Consensus       106 ~~A~~~~~~al~~  118 (148)
T 2vgx_A          106 AEAESGLFLAQEL  118 (148)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999998875

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.80  E-value=3e-07  Score=59.69  Aligned_cols=126  Identities=10%  Similarity=0.067  Sum_probs=94.3

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCH--HHHHHHHHHHHh------------------cCChHHHHHHHHHhHhcCCC
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDV--VLLNSMLCAYCR------------------TGDMESVMHVMRKLDELAIS   62 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~--~~~~~ll~~~~~------------------~~~~~~a~~~~~~m~~~~~~   62 (159)
                      .+|.+.|++++|.+.|+.+.+..+....  ..+-.+..++.+                  .|++++|...|++..+.  .
T Consensus        49 ~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~  126 (225)
T 2yhc_A           49 YAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYMRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRG--Y  126 (225)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTT--C
T ss_pred             HHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHHHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHH--C
Confidence            4678899999999999999887655221  244444455443                  57899999999999884  3


Q ss_pred             CChh-hH-----------------HHHHHHHHccChHHHHHHHHHHHHHcCCC-C-cHHHHHHHHHHHHccCCHHHHHHH
Q 039637           63 PDYN-TF-----------------HILIKYFCKEKMYMLAYRTMVDMHRKGHQ-P-EEELCSSLIFHLGKMRAHSEALSV  122 (159)
Q Consensus        63 ~~~~-~~-----------------~~ll~~~~~~~~~~~a~~~~~~m~~~g~~-~-~~~~~~~li~~~~~~g~~~~a~~~  122 (159)
                      |+.. .+                 ..+...+.+.|++++|...|+++.+.... | ....+..+..+|.+.|+.++|...
T Consensus       127 P~~~~a~~a~~~l~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~  206 (225)
T 2yhc_A          127 PNSQYTTDATKRLVFLKDRLAKYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKV  206 (225)
T ss_dssp             TTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHH
Confidence            5532 22                 23455688899999999999999976321 1 135678899999999999999999


Q ss_pred             HHHHHhCC
Q 039637          123 YNMLRYSK  130 (159)
Q Consensus       123 ~~~~~~~~  130 (159)
                      ++.+...+
T Consensus       207 ~~~l~~~~  214 (225)
T 2yhc_A          207 AKIIAANS  214 (225)
T ss_dssp             HHHHHHCC
T ss_pred             HHHHHhhC
Confidence            99888643

>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=98.78  E-value=6.3e-08  Score=60.38  Aligned_cols=115  Identities=9%  Similarity=0.009  Sum_probs=91.7

Q ss_pred             HhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHH-HHccCCH--H
Q 039637           41 CRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFH-LGKMRAH--S  117 (159)
Q Consensus        41 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~-~~~~g~~--~  117 (159)
                      ...|++++|...+.+..+.. +.+...+..+..++...|++++|...+.+..+.. +.+...+..+... +...|++  +
T Consensus        21 ~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~~~~~~   98 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQASQHMTA   98 (177)
T ss_dssp             C-----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTTTCCCH
T ss_pred             hhccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCCcchH
Confidence            45788999999999988753 2356788889999999999999999999998764 3466778888888 7789998  9


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637          118 EALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus       118 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      +|...+++..... +.+...+..+...|...|++++|...|
T Consensus        99 ~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~  138 (177)
T 2e2e_A           99 QTRAMIDKALALD-SNEITALMLLASDAFMQANYAQAIELW  138 (177)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcccHHHHHHHH
Confidence            9999999888643 345778889999999999999999876

>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=98.78  E-value=1.9e-07  Score=67.11  Aligned_cols=122  Identities=12%  Similarity=-0.019  Sum_probs=76.6

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC----------------hhhHHHHHHHHHccChHHHHHHHHHHHHH
Q 039637           30 VVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD----------------YNTFHILIKYFCKEKMYMLAYRTMVDMHR   93 (159)
Q Consensus        30 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~----------------~~~~~~ll~~~~~~~~~~~a~~~~~~m~~   93 (159)
                      ...|..+...+.+.|++++|...|.+..+.  .|+                ...|..+..++.+.|++++|+..+++.++
T Consensus       268 a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~--~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~  345 (457)
T 1kt0_A          268 AAIVKEKGTVYFKGGKYMQAVIQYGKIVSW--LEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALG  345 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHH--hcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHh
Confidence            345666666777777777777777776653  232                35666666777777777777777777766


Q ss_pred             cCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHh
Q 039637           94 KGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAY  155 (159)
Q Consensus        94 ~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  155 (159)
                      .. +.+...+..+..+|...|++++|...|++..... +-+..++..+..++.+.++.++|.
T Consensus       346 ~~-p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a~  405 (457)
T 1kt0_A          346 LD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN-PQNKAARLQISMCQKKAKEHNERD  405 (457)
T ss_dssp             HS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHHHHHHHHHHHH
T ss_pred             cC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHH
Confidence            53 2355666667777777777777777777666432 223445666666666666666554

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.77  E-value=2e-07  Score=62.88  Aligned_cols=127  Identities=9%  Similarity=-0.024  Sum_probs=102.1

Q ss_pred             CCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCC-ChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHH-
Q 039637           27 KYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP-DYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCS-  104 (159)
Q Consensus        27 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~-  104 (159)
                      +.+...+..+...+.+.|++++|...|++..+.  .| +...+..+...+...|++++|...+++.....  |+..... 
T Consensus       114 p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~~  189 (287)
T 3qou_A          114 PREEELXAQQAMQLMQESNYTDALPLLXDAWQL--SNQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQD--QDTRYQGL  189 (287)
T ss_dssp             CCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--TTSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGG--CSHHHHHH
T ss_pred             CCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCcchhHHHHHHHHHHHCCCHHHHHHHHHhCchhh--cchHHHHH
Confidence            335677888888999999999999999999884  45 45778889999999999999999999887653  4544333 


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637          105 SLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus       105 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      .....+.+.++.+.|...+++.... .+.+...+..+...|...|++++|...|
T Consensus       190 ~~~~~l~~~~~~~~a~~~l~~al~~-~P~~~~~~~~la~~l~~~g~~~~A~~~l  242 (287)
T 3qou_A          190 VAQIELLXQAADTPEIQQLQQQVAE-NPEDAALATQLALQLHQVGRNEEALELL  242 (287)
T ss_dssp             HHHHHHHHHHTSCHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHhhcccCccHHHHHHHHhc-CCccHHHHHHHHHHHHHcccHHHHHHHH
Confidence            2333466778888899999988763 3457888999999999999999999876

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.77  E-value=6.8e-07  Score=52.46  Aligned_cols=90  Identities=13%  Similarity=0.091  Sum_probs=46.9

Q ss_pred             HHHHHHhcCChHHHHHHHHHhHhcCCCCCh----hhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCc---HHHHHHHHH
Q 039637           36 MLCAYCRTGDMESVMHVMRKLDELAISPDY----NTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPE---EELCSSLIF  108 (159)
Q Consensus        36 ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~----~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~---~~~~~~li~  108 (159)
                      +...+.+.|++++|...|++..+..  |+.    ..+..+..++...|++++|...+++..+... .+   +..+..+..
T Consensus         8 ~a~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~~~~~la~   84 (129)
T 2xev_A            8 VAFDALKNGKYDDASQLFLSFLELY--PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYP-THDKAAGGLLKLGL   84 (129)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC--SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TSTTHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHC--CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCC-CCcccHHHHHHHHH
Confidence            3344555555666666655555432  222    2444455555555666666666655554321 11   344455555


Q ss_pred             HHHccCCHHHHHHHHHHHHh
Q 039637          109 HLGKMRAHSEALSVYNMLRY  128 (159)
Q Consensus       109 ~~~~~g~~~~a~~~~~~~~~  128 (159)
                      ++.+.|++++|...|+.+..
T Consensus        85 ~~~~~g~~~~A~~~~~~~~~  104 (129)
T 2xev_A           85 SQYGEGKNTEAQQTLQQVAT  104 (129)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHH
Confidence            56666666666666665554

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=98.76  E-value=1.4e-07  Score=64.12  Aligned_cols=152  Identities=9%  Similarity=-0.018  Sum_probs=106.4

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCC---C--ChhhHHHHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAK----YDKY-DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAIS---P--DYNTFHILI   72 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~----~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~---~--~~~~~~~ll   72 (159)
                      ..|.+.|++++|.+.|++..+.    |-.. -..+++.+...|.+ |++++|+..|++..+....   +  ...++..+.
T Consensus        84 ~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg  162 (307)
T 2ifu_A           84 MMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKAS  162 (307)
T ss_dssp             HHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHH
Confidence            4567789999999999876532    2111 24578888999988 9999999999988763111   1  145778888


Q ss_pred             HHHHccChHHHHHHHHHHHHHc----CCCCc-HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCC--CCH--HHHHHHHH
Q 039637           73 KYFCKEKMYMLAYRTMVDMHRK----GHQPE-EELCSSLIFHLGKMRAHSEALSVYNMLRYSKRS--MCK--ALHEKILH  143 (159)
Q Consensus        73 ~~~~~~~~~~~a~~~~~~m~~~----g~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~--~~~--~~~~~l~~  143 (159)
                      ..+.+.|++++|+..+++..+.    +..++ ...+..+..++...|++++|...|++.. ....  ...  .....++.
T Consensus       163 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~al-~~p~~~~~~e~~~l~~l~~  241 (307)
T 2ifu_A          163 RLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRESY-SIPGFSGSEDCAALEDLLQ  241 (307)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHT-TSTTSTTSHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHh-CCCCCCCCHHHHHHHHHHH
Confidence            9999999999999999998853    22122 2356667778888899999999999887 3221  121  23445555


Q ss_pred             HHHhcCcHHHHhhh
Q 039637          144 ILISGKLLKDAYIV  157 (159)
Q Consensus       144 ~~~~~g~~~~A~~~  157 (159)
                      .+ ..|+.+.+.++
T Consensus       242 ~~-~~~d~~~~~~~  254 (307)
T 2ifu_A          242 AY-DEQDEEQLLRV  254 (307)
T ss_dssp             HH-HTTCHHHHHHH
T ss_pred             HH-HhcCHHHHHHH
Confidence            55 56777666553

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.76  E-value=1.4e-06  Score=51.13  Aligned_cols=90  Identities=18%  Similarity=0.093  Sum_probs=76.3

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCH---HHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC----hhhHHHHHHHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDV---VLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD----YNTFHILIKYF   75 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~---~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~----~~~~~~ll~~~   75 (159)
                      ..+.+.|++++|.+.|+...+..+. +.   ..+..+..++.+.|++++|...|++..+..  |+    ...+..+..++
T Consensus        10 ~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~la~~~   86 (129)
T 2xev_A           10 FDALKNGKYDDASQLFLSFLELYPN-GVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY--PTHDKAAGGLLKLGLSQ   86 (129)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCSS-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTSTTHHHHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHHHCCC-CcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC--CCCcccHHHHHHHHHHH
Confidence            4577899999999999999886654 33   578888999999999999999999998853  44    45677788899


Q ss_pred             HccChHHHHHHHHHHHHHcC
Q 039637           76 CKEKMYMLAYRTMVDMHRKG   95 (159)
Q Consensus        76 ~~~~~~~~a~~~~~~m~~~g   95 (159)
                      ...|++++|...++++.+..
T Consensus        87 ~~~g~~~~A~~~~~~~~~~~  106 (129)
T 2xev_A           87 YGEGKNTEAQQTLQQVATQY  106 (129)
T ss_dssp             HHTTCHHHHHHHHHHHHHHS
T ss_pred             HHcCCHHHHHHHHHHHHHHC
Confidence            99999999999999998763

>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=98.76  E-value=1.2e-06  Score=51.99  Aligned_cols=90  Identities=12%  Similarity=0.051  Sum_probs=78.8

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYM   82 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   82 (159)
                      ..+...|++++|...|+...+..+. +...|..+..++...|++++|...+.+..+.. +.+...+..+..++...|+++
T Consensus        17 ~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~   94 (137)
T 3q49_B           17 NRLFVGRKYPEAAACYGRAITRNPL-VAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQCQLEMESYD   94 (137)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHhCcHHHHHHHHHHHHhhCcC-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHHhhHH
Confidence            4678899999999999999887655 78899999999999999999999999998853 234678888999999999999


Q ss_pred             HHHHHHHHHHHc
Q 039637           83 LAYRTMVDMHRK   94 (159)
Q Consensus        83 ~a~~~~~~m~~~   94 (159)
                      +|...+.+..+.
T Consensus        95 ~A~~~~~~a~~~  106 (137)
T 3q49_B           95 EAIANLQRAYSL  106 (137)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999998864

>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=98.75  E-value=8.9e-07  Score=59.71  Aligned_cols=124  Identities=6%  Similarity=0.053  Sum_probs=93.3

Q ss_pred             HHHHHHHhcCChHHHHHHHHHhHhcCC-CCChh----hHHHHHHHHHccChHHHHHHHHHHHHHcCCC-Cc----HHHHH
Q 039637           35 SMLCAYCRTGDMESVMHVMRKLDELAI-SPDYN----TFHILIKYFCKEKMYMLAYRTMVDMHRKGHQ-PE----EELCS  104 (159)
Q Consensus        35 ~ll~~~~~~~~~~~a~~~~~~m~~~~~-~~~~~----~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~-~~----~~~~~  104 (159)
                      ..+..+.+.|++++|..++++..+... .|+..    .+..+...+...+++++|+..+++..+.... ++    ..+++
T Consensus        80 ~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~  159 (293)
T 3u3w_A           80 DQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIEN  159 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHH
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHH
Confidence            346778899999999999999887422 22221    2334666677788999999999999874222 22    33689


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHh----C-CCCCC-HHHHHHHHHHHHhcCcHHHHhhhh
Q 039637          105 SLIFHLGKMRAHSEALSVYNMLRY----S-KRSMC-KALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus       105 ~li~~~~~~g~~~~a~~~~~~~~~----~-~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      .+...|...|++++|...|++...    . +..+. ..++..+...|.+.|++++|.+.+
T Consensus       160 ~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~  219 (293)
T 3u3w_A          160 AIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQV  219 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHH
Confidence            999999999999999999998773    1 22222 347889999999999999998875

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.75  E-value=1.1e-07  Score=57.67  Aligned_cols=128  Identities=9%  Similarity=-0.091  Sum_probs=69.4

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHhHhcCCC-CC----hhhHHHHHHHHHccChHHHHHHHHHHHHHc----CCCC-cH
Q 039637           31 VLLNSMLCAYCRTGDMESVMHVMRKLDELAIS-PD----YNTFHILIKYFCKEKMYMLAYRTMVDMHRK----GHQP-EE  100 (159)
Q Consensus        31 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~-~~----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----g~~~-~~  100 (159)
                      .++..+...+...|++++|...+.+..+..-. ++    ..++..+...+...|++++|.+.+++..+.    +..+ ..
T Consensus        10 ~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~   89 (164)
T 3ro3_A           10 RAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEA   89 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHH
Confidence            34556666666666676666666665542110 11    134555666666667777766666665532    1111 13


Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHHhC----CCC-CCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637          101 ELCSSLIFHLGKMRAHSEALSVYNMLRYS----KRS-MCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus       101 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      ..+..+...+...|++++|...+++....    +.+ ....++..+...+...|++++|.+.+
T Consensus        90 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  152 (164)
T 3ro3_A           90 QSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFA  152 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHH
Confidence            34555666666667777776666654421    111 11234555666666667766666554

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.74  E-value=1.2e-06  Score=52.44  Aligned_cols=103  Identities=10%  Similarity=-0.065  Sum_probs=82.8

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCC---HHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCC-ChhhHHHHHHHHHcc
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYD---VVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP-DYNTFHILIKYFCKE   78 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~---~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~   78 (159)
                      ..+.+.|++++|.+.|+...+..+. +   ...|..+...+...|++++|...+.+..+.  .| +...+..+..++...
T Consensus        36 ~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~  112 (148)
T 2dba_A           36 NELFKCGDYGGALAAYTQALGLDAT-PQDQAVLHRNRAACHLKLEDYDKAETEASKAIEK--DGGDVKALYRRSQALEKL  112 (148)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHTSCCC-HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--TSCCHHHHHHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHHHccc-chHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhh--CccCHHHHHHHHHHHHHc
Confidence            4577889999999999999876543 2   678899999999999999999999998885  34 467788888999999


Q ss_pred             ChHHHHHHHHHHHHHcCCCCcHHHHHHHHHH
Q 039637           79 KMYMLAYRTMVDMHRKGHQPEEELCSSLIFH  109 (159)
Q Consensus        79 ~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~  109 (159)
                      |++++|...+++..+.. +.+...+..+...
T Consensus       113 ~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~  142 (148)
T 2dba_A          113 GRLDQAVLDLQRCVSLE-PKNKVFQEALRNI  142 (148)
T ss_dssp             TCHHHHHHHHHHHHHHC-SSCHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHcC-CCcHHHHHHHHHH
Confidence            99999999999998763 2244455444443

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.74  E-value=8.6e-08  Score=60.72  Aligned_cols=126  Identities=11%  Similarity=-0.055  Sum_probs=95.0

Q ss_pred             hHHHhcCCHHHHHHHHHHHHh----CCCC-CCHHHHHHHHHHHHhcCChHHHHHHHHHhHhc----CCCC--ChhhHHHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEA----KYDK-YDVVLLNSMLCAYCRTGDMESVMHVMRKLDEL----AISP--DYNTFHIL   71 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~----~~~~-~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~~~~--~~~~~~~l   71 (159)
                      ..+...|++++|.+.+++..+    .+.. ....++..+...+...|++++|.+.+.+..+.    +-.|  ....+..+
T Consensus        34 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~l  113 (203)
T 3gw4_A           34 YVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNWDAARRCFLEERELLASLPEDPLAASANAYEV  113 (203)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHH
T ss_pred             HHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCccHHHHHHHHHHH
Confidence            457788999999999998764    2222 24567888999999999999999999887763    1112  13456778


Q ss_pred             HHHHHccChHHHHHHHHHHHHHc----CCCC-cHHHHHHHHHHHHccCCHHHHHHHHHHHHh
Q 039637           72 IKYFCKEKMYMLAYRTMVDMHRK----GHQP-EEELCSSLIFHLGKMRAHSEALSVYNMLRY  128 (159)
Q Consensus        72 l~~~~~~~~~~~a~~~~~~m~~~----g~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  128 (159)
                      ...+...|++++|...+++..+.    +... ...++..+...+...|++++|...+++...
T Consensus       114 g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  175 (203)
T 3gw4_A          114 ATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKNLLEAQQHWLRARD  175 (203)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence            88899999999999999887742    2111 133457888899999999999999986653

>1xi4_A Clathrin heavy chain; alpha-ZIG-ZAG, beta-propeller, endocytosis-exocyto complex; 7.90A {Bos taurus} SCOP: i.23.1.1 PDB: 1xi5_A 3iyv_A

Probab=98.74  E-value=7.7e-07  Score=71.03  Aligned_cols=116  Identities=13%  Similarity=0.108  Sum_probs=87.7

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHH
Q 039637           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIF  108 (159)
Q Consensus        29 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~  108 (159)
                      +..+|..+..++.+.|++++|.+.|.+.      -|...|..+..+|.+.|++++|.+++....+..  +++...+.++.
T Consensus      1104 ~p~vWsqLAKAql~~G~~kEAIdsYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~Laf 1175 (1630)
T 1xi4_A         1104 EPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIF 1175 (1630)
T ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHH
Confidence            5677888888888889999998888552      566778888888999999999999888777654  33333445888


Q ss_pred             HHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhhC
Q 039637          109 HLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVVK  159 (159)
Q Consensus       109 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  159 (159)
                      +|++.+++++...+.    .   .++...|..+...|...|++++|..+|+
T Consensus      1176 aYAKl~rleele~fI----~---~~n~ad~~~iGd~le~eg~YeeA~~~Y~ 1219 (1630)
T 1xi4_A         1176 ALAKTNRLAELEEFI----N---GPNNAHIQQVGDRCYDEKMYDAAKLLYN 1219 (1630)
T ss_pred             HHHhhcCHHHHHHHH----h---CCCHHHHHHHHHHHHhcCCHHHHHHHHH
Confidence            888888888544432    2   3455667778899999999999988763

>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=98.73  E-value=8e-08  Score=69.42  Aligned_cols=120  Identities=13%  Similarity=0.039  Sum_probs=93.4

Q ss_pred             HHHHHHHhcCChHHHHHHHHHhHhcCCCCC-hhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHcc
Q 039637           35 SMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKM  113 (159)
Q Consensus        35 ~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~  113 (159)
                      .+...+.+.|++++|.+.|++..+.  .|+ ...|..+..++.+.|++++|++.+++..+.. +.+...+..+..+|.+.
T Consensus        11 ~lg~~~~~~g~~~~A~~~~~~Al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~~   87 (477)
T 1wao_1           11 TQANDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMAL   87 (477)
T ss_dssp             SSSSSTTTTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHc
Confidence            3344567889999999999999885  454 7888899999999999999999999999864 34678899999999999


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH--HHhcCcHHHHhhhh
Q 039637          114 RAHSEALSVYNMLRYSKRSMCKALHEKILHI--LISGKLLKDAYIVV  158 (159)
Q Consensus       114 g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~g~~~~A~~~~  158 (159)
                      |++++|...|++...... .+...+..+..+  +.+.|++++|.+.+
T Consensus        88 g~~~eA~~~~~~al~~~p-~~~~~~~~l~~~~~~~~~g~~~~A~~~~  133 (477)
T 1wao_1           88 GKFRAALRDYETVVKVKP-HDKDAKMKYQECNKIVKQKAFERAIAGD  133 (477)
T ss_dssp             TCHHHHHHHHHHHHHHST-TCTTHHHHHHHHHHHHHHHHHCCC----
T ss_pred             CCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            999999999998876432 122344444444  88899999998765

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.73  E-value=8e-08  Score=58.27  Aligned_cols=126  Identities=16%  Similarity=0.050  Sum_probs=95.2

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCC-CC----HHHHHHHHHHHHhcCChHHHHHHHHHhHhcCC-CCC----hhhHHHHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDK-YD----VVLLNSMLCAYCRTGDMESVMHVMRKLDELAI-SPD----YNTFHILI   72 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~-~~----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~-~~~----~~~~~~ll   72 (159)
                      ..|...|++++|.+.+++..+.... ++    ..++..+...+...|++++|...+++..+..- .++    ...+..+.
T Consensus        17 ~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~   96 (164)
T 3ro3_A           17 NTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLG   96 (164)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHH
Confidence            4577889999999999987643211 11    24788899999999999999999998775311 111    35677788


Q ss_pred             HHHHccChHHHHHHHHHHHHHc----CCCC-cHHHHHHHHHHHHccCCHHHHHHHHHHHHh
Q 039637           73 KYFCKEKMYMLAYRTMVDMHRK----GHQP-EEELCSSLIFHLGKMRAHSEALSVYNMLRY  128 (159)
Q Consensus        73 ~~~~~~~~~~~a~~~~~~m~~~----g~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  128 (159)
                      ..+...|++++|.+.+.+..+.    +..+ ....+..+...|...|++++|...+++...
T Consensus        97 ~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A           97 NTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            8899999999999999887743    2111 245677888999999999999999987654

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.71  E-value=4e-07  Score=61.43  Aligned_cols=124  Identities=9%  Similarity=-0.015  Sum_probs=95.4

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCC---CCC--HHHHHHHHHHHHhcCChHHHHHHHHHhHhc-CCCCC-----hhhHHHHH
Q 039637            4 AFCRSGCFEETKQLAGDFEAKYD---KYD--VVLLNSMLCAYCRTGDMESVMHVMRKLDEL-AISPD-----YNTFHILI   72 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~~---~~~--~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-~~~~~-----~~~~~~ll   72 (159)
                      .+...|++++|.+.++...+...   .+.  ..+|+.+...|...|++++|...|++..+. ...|+     ..++..+.
T Consensus       124 ~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg  203 (293)
T 2qfc_A          124 YVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHA  203 (293)
T ss_dssp             HHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHH
T ss_pred             HHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHH
Confidence            45677899999999998765321   112  458999999999999999999999998732 01222     25788899


Q ss_pred             HHHHccChHHHHHHHHHHHHHc----CCCC-cHHHHHHHHHHHHccCCHHHH-HHHHHHHH
Q 039637           73 KYFCKEKMYMLAYRTMVDMHRK----GHQP-EEELCSSLIFHLGKMRAHSEA-LSVYNMLR  127 (159)
Q Consensus        73 ~~~~~~~~~~~a~~~~~~m~~~----g~~~-~~~~~~~li~~~~~~g~~~~a-~~~~~~~~  127 (159)
                      .+|...|++++|+..+++..+.    +... -..++..+...|.+.|+.++| ...+++..
T Consensus       204 ~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al  264 (293)
T 2qfc_A          204 KALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHH
Confidence            9999999999999999987743    1111 256788899999999999999 77677554

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=98.70  E-value=1.1e-06  Score=62.61  Aligned_cols=148  Identities=14%  Similarity=0.029  Sum_probs=102.9

Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC-hhhHHHHHHHHHcc-------
Q 039637            7 RSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKE-------   78 (159)
Q Consensus         7 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~-------   78 (159)
                      ..|+.++|.+.++......+. +..++..+...|.+.|++++|...+.+..+.  .|+ ..++..+..+|...       
T Consensus       225 ~~~~~~~a~~~~~~al~~~~~-~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~y~~~~~~~~~~  301 (472)
T 4g1t_A          225 EGEEEGEGEKLVEEALEKAPG-VTDVLRSAAKFYRRKDEPDKAIELLKKALEY--IPNNAYLHCQIGCCYRAKVFQVMNL  301 (472)
T ss_dssp             -----CHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHHHHHC
T ss_pred             hhhHHHHHHHHHHHHHHhCcc-HHHHHHHHHHHHHHcCchHHHHHHHHHHHHh--CCChHHHHHHHHHHHHHHHHHhhhH
Confidence            346788899999888776554 7788999999999999999999999998874  454 45555555554322       


Q ss_pred             ------------ChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHH--HHHHHHH-
Q 039637           79 ------------KMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKA--LHEKILH-  143 (159)
Q Consensus        79 ------------~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~--~~~~l~~-  143 (159)
                                  +..+.|...++...+.. +.+..++..+...|...|++++|...|++.......+...  .+..+.. 
T Consensus       302 ~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~  380 (472)
T 4g1t_A          302 RENGMYGKRKLLELIGHAVAHLKKADEAN-DNLFRVCSILASLHALADQYEEAEYYFQKEFSKELTPVAKQLLHLRYGNF  380 (472)
T ss_dssp             ------CHHHHHHHHHHHHHHHHHHHHHC-TTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHhhcC-CchhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHH
Confidence                        34567778887777654 3456678889999999999999999999988654433321  2222222 


Q ss_pred             HHHhcCcHHHHhhhh
Q 039637          144 ILISGKLLKDAYIVV  158 (159)
Q Consensus       144 ~~~~~g~~~~A~~~~  158 (159)
                      .+...|+.++|...|
T Consensus       381 ~~~~~~~~~~Ai~~y  395 (472)
T 4g1t_A          381 QLYQMKCEDKAIHHF  395 (472)
T ss_dssp             HHHTSSCHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHH
Confidence            234678888887755

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.69  E-value=5.8e-07  Score=52.79  Aligned_cols=89  Identities=10%  Similarity=-0.023  Sum_probs=69.4

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCC-ChhhHHHHHHHHHccChH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP-DYNTFHILIKYFCKEKMY   81 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~~~~   81 (159)
                      ..+.+.|++++|...|+...+..+. +...|..+..++.+.|++++|+..|++..+.  .| +...+..+..++...|++
T Consensus        25 ~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l--~P~~~~~~~~la~~~~~~g~~  101 (121)
T 1hxi_A           25 LSMLKLANLAEAALAFEAVCQKEPE-REEAWRSLGLTQAENEKDGLAIIALNHARML--DPKDIAVHAALAVSHTNEHNA  101 (121)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCH
Confidence            3567788888888888888876654 7778888888888888888888888888774  35 356677777888888888


Q ss_pred             HHHHHHHHHHHHc
Q 039637           82 MLAYRTMVDMHRK   94 (159)
Q Consensus        82 ~~a~~~~~~m~~~   94 (159)
                      ++|+..+++..+.
T Consensus       102 ~~A~~~~~~al~~  114 (121)
T 1hxi_A          102 NAALASLRAWLLS  114 (121)
T ss_dssp             HHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHh
Confidence            8888888887754

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.69  E-value=1.5e-06  Score=61.28  Aligned_cols=156  Identities=9%  Similarity=-0.029  Sum_probs=112.8

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCC----------------HHHHHHHHHHHHhcCChHHHHHHHHHhHhcCC-CCCh
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYD----------------VVLLNSMLCAYCRTGDMESVMHVMRKLDELAI-SPDY   65 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~----------------~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~-~~~~   65 (159)
                      ..+.+.|++++|.+.|....+.....+                ..++..+...|.+.|++++|.+.+.+....-- .++.
T Consensus        12 ~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~   91 (434)
T 4b4t_Q           12 RRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKS   91 (434)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccch
Confidence            346788999999999999887643311                12477889999999999999999998775311 1221


Q ss_pred             ----hhHHHHHHHHHccChHHHHHHHHHHHHH----cCCCCc-HHHHHHHHHHHHccCCHHHHHHHHHHHHhC----CCC
Q 039637           66 ----NTFHILIKYFCKEKMYMLAYRTMVDMHR----KGHQPE-EELCSSLIFHLGKMRAHSEALSVYNMLRYS----KRS  132 (159)
Q Consensus        66 ----~~~~~ll~~~~~~~~~~~a~~~~~~m~~----~g~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~  132 (159)
                          .+.+.+-..+...|+++.+.+++.....    .+..+. ..++..+...|...|++++|..+++.....    +..
T Consensus        92 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~  171 (434)
T 4b4t_Q           92 KTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDDK  171 (434)
T ss_dssp             HHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCS
T ss_pred             HHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhcccc
Confidence                1223333344556889999998887763    333333 457788999999999999999999877532    112


Q ss_pred             C-CHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637          133 M-CKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus       133 ~-~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      + ...++..+...|...|++++|...+
T Consensus       172 ~~~~~~~~~~~~~~~~~~~~~~A~~~~  198 (434)
T 4b4t_Q          172 PSLVDVHLLESKVYHKLRNLAKSKASL  198 (434)
T ss_dssp             THHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHhCcHHHHHHHH
Confidence            2 2457888999999999999998765

>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=98.66  E-value=7.9e-07  Score=63.89  Aligned_cols=123  Identities=9%  Similarity=0.052  Sum_probs=99.2

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCC--------------HHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYD--------------VVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTF   68 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~--------------~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~   68 (159)
                      ..|.+.|++++|...|++..+..+...              ..+|..+..+|.+.|++++|+..+++..+.. ..+...|
T Consensus       276 ~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~  354 (457)
T 1kt0_A          276 TVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD-SANEKGL  354 (457)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHH
T ss_pred             HHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHH
Confidence            457889999999999999887654422              6889999999999999999999999999853 2356788


Q ss_pred             HHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHH-HHHHHH
Q 039637           69 HILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALS-VYNMLR  127 (159)
Q Consensus        69 ~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~-~~~~~~  127 (159)
                      ..+-.++...|++++|+..|++.++.. +-+...+..+..++.+.++.+++.+ .+..|.
T Consensus       355 ~~~g~a~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~f  413 (457)
T 1kt0_A          355 YRRGEAQLLMNEFESAKGDFEKVLEVN-PQNKAARLQISMCQKKAKEHNERDRRIYANMF  413 (457)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHHHHHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            889999999999999999999999763 2356788889999999999888774 455543

>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=98.66  E-value=9.8e-07  Score=61.78  Aligned_cols=124  Identities=11%  Similarity=0.032  Sum_probs=100.3

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHhHhc--------------CCCC-ChhhHHHHHHHHHccChHHHHHHHHHHHHHcC
Q 039637           31 VLLNSMLCAYCRTGDMESVMHVMRKLDEL--------------AISP-DYNTFHILIKYFCKEKMYMLAYRTMVDMHRKG   95 (159)
Q Consensus        31 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~--------------~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g   95 (159)
                      ..|..+...+.+.|++++|+..|++..+.              ...| +...|..+..++.+.|++++|++.+++.++..
T Consensus       224 ~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~  303 (370)
T 1ihg_A          224 EDLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID  303 (370)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhC
Confidence            45777888999999999999999988761              0222 35778888899999999999999999999764


Q ss_pred             CCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhh
Q 039637           96 HQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYI  156 (159)
Q Consensus        96 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  156 (159)
                       +.+...+..+..+|...|++++|...|++..... +.+...+..+...+.+.++.+++.+
T Consensus       304 -p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~-P~~~~~~~~l~~~~~~~~~~~~a~k  362 (370)
T 1ihg_A          304 -PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLKVKQKIKAQKDKEK  362 (370)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             -chhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHH
Confidence             3467788899999999999999999999887643 3367777888888888888887764

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.64  E-value=1.6e-07  Score=54.74  Aligned_cols=87  Identities=7%  Similarity=-0.099  Sum_probs=53.3

Q ss_pred             hcCCHHHHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHH
Q 039637            7 RSGCFEETKQLAGDFEAKYD--KYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLA   84 (159)
Q Consensus         7 ~~~~~~~A~~~~~~~~~~~~--~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   84 (159)
                      ..|++++|.+.|++..+.++  +.+...|..+..+|.+.|++++|...|++..+.. +-+...+..+..++...|++++|
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            35667777777777766531  1245566777777777777777777777776642 12345566666677777777777


Q ss_pred             HHHHHHHHHc
Q 039637           85 YRTMVDMHRK   94 (159)
Q Consensus        85 ~~~~~~m~~~   94 (159)
                      ...+.+..+.
T Consensus        81 ~~~~~~al~~   90 (117)
T 3k9i_A           81 VELLLKIIAE   90 (117)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            7777766654

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=98.64  E-value=5e-06  Score=59.65  Aligned_cols=136  Identities=7%  Similarity=-0.123  Sum_probs=66.1

Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc----CChHHHHHHHHHhHhcCCCCChhhHHHHHHH-H--HccChHH
Q 039637           10 CFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRT----GDMESVMHVMRKLDELAISPDYNTFHILIKY-F--CKEKMYM   82 (159)
Q Consensus        10 ~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~----~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~-~--~~~~~~~   82 (159)
                      +.++|.+.|+...+.|+. +...+..+...|...    +++++|...|++.. .   -+...+..+-.. +  ...++++
T Consensus       194 ~~~~A~~~~~~aa~~g~~-~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa-~---g~~~a~~~Lg~~~~~~~~~~d~~  268 (452)
T 3e4b_A          194 QQAELLKQMEAGVSRGTV-TAQRVDSVARVLGDATLGTPDEKTAQALLEKIA-P---GYPASWVSLAQLLYDFPELGDVE  268 (452)
T ss_dssp             HHHHHHHHHHHHHHTTCS-CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG-G---GSTHHHHHHHHHHHHSGGGCCHH
T ss_pred             cHHHHHHHHHHHHHCCCH-HHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc-C---CCHHHHHHHHHHHHhCCCCCCHH
Confidence            566666666666555543 444444444444433    45666666665554 2   223333333333 2  3355666


Q ss_pred             HHHHHHHHHHHcCCCCcHHHHHHHHHHHHccC-----CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCcHHH
Q 039637           83 LAYRTMVDMHRKGHQPEEELCSSLIFHLGKMR-----AHSEALSVYNMLRYSKRSMCKALHEKILHILIS----GKLLKD  153 (159)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g-----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~  153 (159)
                      +|.++|++..+.|   ++..+..|...|. .|     +.++|..+|++..    +-+......+-..|..    ..+.++
T Consensus       269 ~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa----~g~~~A~~~Lg~~y~~G~g~~~d~~~  340 (452)
T 3e4b_A          269 QMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV----GREVAADYYLGQIYRRGYLGKVYPQK  340 (452)
T ss_dssp             HHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT----TTCHHHHHHHHHHHHTTTTSSCCHHH
T ss_pred             HHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh----CCCHHHHHHHHHHHHCCCCCCcCHHH
Confidence            6666666655544   3334444444444 33     5566666555444    1233344444444444    225555


Q ss_pred             Hhhhh
Q 039637          154 AYIVV  158 (159)
Q Consensus       154 A~~~~  158 (159)
                      |...|
T Consensus       341 A~~~~  345 (452)
T 3e4b_A          341 ALDHL  345 (452)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            54443

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.62  E-value=7.2e-07  Score=64.64  Aligned_cols=125  Identities=13%  Similarity=0.061  Sum_probs=92.2

Q ss_pred             HHHhcCCHHHHHHHHHHHHhC-----CC-CCC-HHHHHHHHHHHHhcCChHHHHHHHHHhHhc-----CC-CCC-hhhHH
Q 039637            4 AFCRSGCFEETKQLAGDFEAK-----YD-KYD-VVLLNSMLCAYCRTGDMESVMHVMRKLDEL-----AI-SPD-YNTFH   69 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~-----~~-~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-----~~-~~~-~~~~~   69 (159)
                      .+...|++++|..++++..+.     |. .|+ ..+++.|..+|...|++++|+.++.+..+.     |- -|+ ..+++
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            355779999999998876532     32 233 357899999999999999999998887653     21 233 46788


Q ss_pred             HHHHHHHccChHHHHHHHHHHHHH-----cCC-CC-cHHHHHHHHHHHHccCCHHHHHHHHHHHHh
Q 039637           70 ILIKYFCKEKMYMLAYRTMVDMHR-----KGH-QP-EEELCSSLIFHLGKMRAHSEALSVYNMLRY  128 (159)
Q Consensus        70 ~ll~~~~~~~~~~~a~~~~~~m~~-----~g~-~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  128 (159)
                      .|...|..+|++++|+.++++.++     .|. .| ...+.+.+-.++.+.+.+++|..++..++.
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~  463 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMRE  463 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            889999999999999998887763     231 12 344556777888888999999999988874

>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=98.62  E-value=9.8e-07  Score=61.78  Aligned_cols=115  Identities=10%  Similarity=0.075  Sum_probs=94.7

Q ss_pred             hHHHhcCCHHHHHHHHHHHHh----------------CCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCC-Ch
Q 039637            3 SAFCRSGCFEETKQLAGDFEA----------------KYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP-DY   65 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~----------------~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-~~   65 (159)
                      ..+.+.|++++|.+.|++..+                ..+ .+..+|..+..+|.+.|++++|+..+++..+.  .| +.
T Consensus       231 ~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~-~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~--~p~~~  307 (370)
T 1ihg_A          231 NTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQP-VALSCVLNIGACKLKMSDWQGAVDSCLEALEI--DPSNT  307 (370)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHH-HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CTTCH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHH-HHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh--CchhH
Confidence            457789999999999998875                221 25678999999999999999999999999984  45 46


Q ss_pred             hhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHH
Q 039637           66 NTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALS  121 (159)
Q Consensus        66 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~  121 (159)
                      ..+..+-.++...|++++|++.+++..+.. +.+...+..+...+.+.++.+++.+
T Consensus       308 ~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~-P~~~~~~~~l~~~~~~~~~~~~a~k  362 (370)
T 1ihg_A          308 KALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLKVKQKIKAQKDKEK  362 (370)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            788889999999999999999999998864 2366777788888888888777764

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.59  E-value=1.8e-07  Score=54.47  Aligned_cols=105  Identities=8%  Similarity=-0.060  Sum_probs=76.9

Q ss_pred             hcCChHHHHHHHHHhHhcCC-CC-ChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHH
Q 039637           42 RTGDMESVMHVMRKLDELAI-SP-DYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEA  119 (159)
Q Consensus        42 ~~~~~~~a~~~~~~m~~~~~-~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a  119 (159)
                      ..|++++|+..|++..+.+. .| +...+..+..++...|++++|+..+++..+.. +-++.++..+..++.+.|++++|
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            46889999999999988531 13 35778888899999999999999999999874 34677888999999999999999


Q ss_pred             HHHHHHHHhC-CCCCCHHHHHHHHHHHHh
Q 039637          120 LSVYNMLRYS-KRSMCKALHEKILHILIS  147 (159)
Q Consensus       120 ~~~~~~~~~~-~~~~~~~~~~~l~~~~~~  147 (159)
                      ...+++.... ...|+...|...+..|.+
T Consensus        81 ~~~~~~al~~~p~~~~~~~~~~ai~~~~~  109 (117)
T 3k9i_A           81 VELLLKIIAETSDDETIQSYKQAILFYAD  109 (117)
T ss_dssp             HHHHHHHHHHHCCCHHHHHTHHHHHHHTT
T ss_pred             HHHHHHHHHhCCCcHHHHHHHHHHHHHHH
Confidence            9999987753 223334444445544443

>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=98.58  E-value=2.4e-06  Score=57.44  Aligned_cols=97  Identities=8%  Similarity=-0.145  Sum_probs=84.8

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCC-ChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHH
Q 039637           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP-DYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLI  107 (159)
Q Consensus        29 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li  107 (159)
                      +...+..+...+.+.|++++|...|.+..+.  .| +...|..+..++.+.|++++|...+++..+.. +.+...+..+.
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg   79 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLG   79 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            5677888999999999999999999999885  45 57788889999999999999999999998763 34677888999


Q ss_pred             HHHHccCCHHHHHHHHHHHHh
Q 039637          108 FHLGKMRAHSEALSVYNMLRY  128 (159)
Q Consensus       108 ~~~~~~g~~~~a~~~~~~~~~  128 (159)
                      .+|...|++++|...|++...
T Consensus        80 ~~~~~~g~~~~A~~~~~~al~  100 (281)
T 2c2l_A           80 QCQLEMESYDEAIANLQRAYS  100 (281)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHH
Confidence            999999999999999987654

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.56  E-value=1.3e-06  Score=53.65  Aligned_cols=99  Identities=10%  Similarity=-0.036  Sum_probs=73.4

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHhHhc--------CC--------CC-ChhhHHHHHHHHHccChHHHHHHHHHHHH
Q 039637           30 VVLLNSMLCAYCRTGDMESVMHVMRKLDEL--------AI--------SP-DYNTFHILIKYFCKEKMYMLAYRTMVDMH   92 (159)
Q Consensus        30 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~--------~~--------~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~   92 (159)
                      ...+......+.+.|++++|+..|.+....        ..        .| +...|..+..++.+.|++++|+..+.+.+
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            455667777788888888888888777663        00        11 23567777888888888888888888888


Q ss_pred             HcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 039637           93 RKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYS  129 (159)
Q Consensus        93 ~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  129 (159)
                      +.. +.++..|..+..+|...|++++|...|++....
T Consensus        91 ~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  126 (162)
T 3rkv_A           91 KRE-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRN  126 (162)
T ss_dssp             HHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hcC-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhc
Confidence            764 346777888888888888888888888877753

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=98.55  E-value=2e-06  Score=64.68  Aligned_cols=124  Identities=10%  Similarity=0.019  Sum_probs=60.3

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHhHhc-CCCCChhhHHHHHHHHHc-cChHHHHHHHHHHHHHcCCCCcHHHHHHHHHH
Q 039637           32 LLNSMLCAYCRTGDMESVMHVMRKLDEL-AISPDYNTFHILIKYFCK-EKMYMLAYRTMVDMHRKGHQPEEELCSSLIFH  109 (159)
Q Consensus        32 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~-~~~~~~~~~~~ll~~~~~-~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~  109 (159)
                      +|...++...+.|..+.|..+|.+..+. +. ++...|......-.+ .++.+.|.++|+..++. .+-+...+...+..
T Consensus       436 vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~-~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~-~p~~~~~w~~y~~f  513 (679)
T 4e6h_A          436 VYCVYMNTMKRIQGLAASRKIFGKCRRLKKL-VTPDIYLENAYIEYHISKDTKTACKVLELGLKY-FATDGEYINKYLDF  513 (679)
T ss_dssp             HHHHHHHHHHHHHCHHHHHHHHHHHHHTGGG-SCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHH-HTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhcCC-CChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCchHHHHHHHHH
Confidence            4555555555555666666666665543 11 111222211111112 23355666666655554 22234444555555


Q ss_pred             HHccCCHHHHHHHHHHHHhCCCCC--CHHHHHHHHHHHHhcCcHHHHhhh
Q 039637          110 LGKMRAHSEALSVYNMLRYSKRSM--CKALHEKILHILISGKLLKDAYIV  157 (159)
Q Consensus       110 ~~~~g~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~  157 (159)
                      ....|+.+.|..+|++......++  ....|...+..=.+.|+.+.+..+
T Consensus       514 e~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v  563 (679)
T 4e6h_A          514 LIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTL  563 (679)
T ss_dssp             HHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHH
T ss_pred             HHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            555566666666666555432211  234555555555566666655554

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=98.51  E-value=5.3e-06  Score=59.51  Aligned_cols=120  Identities=8%  Similarity=-0.050  Sum_probs=91.5

Q ss_pred             HHHHHHHHHHHHhcC---ChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHcc----ChHHHHHHHHHHHHHcCCCCcHHH
Q 039637           30 VVLLNSMLCAYCRTG---DMESVMHVMRKLDELAISPDYNTFHILIKYFCKE----KMYMLAYRTMVDMHRKGHQPEEEL  102 (159)
Q Consensus        30 ~~~~~~ll~~~~~~~---~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~----~~~~~a~~~~~~m~~~g~~~~~~~  102 (159)
                      +..+..+...|.+.|   +.++|+..|.+..+.|. ++...+..+-..|...    +++++|.++|++.. .|   ++..
T Consensus       176 ~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~-~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa-~g---~~~a  250 (452)
T 3e4b_A          176 DICYVELATVYQKKQQPEQQAELLKQMEAGVSRGT-VTAQRVDSVARVLGDATLGTPDEKTAQALLEKIA-PG---YPAS  250 (452)
T ss_dssp             TTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTC-SCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG-GG---STHH
T ss_pred             HHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCC-HHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc-CC---CHHH
Confidence            338888888898999   89999999999988763 4444445566677555    78999999999987 33   4456


Q ss_pred             HHHHHHH-H--HccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC-----cHHHHhhhh
Q 039637          103 CSSLIFH-L--GKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGK-----LLKDAYIVV  158 (159)
Q Consensus       103 ~~~li~~-~--~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-----~~~~A~~~~  158 (159)
                      +..+... |  ...++.++|..+|++....+   +...+..+-..|. .|     +.++|...|
T Consensus       251 ~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~  310 (452)
T 3e4b_A          251 WVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHF  310 (452)
T ss_dssp             HHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHH
T ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHH
Confidence            6666666 4  56899999999999988766   5566677777776 55     899998876

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.51  E-value=3.2e-06  Score=51.87  Aligned_cols=92  Identities=11%  Similarity=0.043  Sum_probs=76.6

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhC--------CC---------CCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCCh
Q 039637            3 SAFCRSGCFEETKQLAGDFEAK--------YD---------KYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDY   65 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~--------~~---------~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~   65 (159)
                      ..+.+.|++++|.+.|....+.        .+         +.+...|..+..+|.+.|++++|+..+.+..+.. +.+.
T Consensus        19 ~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al~~~-p~~~   97 (162)
T 3rkv_A           19 NELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVLKRE-ETNE   97 (162)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhcC-Ccch
Confidence            4678899999999999987764        11         1144688999999999999999999999998853 2346


Q ss_pred             hhHHHHHHHHHccChHHHHHHHHHHHHHcC
Q 039637           66 NTFHILIKYFCKEKMYMLAYRTMVDMHRKG   95 (159)
Q Consensus        66 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g   95 (159)
                      ..|..+..++...|++++|...|.+..+..
T Consensus        98 ~a~~~~g~~~~~~g~~~~A~~~~~~al~l~  127 (162)
T 3rkv_A           98 KALFRRAKARIAAWKLDEAEEDLKLLLRNH  127 (162)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHhcHHHHHHHHHHHHhcC
Confidence            788889999999999999999999998863

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.50  E-value=9.5e-07  Score=61.03  Aligned_cols=94  Identities=9%  Similarity=-0.105  Sum_probs=51.3

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChh------------------hHHHHHHHHHccChHHHHHHHHHHHHH
Q 039637           32 LLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYN------------------TFHILIKYFCKEKMYMLAYRTMVDMHR   93 (159)
Q Consensus        32 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~------------------~~~~ll~~~~~~~~~~~a~~~~~~m~~   93 (159)
                      .+..+...+.+.|++++|...|.+....  .|+..                  .|..+..++.+.|++++|+..+++.++
T Consensus       181 ~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~~~~~~~~~~~~~~l~~~~~~nla~~~~~~g~~~~A~~~~~~al~  258 (338)
T 2if4_A          181 RRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFMFQLYGKYQDMALAVKNPCHLNIAACLIKLKRYDEAIGHCNIVLT  258 (338)
T ss_dssp             HHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHHHTCCHHHHHHHHHHHTHHHHHHHHHHHTTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchhhhhcccHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3444455555555555555555555442  23322                  455555556666666666666666555


Q ss_pred             cCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHh
Q 039637           94 KGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRY  128 (159)
Q Consensus        94 ~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  128 (159)
                      .. +.+...+..+..+|...|++++|...|++...
T Consensus       259 ~~-p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~  292 (338)
T 2if4_A          259 EE-EKNPKALFRRGKAKAELGQMDSARDDFRKAQK  292 (338)
T ss_dssp             HC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC
T ss_pred             hC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            42 22445555566666666666666666665543

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.48  E-value=1e-05  Score=55.19  Aligned_cols=147  Identities=7%  Similarity=-0.094  Sum_probs=117.6

Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChH--HHHHHHHHhHhcCCCCChhhHHHHHHHHHccCh------
Q 039637            9 GCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDME--SVMHVMRKLDELAISPDYNTFHILIKYFCKEKM------   80 (159)
Q Consensus         9 ~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~--~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~------   80 (159)
                      +++++++++++.+.+..++ |..+|+--.-.+.+.|.++  ++++.++++.+... -|...|+.-.......+.      
T Consensus       124 ~~~~~EL~~~~~~l~~~pk-ny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~-~N~sAW~~R~~ll~~l~~~~~~~~  201 (306)
T 3dra_A          124 FDPYREFDILEAMLSSDPK-NHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDL-KNNSAWSHRFFLLFSKKHLATDNT  201 (306)
T ss_dssp             CCTHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHSSGGGCCHHH
T ss_pred             CCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhccccchhhh
Confidence            7899999999999988776 9999999888888889888  99999999998653 466778766666666666      


Q ss_pred             HHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHH-HHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCcHHHHhhh
Q 039637           81 YMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSE-ALSVYNMLRYSK--RSMCKALHEKILHILISGKLLKDAYIV  157 (159)
Q Consensus        81 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~-a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~  157 (159)
                      ++++++.+.+..... +-|...|+-+-..+.+.|+... +..+.+++...+  .+.+...+..+...|.+.|+.++|.++
T Consensus       202 ~~eEl~~~~~aI~~~-p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~  280 (306)
T 3dra_A          202 IDEELNYVKDKIVKC-PQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTV  280 (306)
T ss_dssp             HHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHH
Confidence            889999999988864 3578888888888888777444 445666655422  245788899999999999999999987


Q ss_pred             h
Q 039637          158 V  158 (159)
Q Consensus       158 ~  158 (159)
                      +
T Consensus       281 ~  281 (306)
T 3dra_A          281 Y  281 (306)
T ss_dssp             H
T ss_pred             H
Confidence            6

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.48  E-value=1.7e-06  Score=49.25  Aligned_cols=64  Identities=11%  Similarity=-0.006  Sum_probs=35.2

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHH
Q 039637           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHR   93 (159)
Q Consensus        29 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~   93 (159)
                      +...|..+...+.+.|++++|...|.+..+.. +.+...+..+..++...|++++|++.+++..+
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~   66 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLR   66 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            34455555566666666666666666655532 12344455555555556666666666655554

>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=98.45  E-value=6.8e-06  Score=50.55  Aligned_cols=109  Identities=14%  Similarity=0.031  Sum_probs=79.8

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC--------h-----hhHHHHHHHHHccChHHHHHHHHHHHHHc---
Q 039637           31 VLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD--------Y-----NTFHILIKYFCKEKMYMLAYRTMVDMHRK---   94 (159)
Q Consensus        31 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~--------~-----~~~~~ll~~~~~~~~~~~a~~~~~~m~~~---   94 (159)
                      ..+......+.+.|++++|+..|++..+.  .|+        .     ..|+.+-.++.+.|++++|+..+++.++.   
T Consensus        12 ~~~~~~G~~l~~~g~~eeAi~~Y~kAL~l--~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~   89 (159)
T 2hr2_A           12 YLALSDAQRQLVAGEYDEAAANCRRAMEI--SHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNR   89 (159)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHH--HTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHhh--CCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhc
Confidence            34556667778888999999988888873  344        1     27888888899999999999999888874   


Q ss_pred             --CCCC-cHHHH----HHHHHHHHccCCHHHHHHHHHHHHh-----CCCCCCHHHHHHH
Q 039637           95 --GHQP-EEELC----SSLIFHLGKMRAHSEALSVYNMLRY-----SKRSMCKALHEKI  141 (159)
Q Consensus        95 --g~~~-~~~~~----~~li~~~~~~g~~~~a~~~~~~~~~-----~~~~~~~~~~~~l  141 (159)
                        ...| +...|    .....++...|++++|...|++...     .++.+........
T Consensus        90 ~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~p~d~~~~~~~~~~~~~  148 (159)
T 2hr2_A           90 RGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGETPGKERMMEV  148 (159)
T ss_dssp             HCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCCSCCTTHHHHHHH
T ss_pred             cccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHH
Confidence              1134 45677    7888899999999999999997753     3444444443333

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=98.45  E-value=5.9e-06  Score=62.20  Aligned_cols=122  Identities=10%  Similarity=0.030  Sum_probs=83.3

Q ss_pred             HhcCCHHHHHHHHHHHHhC-CC-CCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHH
Q 039637            6 CRSGCFEETKQLAGDFEAK-YD-KYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYML   83 (159)
Q Consensus         6 ~~~~~~~~A~~~~~~~~~~-~~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~   83 (159)
                      .+.|+.+.|..+|....+. +. .+......+.+... ..++.+.|..+|+...+. ..-+...+...++.....|+.+.
T Consensus       445 rR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~-~~~d~e~Ar~ife~~Lk~-~p~~~~~w~~y~~fe~~~~~~~~  522 (679)
T 4e6h_A          445 KRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYH-ISKDTKTACKVLELGLKY-FATDGEYINKYLDFLIYVNEESQ  522 (679)
T ss_dssp             HHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHT-TTSCCHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHH-hCCCHHHHHHHHHHHHHH-CCCchHHHHHHHHHHHhCCCHHH
Confidence            4567788888888888765 21 22333333333322 134588899998888875 33345556677777777888889


Q ss_pred             HHHHHHHHHHcCCCC--cHHHHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 039637           84 AYRTMVDMHRKGHQP--EEELCSSLIFHLGKMRAHSEALSVYNMLRYS  129 (159)
Q Consensus        84 a~~~~~~m~~~g~~~--~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  129 (159)
                      |..+|+........+  ....|...+..-.+.|+.+.+.++.+++...
T Consensus       523 AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~  570 (679)
T 4e6h_A          523 VKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEK  570 (679)
T ss_dssp             HHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            999998888754321  3467788888888889999999998888864

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=98.44  E-value=7.3e-06  Score=49.21  Aligned_cols=117  Identities=9%  Similarity=-0.010  Sum_probs=94.7

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHc----cC
Q 039637            4 AFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCK----EK   79 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~----~~   79 (159)
                      +....+++++|.+.|++..+.|.. +..    +-..|...+..++|.+.|++..+.|   +...+..|-..|..    .+
T Consensus         4 G~g~~~d~~~A~~~~~~aa~~g~~-~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~   75 (138)
T 1klx_A            4 GGTVKKDLKKAIQYYVKACELNEM-FGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKK   75 (138)
T ss_dssp             CSSHHHHHHHHHHHHHHHHHTTCT-THH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCC
T ss_pred             CcCCccCHHHHHHHHHHHHcCCCH-hhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCc
Confidence            344567899999999999888733 333    7777777788899999999998864   56777778888877    78


Q ss_pred             hHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHc----cCCHHHHHHHHHHHHhCCC
Q 039637           80 MYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGK----MRAHSEALSVYNMLRYSKR  131 (159)
Q Consensus        80 ~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~~  131 (159)
                      ++++|.++|++..+.|   ++..+..|...|..    .++.++|..+|++..+.|.
T Consensus        76 d~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A           76 DLRKAAQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             CHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             cHHHHHHHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCC
Confidence            9999999999999876   45677778888888    8999999999999887654

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.44  E-value=2.4e-06  Score=61.90  Aligned_cols=120  Identities=8%  Similarity=-0.052  Sum_probs=90.4

Q ss_pred             HHHhcCChHHHHHHHHHhHhcC---CCCC----hhhHHHHHHHHHccChHHHHHHHHHHHHH-----cC-CCC-cHHHHH
Q 039637           39 AYCRTGDMESVMHVMRKLDELA---ISPD----YNTFHILIKYFCKEKMYMLAYRTMVDMHR-----KG-HQP-EEELCS  104 (159)
Q Consensus        39 ~~~~~~~~~~a~~~~~~m~~~~---~~~~----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~-----~g-~~~-~~~~~~  104 (159)
                      .+...|++++|+.++++..+..   +-|+    ..+++.|...|..+|++++|+.++++.++     .| ..| ...+++
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            3567899999999998877541   2222    47788999999999999999999988763     23 123 345788


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHh-----CC-CCCC-HHHHHHHHHHHHhcCcHHHHhhhh
Q 039637          105 SLIFHLGKMRAHSEALSVYNMLRY-----SK-RSMC-KALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus       105 ~li~~~~~~g~~~~a~~~~~~~~~-----~~-~~~~-~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      .|...|...|++++|..++++...     .| ..|+ ..+...+-.++...+.+++|+.++
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~  458 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMY  458 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999886653     12 2233 335567778888889999988776

>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=98.43  E-value=6.4e-06  Score=50.66  Aligned_cols=91  Identities=9%  Similarity=-0.041  Sum_probs=75.5

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCC------CH-----HHHHHHHHHHHhcCChHHHHHHHHHhHhc-----CCCCC-h
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKY------DV-----VLLNSMLCAYCRTGDMESVMHVMRKLDEL-----AISPD-Y   65 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~------~~-----~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-----~~~~~-~   65 (159)
                      ..+.+.|++++|.+.|++..+..+..      +.     ..|+.+..++.+.|++++|+..+++.++.     .+.|+ .
T Consensus        19 ~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd~~   98 (159)
T 2hr2_A           19 QRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEG   98 (159)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCchH
Confidence            35678899999999999988765441      23     38999999999999999999999999883     11676 4


Q ss_pred             hhH----HHHHHHHHccChHHHHHHHHHHHHH
Q 039637           66 NTF----HILIKYFCKEKMYMLAYRTMVDMHR   93 (159)
Q Consensus        66 ~~~----~~ll~~~~~~~~~~~a~~~~~~m~~   93 (159)
                      ..|    ...-.++...|++++|+..|++.++
T Consensus        99 ~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAle  130 (159)
T 2hr2_A           99 KLWISAVYSRALALDGLGRGAEAMPEFKKVVE  130 (159)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHh
Confidence            677    8888999999999999999999875

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.42  E-value=8.5e-07  Score=61.27  Aligned_cols=123  Identities=7%  Similarity=-0.059  Sum_probs=74.2

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCH-----------------HHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCC-C
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDV-----------------VLLNSMLCAYCRTGDMESVMHVMRKLDELAISP-D   64 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~-----------------~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-~   64 (159)
                      ..+.+.|++++|...|+...+..+. +.                 .+|..+..+|.+.|++++|+..+.+..+.  .| +
T Consensus       187 ~~~~~~g~~~~A~~~y~~Al~~~p~-~~~~~~~~~~~~~~~~l~~~~~~nla~~~~~~g~~~~A~~~~~~al~~--~p~~  263 (338)
T 2if4_A          187 NSLFKEEKLEEAMQQYEMAIAYMGD-DFMFQLYGKYQDMALAVKNPCHLNIAACLIKLKRYDEAIGHCNIVLTE--EEKN  263 (338)
T ss_dssp             HHTCSSSCCHHHHHHHHHHHHHSCH-HHHHTCCHHHHHHHHHHHTHHHHHHHHHHHTTTCCHHHHHHHHHHHHH--CTTC
T ss_pred             HHHHhcCCHHHHHHHHHHHHHHhcc-chhhhhcccHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCC
Confidence            3566789999999999997765332 22                 27889999999999999999999999885  35 5


Q ss_pred             hhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHH-HccCCHHHHHHHHHHHHhC
Q 039637           65 YNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHL-GKMRAHSEALSVYNMLRYS  129 (159)
Q Consensus        65 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~-~~~g~~~~a~~~~~~~~~~  129 (159)
                      ...|..+..++...|++++|...|++..+.. +-+...+..+.... ...+..+.+...|..+...
T Consensus       264 ~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~-p~~~~a~~~L~~l~~~~~~~~~~a~~~~~~~l~~  328 (338)
T 2if4_A          264 PKALFRRGKAKAELGQMDSARDDFRKAQKYA-PDDKAIRRELRALAEQEKALYQKQKEMYKGIFKG  328 (338)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHTTC-------------------------------------
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCC
Confidence            6788899999999999999999999987643 22444555555553 3346778888888888643

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.38  E-value=1.4e-05  Score=56.41  Aligned_cols=157  Identities=12%  Similarity=0.003  Sum_probs=110.9

Q ss_pred             hhHHHhcCCHHHHHHHHHHHHhCCCC-CCH----HHHHHHHHHHHhcCChHHHHHHHHHhHhc----CCCCC-hhhHHHH
Q 039637            2 ISAFCRSGCFEETKQLAGDFEAKYDK-YDV----VLLNSMLCAYCRTGDMESVMHVMRKLDEL----AISPD-YNTFHIL   71 (159)
Q Consensus         2 l~~~~~~~~~~~A~~~~~~~~~~~~~-~~~----~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~~~~~-~~~~~~l   71 (159)
                      ...|.+.|++++|.+.+....+.-.. ++.    .+.+.+-..+...|+++.+..++.+....    +..+. ..++..+
T Consensus        62 ~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~l  141 (434)
T 4b4t_Q           62 GQLYVTMGAKDKLREFIPHSTEYMMQFAKSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKL  141 (434)
T ss_dssp             HHHHHHHTCHHHHHHHHHHTHHHHHTSCHHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHH
Confidence            46788999999999999876542111 122    23344444555678999999998887643    22232 4567788


Q ss_pred             HHHHHccChHHHHHHHHHHHHHc----CCCC-cHHHHHHHHHHHHccCCHHHHHHHHHHHHhC----CCCCC--HHHHHH
Q 039637           72 IKYFCKEKMYMLAYRTMVDMHRK----GHQP-EEELCSSLIFHLGKMRAHSEALSVYNMLRYS----KRSMC--KALHEK  140 (159)
Q Consensus        72 l~~~~~~~~~~~a~~~~~~m~~~----g~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~~~--~~~~~~  140 (159)
                      ...+...|++++|..++.+....    +..+ ...++..++..|...|++++|...+++....    ..++.  ...+..
T Consensus       142 a~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~  221 (434)
T 4b4t_Q          142 ATLHYQKKQYKDSLALINDLLREFKKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLM  221 (434)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHH
T ss_pred             HHHHHHccChHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHH
Confidence            89999999999999999988743    1112 3557888999999999999999999876531    22222  245667


Q ss_pred             HHHHHHhcCcHHHHhhhh
Q 039637          141 ILHILISGKLLKDAYIVV  158 (159)
Q Consensus       141 l~~~~~~~g~~~~A~~~~  158 (159)
                      +...+...|++++|...|
T Consensus       222 ~g~~~~~~~~y~~A~~~~  239 (434)
T 4b4t_Q          222 SGILHCEDKDYKTAFSYF  239 (434)
T ss_dssp             HHHHTTSSSCHHHHHHHH
T ss_pred             HHHHHHHHHhHHHHHHHH
Confidence            777888889999987654

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.32  E-value=1.8e-05  Score=45.57  Aligned_cols=80  Identities=9%  Similarity=-0.004  Sum_probs=59.6

Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHH
Q 039637           13 ETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMH   92 (159)
Q Consensus        13 ~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~   92 (159)
                      +|.+.|+...+..+. +...|..+...+.+.|++++|...|++..+.. ..+...|..+..++...|++++|...+++..
T Consensus         3 ~a~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A            3 AITERLEAMLAQGTD-NMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             CHHHHHHHHHTTTCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCC-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            466777777766554 67788888888888888888888888887743 1235667777788888888888888888776


Q ss_pred             Hc
Q 039637           93 RK   94 (159)
Q Consensus        93 ~~   94 (159)
                      +.
T Consensus        81 ~~   82 (115)
T 2kat_A           81 AA   82 (115)
T ss_dssp             HH
T ss_pred             Hh
Confidence            53

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=98.32  E-value=4.6e-06  Score=51.23  Aligned_cols=99  Identities=13%  Similarity=0.036  Sum_probs=73.3

Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCh----------HHHHHHHHHhHhcCCCCC-hhhHHHHHHH
Q 039637            6 CRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDM----------ESVMHVMRKLDELAISPD-YNTFHILIKY   74 (159)
Q Consensus         6 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~----------~~a~~~~~~m~~~~~~~~-~~~~~~ll~~   74 (159)
                      -+.+++++|.+.++...+..+. +...|+.+-.++.+.+++          ++|+..|++..+  +.|+ ...|..+-.+
T Consensus        13 ~r~~~feeA~~~~~~Ai~l~P~-~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~--ldP~~~~A~~~LG~a   89 (158)
T 1zu2_A           13 DRILLFEQIRQDAENTYKSNPL-DADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALL--IDPKKDEAVWCIGNA   89 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHH--hCcCcHHHHHHHHHH
Confidence            4557789999999998887766 888888888888887765          488888888887  4564 5677778888


Q ss_pred             HHccC-----------hHHHHHHHHHHHHHcCCCCcHHHHHHHHHH
Q 039637           75 FCKEK-----------MYMLAYRTMVDMHRKGHQPEEELCSSLIFH  109 (159)
Q Consensus        75 ~~~~~-----------~~~~a~~~~~~m~~~g~~~~~~~~~~li~~  109 (159)
                      |...|           ++++|++.|++.++.  .|+...|...+..
T Consensus        90 y~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l--~P~~~~y~~al~~  133 (158)
T 1zu2_A           90 YTSFAFLTPDETEAKHNFDLATQFFQQAVDE--QPDNTHYLKSLEM  133 (158)
T ss_dssp             HHHHHHHCCCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             HHHhcccCcchhhhhccHHHHHHHHHHHHHh--CCCCHHHHHHHHH
Confidence            87764           778888888777764  4555555444443

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.19  E-value=5.2e-05  Score=41.28  Aligned_cols=79  Identities=16%  Similarity=0.092  Sum_probs=42.2

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHH
Q 039637           30 VVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFH  109 (159)
Q Consensus        30 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~  109 (159)
                      ...|..+...+.+.|++++|...|++..+.. +.+...+..+..++...|++++|...+++..+.. +.+...+..+...
T Consensus         9 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~   86 (91)
T 1na3_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAKQNLGNA   86 (91)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCHHHHHHHHHH
Confidence            4455556666666666666666666665532 1234455555556666666666666666655542 1233344444433


Q ss_pred             H
Q 039637          110 L  110 (159)
Q Consensus       110 ~  110 (159)
                      +
T Consensus        87 ~   87 (91)
T 1na3_A           87 K   87 (91)
T ss_dssp             H
T ss_pred             H
Confidence            3

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.17  E-value=1.7e-05  Score=44.92  Aligned_cols=93  Identities=11%  Similarity=-0.011  Sum_probs=63.0

Q ss_pred             ChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCC------HHH
Q 039637           64 DYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMC------KAL  137 (159)
Q Consensus        64 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~------~~~  137 (159)
                      +...+..+...+...|++++|.+.+++..+.. +.++..+..+..++.+.|++++|...+++..... +.+      ...
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~   80 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYT-STAEHVAIRSKL   80 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSC-SSTTSHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCccHHHHHHHH
Confidence            34556667777777888888888887777653 3356677777777888888888888887776532 222      455


Q ss_pred             HHHHHHHHHhcCcHHHHhhhh
Q 039637          138 HEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus       138 ~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      +..+..++...|+.++|...+
T Consensus        81 ~~~~~~~~~~~~~~~~a~~~~  101 (111)
T 2l6j_A           81 QYRLELAQGAVGSVQIPVVEV  101 (111)
T ss_dssp             HHHHHHHHHHHHCCCCCSSSS
T ss_pred             HHHHHHHHHHHHhHhhhHhHH
Confidence            666667777777766665543

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.16  E-value=5.8e-05  Score=41.08  Aligned_cols=82  Identities=12%  Similarity=-0.045  Sum_probs=65.6

Q ss_pred             hhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 039637           65 YNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHI  144 (159)
Q Consensus        65 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  144 (159)
                      ...+..+...+...|++++|...+++..+.. +.+...+..+...+.+.|++++|...+++..... +.+...+..+...
T Consensus         9 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~   86 (91)
T 1na3_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAKQNLGNA   86 (91)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCHHHHHHHHHH
Confidence            4567778888999999999999999998764 3467788899999999999999999999887643 3456666666666


Q ss_pred             HHhc
Q 039637          145 LISG  148 (159)
Q Consensus       145 ~~~~  148 (159)
                      +.+.
T Consensus        87 ~~~~   90 (91)
T 1na3_A           87 KQKQ   90 (91)
T ss_dssp             HHHH
T ss_pred             HHhc
Confidence            6554

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.11  E-value=3.9e-05  Score=44.08  Aligned_cols=100  Identities=7%  Similarity=-0.072  Sum_probs=74.2

Q ss_pred             HHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHH
Q 039637           48 SVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLR  127 (159)
Q Consensus        48 ~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~  127 (159)
                      +++..|++..+.. +.+...+..+...+...|++++|+..+++..+.. +.+...+..+..+|...|++++|...|++..
T Consensus         3 ~a~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A            3 AITERLEAMLAQG-TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             CHHHHHHHHHTTT-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            5677788877642 2346778888899999999999999999999864 3467788899999999999999999999876


Q ss_pred             hCC-CCCCHHHHHHHHHHHHhcC
Q 039637          128 YSK-RSMCKALHEKILHILISGK  149 (159)
Q Consensus       128 ~~~-~~~~~~~~~~l~~~~~~~g  149 (159)
                      ... ...+......+...+.+.+
T Consensus        81 ~~~~~~~~~~~~~~l~~~l~~l~  103 (115)
T 2kat_A           81 AAAQSRGDQQVVKELQVFLRRLA  103 (115)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHH
T ss_pred             HhccccccHHHHHHHHHHHHHhc
Confidence            532 1234444445544444433

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=98.11  E-value=0.00018  Score=43.05  Aligned_cols=105  Identities=11%  Similarity=-0.110  Sum_probs=84.7

Q ss_pred             cCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHc----cCCHHH
Q 039637           43 TGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGK----MRAHSE  118 (159)
Q Consensus        43 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~----~g~~~~  118 (159)
                      .+++++|...|++..+.|. |+..    |-..|...+..++|.++|++..+.|   ++..+..|...|..    .++.++
T Consensus         8 ~~d~~~A~~~~~~aa~~g~-~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~   79 (138)
T 1klx_A            8 KKDLKKAIQYYVKACELNE-MFGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRK   79 (138)
T ss_dssp             HHHHHHHHHHHHHHHHTTC-TTHH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHH
T ss_pred             ccCHHHHHHHHHHHHcCCC-Hhhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHH
Confidence            3568899999999998872 3333    6666777778888999999999875   55677778888887    899999


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCcHHHHhhhh
Q 039637          119 ALSVYNMLRYSKRSMCKALHEKILHILIS----GKLLKDAYIVV  158 (159)
Q Consensus       119 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~  158 (159)
                      |..+|++..+.+   +......+-..|..    .++.++|...|
T Consensus        80 A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~  120 (138)
T 1klx_A           80 AAQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTF  120 (138)
T ss_dssp             HHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHH
T ss_pred             HHHHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHH
Confidence            999999988764   45677788888888    89999998876

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.05  E-value=0.00098  Score=45.46  Aligned_cols=137  Identities=7%  Similarity=-0.080  Sum_probs=66.6

Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH----Hhc---CChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHH
Q 039637           10 CFEETKQLAGDFEAKYDKYDVVLLNSMLCAY----CRT---GDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYM   82 (159)
Q Consensus        10 ~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~----~~~---~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   82 (159)
                      ++++++++++.+...+++ +..+|+.--..+    ...   +++++++.+++++.+.. .-|...|+.--....+.+.++
T Consensus        84 ~~~eeL~~~~~~L~~nPk-~y~aW~~R~~iL~~~~~~l~~~~~~~~EL~~~~~~l~~~-pkny~aW~~R~~vl~~l~~~~  161 (306)
T 3dra_A           84 NLYDELDWCEEIALDNEK-NYQIWNYRQLIIGQIMELNNNDFDPYREFDILEAMLSSD-PKNHHVWSYRKWLVDTFDLHN  161 (306)
T ss_dssp             CHHHHHHHHHHHHHHCTT-CCHHHHHHHHHHHHHHHHTTTCCCTHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTT
T ss_pred             cHHHHHHHHHHHHHHCcc-cHHHHHHHHHHHHHHHHhccccCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcccC
Confidence            555555555555554444 444444333333    333   45555555555555532 224455554444444445554


Q ss_pred             --HHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCC------HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCc
Q 039637           83 --LAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRA------HSEALSVYNMLRYSKRSMCKALHEKILHILISGKL  150 (159)
Q Consensus        83 --~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  150 (159)
                        ++++++.++.+... -|...|+.-...+...+.      ++++...+++..... +-|...|+..-..+.+.|+
T Consensus       162 ~~~EL~~~~~~i~~d~-~N~sAW~~R~~ll~~l~~~~~~~~~~eEl~~~~~aI~~~-p~n~SaW~y~~~ll~~~~~  235 (306)
T 3dra_A          162 DAKELSFVDKVIDTDL-KNNSAWSHRFFLLFSKKHLATDNTIDEELNYVKDKIVKC-PQNPSTWNYLLGIHERFDR  235 (306)
T ss_dssp             CHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHSSGGGCCHHHHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTC
T ss_pred             hHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhccccchhhhHHHHHHHHHHHHHhC-CCCccHHHHHHHHHHhcCC
Confidence              55555555555432 344455444444444444      555555555554422 2344555555555555554

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=98.01  E-value=0.00059  Score=50.46  Aligned_cols=135  Identities=10%  Similarity=-0.008  Sum_probs=107.2

Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC----------hHHHHHHHHHhHhcCCCCChhhHHHHHHHHHcc
Q 039637            9 GCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGD----------MESVMHVMRKLDELAISPDYNTFHILIKYFCKE   78 (159)
Q Consensus         9 ~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~----------~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~   78 (159)
                      ...++|++.++.+.+.++. +..+|+.--.++...|+          ++++++.++++.+.. .-+..+|+.--.++.+.
T Consensus        43 ~~~eeal~~~~~~l~~nP~-~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~-pK~y~aW~hR~w~l~~l  120 (567)
T 1dce_A           43 ELDESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRL  120 (567)
T ss_dssp             CCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTC
T ss_pred             CCCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHc
Confidence            3456789999999987776 77888877777777776          899999999999854 24578888888888888


Q ss_pred             C--hHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccC-CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 039637           79 K--MYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMR-AHSEALSVYNMLRYSKRSMCKALHEKILHILIS  147 (159)
Q Consensus        79 ~--~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  147 (159)
                      +  +++++++.++++.+.. +-+..+|+--...+.+.| ..+++.+.++++.... +-+...|+.....+.+
T Consensus       121 ~~~~~~~el~~~~k~l~~d-~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~-p~n~saW~~r~~ll~~  190 (567)
T 1dce_A          121 PEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQ  190 (567)
T ss_dssp             SSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHHHHH
T ss_pred             ccccHHHHHHHHHHHHhhc-cccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHC-CCCccHHHHHHHHHHh
Confidence            8  7799999999999875 347888887777778888 8999999999888644 3466777776666665

>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=97.95  E-value=0.00012  Score=52.28  Aligned_cols=91  Identities=5%  Similarity=-0.103  Sum_probs=71.5

Q ss_pred             HHHHHhcCChHHHHHHHHHhHhcC---CCCC----hhhHHHHHHHHHccChHHHHHHHHHHHHH-----cC-CCC-cHHH
Q 039637           37 LCAYCRTGDMESVMHVMRKLDELA---ISPD----YNTFHILIKYFCKEKMYMLAYRTMVDMHR-----KG-HQP-EEEL  102 (159)
Q Consensus        37 l~~~~~~~~~~~a~~~~~~m~~~~---~~~~----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~-----~g-~~~-~~~~  102 (159)
                      +..+.+.|++++|+.++++..+..   +.|+    ..+++.+...|..+|++++|+.++++.+.     .| ..| ...+
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            555678899999999999988641   2232    46788999999999999999999988773     22 223 3457


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHH
Q 039637          103 CSSLIFHLGKMRAHSEALSVYNMLR  127 (159)
Q Consensus       103 ~~~li~~~~~~g~~~~a~~~~~~~~  127 (159)
                      ++.|...|...|++++|..++++..
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            7899999999999999999988665

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.93  E-value=7.9e-05  Score=41.43  Aligned_cols=54  Identities=19%  Similarity=0.140  Sum_probs=33.2

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHH-HHHHHHHHHHhcCChHHHHHHHHHhHh
Q 039637            4 AFCRSGCFEETKQLAGDFEAKYDKYDVV-LLNSMLCAYCRTGDMESVMHVMRKLDE   58 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~-~~~~ll~~~~~~~~~~~a~~~~~~m~~   58 (159)
                      .+.+.|++++|.+.|+...+..+. +.. .|..+..++.+.|++++|...|++..+
T Consensus         9 ~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~   63 (99)
T 2kc7_A            9 ELINQGDIENALQALEEFLQTEPV-GKDEAYYLMGNAYRKLGDWQKALNNYQSAIE   63 (99)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHCSS-THHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            455566666666666666655433 445 666666666666666666666666665

>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=97.90  E-value=0.00014  Score=52.06  Aligned_cols=87  Identities=3%  Similarity=-0.110  Sum_probs=68.1

Q ss_pred             hcCChHHHHHHHHHhHhc---CCCCC----hhhHHHHHHHHHccChHHHHHHHHHHHHH-----cC-CCCc-HHHHHHHH
Q 039637           42 RTGDMESVMHVMRKLDEL---AISPD----YNTFHILIKYFCKEKMYMLAYRTMVDMHR-----KG-HQPE-EELCSSLI  107 (159)
Q Consensus        42 ~~~~~~~a~~~~~~m~~~---~~~~~----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~-----~g-~~~~-~~~~~~li  107 (159)
                      ..|++++|+.++++..+.   -+-|+    ..+++.|..+|..+|++++|+.++++.++     .| ..|+ ..+++.|.
T Consensus       310 ~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa  389 (433)
T 3qww_A          310 HYKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLG  389 (433)
T ss_dssp             TTSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHH
Confidence            357899999999887753   22233    47788999999999999999999988873     23 2233 45788999


Q ss_pred             HHHHccCCHHHHHHHHHHHHh
Q 039637          108 FHLGKMRAHSEALSVYNMLRY  128 (159)
Q Consensus       108 ~~~~~~g~~~~a~~~~~~~~~  128 (159)
                      ..|...|++++|..++++...
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHH
Confidence            999999999999999987653

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.89  E-value=0.00013  Score=40.98  Aligned_cols=63  Identities=14%  Similarity=0.056  Sum_probs=45.1

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCC-ChhhHHHHHHHHHccChHHHHHHHHHHHHH
Q 039637           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP-DYNTFHILIKYFCKEKMYMLAYRTMVDMHR   93 (159)
Q Consensus        29 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~   93 (159)
                      +...|..+...|.+.|++++|+..|++..+..  | +...|..+..++...|++++|.+.+++..+
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETD--PDYVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            56677777777777777777777777777643  3 345666777777777777777777776654

>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=0.00026  Score=39.70  Aligned_cols=85  Identities=9%  Similarity=-0.047  Sum_probs=60.0

Q ss_pred             ChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhC-CCCCCHHHHHHHH
Q 039637           64 DYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYS-KRSMCKALHEKIL  142 (159)
Q Consensus        64 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-~~~~~~~~~~~l~  142 (159)
                      +...+..+..++...|++++|+..|++..+.. +.+...|..+..+|...|++++|...|++.... ...++......+.
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            45667778888888888888888888888764 235667888888888888888888888876642 2234555555555


Q ss_pred             HHHHhcC
Q 039637          143 HILISGK  149 (159)
Q Consensus       143 ~~~~~~g  149 (159)
                      ..+.+.+
T Consensus        85 ~~l~~~~   91 (100)
T 3ma5_A           85 DAKLKAE   91 (100)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHcc
Confidence            5554443

>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=0.00018  Score=51.38  Aligned_cols=91  Identities=12%  Similarity=0.029  Sum_probs=71.3

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhC-----CCC-CC-HHHHHHHHHHHHhcCChHHHHHHHHHhHhc-----C-CCCC-hhhH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAK-----YDK-YD-VVLLNSMLCAYCRTGDMESVMHVMRKLDEL-----A-ISPD-YNTF   68 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~-----~~~-~~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-----~-~~~~-~~~~   68 (159)
                      ..+.+.|++++|.+.+++..+.     |.. |+ ..+++.+..+|...|++++|+.++.+....     | --|+ ..++
T Consensus       295 e~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l  374 (429)
T 3qwp_A          295 EELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQV  374 (429)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHH
T ss_pred             HHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHH
Confidence            4466789999999999988643     222 22 357899999999999999999999987753     2 1233 4678


Q ss_pred             HHHHHHHHccChHHHHHHHHHHHHH
Q 039637           69 HILIKYFCKEKMYMLAYRTMVDMHR   93 (159)
Q Consensus        69 ~~ll~~~~~~~~~~~a~~~~~~m~~   93 (159)
                      +.|-..|..+|++++|+.++++..+
T Consensus       375 ~nLa~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          375 MKVGKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            8899999999999999999888763

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=97.83  E-value=0.0024  Score=46.43  Aligned_cols=79  Identities=9%  Similarity=0.050  Sum_probs=40.9

Q ss_pred             ccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccC-CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHh
Q 039637           77 KEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMR-AHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAY  155 (159)
Q Consensus        77 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  155 (159)
                      +.+..+.|..+|+.. +.. ..+...|......-...+ +.+.|..+|+.....- +-+...+...++...+.|+.+.|.
T Consensus       298 r~~~~~~AR~i~~~A-~~~-~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~-~~~~~~~~~yid~e~~~~~~~~aR  374 (493)
T 2uy1_A          298 KKRGLELFRKLFIEL-GNE-GVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLKH-PDSTLLKEEFFLFLLRIGDEENAR  374 (493)
T ss_dssp             HHHCHHHHHHHHHHH-TTS-CCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HcCCHHHHHHHHHHh-hCC-CCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHH
Confidence            345566677777666 221 123334432222222223 5777777777665422 223344455566666677777766


Q ss_pred             hhh
Q 039637          156 IVV  158 (159)
Q Consensus       156 ~~~  158 (159)
                      .+|
T Consensus       375 ~l~  377 (493)
T 2uy1_A          375 ALF  377 (493)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            554

>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=97.83  E-value=0.00013  Score=52.16  Aligned_cols=86  Identities=9%  Similarity=0.011  Sum_probs=68.2

Q ss_pred             cCCHHHHHHHHHHHHhC-----CCC-CC-HHHHHHHHHHHHhcCChHHHHHHHHHhHhc-----CC-CCC-hhhHHHHHH
Q 039637            8 SGCFEETKQLAGDFEAK-----YDK-YD-VVLLNSMLCAYCRTGDMESVMHVMRKLDEL-----AI-SPD-YNTFHILIK   73 (159)
Q Consensus         8 ~~~~~~A~~~~~~~~~~-----~~~-~~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-----~~-~~~-~~~~~~ll~   73 (159)
                      .|++++|.+++++..+.     |+. |+ ..+++.|..+|...|++++|+.++++..+.     |- -|+ ..+++.|-.
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            47899999999876532     332 33 357999999999999999999999998753     21 233 467889999


Q ss_pred             HHHccChHHHHHHHHHHHHH
Q 039637           74 YFCKEKMYMLAYRTMVDMHR   93 (159)
Q Consensus        74 ~~~~~~~~~~a~~~~~~m~~   93 (159)
                      .|..+|++++|+.++++.++
T Consensus       391 ~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          391 LYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhccCHHHHHHHHHHHHH
Confidence            99999999999999988763

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A*

Probab=97.82  E-value=0.0027  Score=44.06  Aligned_cols=147  Identities=9%  Similarity=0.009  Sum_probs=109.5

Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC-ChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHcc-C-hHHH
Q 039637            7 RSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTG-DMESVMHVMRKLDELAISPDYNTFHILIKYFCKE-K-MYML   83 (159)
Q Consensus         7 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~-~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~-~-~~~~   83 (159)
                      +.+..++|+++++.+...++. +..+|+.--..+...| .+++++.+++.+.... .-+..+|+.--..+.+. + ++++
T Consensus        66 ~~e~se~AL~lt~~~L~~nP~-~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n-PKny~aW~hR~wlL~~l~~~~~~~  143 (349)
T 3q7a_A           66 KEEKSERALELTEIIVRMNPA-HYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN-LKSYQVWHHRLLLLDRISPQDPVS  143 (349)
T ss_dssp             TTCCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHHHCCSCCHH
T ss_pred             hCCCCHHHHHHHHHHHHhCch-hHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhcCCChHH
Confidence            345567899999999988776 7888998888888888 5999999999999853 23567777666666655 6 7889


Q ss_pred             HHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHH--------HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCc-----
Q 039637           84 AYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHS--------EALSVYNMLRYSKRSMCKALHEKILHILISGKL-----  150 (159)
Q Consensus        84 a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~--------~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-----  150 (159)
                      ++++++.+.+.. +-+..+|+--...+.+.|..+        ++...++++..... -|...|+.-...+.+.+.     
T Consensus       144 EL~~~~k~L~~d-pkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp-~N~SAW~~R~~lL~~l~~~~~~~  221 (349)
T 3q7a_A          144 EIEYIHGSLLPD-PKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDG-RNNSAWGWRWYLRVSRPGAETSS  221 (349)
T ss_dssp             HHHHHHHHTSSC-TTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHTTSTTCCCCH
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhccccccch
Confidence            999999999764 347778876555555555555        89999998887543 366777777777777665     


Q ss_pred             --HHHHhhh
Q 039637          151 --LKDAYIV  157 (159)
Q Consensus       151 --~~~A~~~  157 (159)
                        ++++++.
T Consensus       222 ~~~~eELe~  230 (349)
T 3q7a_A          222 RSLQDELIY  230 (349)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence              5565554

>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=97.81  E-value=0.00012  Score=44.88  Aligned_cols=103  Identities=9%  Similarity=-0.044  Sum_probs=79.7

Q ss_pred             HhcCChHHHHHHHHHhHhcCCCC-ChhhHHHHHHHHHccChH----------HHHHHHHHHHHHcCCCCcHHHHHHHHHH
Q 039637           41 CRTGDMESVMHVMRKLDELAISP-DYNTFHILIKYFCKEKMY----------MLAYRTMVDMHRKGHQPEEELCSSLIFH  109 (159)
Q Consensus        41 ~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~~~~----------~~a~~~~~~m~~~g~~~~~~~~~~li~~  109 (159)
                      .+.+.+++|...++...+.  .| +...|..+-.++...+++          ++|+..|++.++.. +-+..+|..+..+
T Consensus        13 ~r~~~feeA~~~~~~Ai~l--~P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ld-P~~~~A~~~LG~a   89 (158)
T 1zu2_A           13 DRILLFEQIRQDAENTYKS--NPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNA   89 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhC-cCcHHHHHHHHHH
Confidence            4567789999999999885  45 567888788888887764          59999999999864 2367789999999


Q ss_pred             HHccC-----------CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 039637          110 LGKMR-----------AHSEALSVYNMLRYSKRSMCKALHEKILHILISG  148 (159)
Q Consensus       110 ~~~~g-----------~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  148 (159)
                      |...|           ++++|...|++..+.  .|+...|...+...-+.
T Consensus        90 y~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l--~P~~~~y~~al~~~~ka  137 (158)
T 1zu2_A           90 YTSFAFLTPDETEAKHNFDLATQFFQQAVDE--QPDNTHYLKSLEMTAKA  137 (158)
T ss_dssp             HHHHHHHCCCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHTH
T ss_pred             HHHhcccCcchhhhhccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHhC
Confidence            98874           899999999998864  46666777666655443

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=97.80  E-value=0.0009  Score=49.50  Aligned_cols=139  Identities=4%  Similarity=-0.097  Sum_probs=109.6

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC--ChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccC-hHHHHHHH
Q 039637           11 FEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTG--DMESVMHVMRKLDELAISPDYNTFHILIKYFCKEK-MYMLAYRT   87 (159)
Q Consensus        11 ~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~--~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~-~~~~a~~~   87 (159)
                      ++++++.++.+.+..++ +..+|+.-..++.+.+  +++++++.++++.+.. .-|...|+.--....+.| .++++++.
T Consensus        89 ~~~eL~~~~~~l~~~pK-~y~aW~hR~w~l~~l~~~~~~~el~~~~k~l~~d-~~N~~aW~~R~~~l~~l~~~~~~el~~  166 (567)
T 1dce_A           89 VKAELGFLESCLRVNPK-SYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAF  166 (567)
T ss_dssp             HHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcccccHHHHHHHHHHHHhhc-cccccHHHHHHHHHHHcCCChHHHHHH
Confidence            89999999999988877 9999999999999999  6799999999999964 246788887777777888 88999999


Q ss_pred             HHHHHHcCCCCcHHHHHHHHHHHHcc--------------CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHH
Q 039637           88 MVDMHRKGHQPEEELCSSLIFHLGKM--------------RAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKD  153 (159)
Q Consensus        88 ~~~m~~~g~~~~~~~~~~li~~~~~~--------------g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  153 (159)
                      +.++.+.. +-+..+|+.....+.+.              +.++++.+.+++..... |-+...|...-..+.+.++.++
T Consensus       167 ~~~~I~~~-p~n~saW~~r~~ll~~l~~~~~~~~~~~~~~~~~~eel~~~~~ai~~~-P~~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          167 TDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             HHTTTTTT-CCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHHHHHHHHHHHHHHHHC-SSCSHHHHHHHHHHSCCCCCSC
T ss_pred             HHHHHHHC-CCCccHHHHHHHHHHhhcccccccccccccHHHHHHHHHHHHHHHhhC-CCCccHHHHHHHHHhcCCCccc
Confidence            99998765 34777887666665552              66899999998777533 4456677777777777666433

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.78  E-value=0.00094  Score=50.82  Aligned_cols=131  Identities=8%  Similarity=-0.083  Sum_probs=72.2

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHH
Q 039637            5 FCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLA   84 (159)
Q Consensus         5 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   84 (159)
                      ..+.|++++|.++.+.+      .+...|..+...+.+.++++.|.++|.++..         |..+...+...++.+..
T Consensus       662 ~l~~~~~~~A~~~~~~~------~~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~  726 (814)
T 3mkq_A          662 ALKVGQLTLARDLLTDE------SAEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGL  726 (814)
T ss_dssp             HHHHTCHHHHHHHHTTC------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHH
T ss_pred             hhhcCCHHHHHHHHHhh------CcHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHH
Confidence            34556666666653222      3677888888888888888888888887643         33344444445555555


Q ss_pred             HHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhC--------CCCCCH----HHHHHHHHHHHhcCcHH
Q 039637           85 YRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYS--------KRSMCK----ALHEKILHILISGKLLK  152 (159)
Q Consensus        85 ~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~--------~~~~~~----~~~~~l~~~~~~~g~~~  152 (159)
                      .++-+.....|.      ++....+|.+.|++++|.+++.++...        ...|..    .+....-..+...|+.+
T Consensus       727 ~~~~~~a~~~~~------~~~A~~~~~~~g~~~~a~~~~~~~~~~~~A~~lA~~~~~~~~~i~~~~~~~~~~L~~~~~~~  800 (814)
T 3mkq_A          727 VTLAKDAETTGK------FNLAFNAYWIAGDIQGAKDLLIKSQRFSEAAFLGSTYGLGDNEVNDIVTKWKENLILNGKNT  800 (814)
T ss_dssp             HHHHHHHHHTTC------HHHHHHHHHHHTCHHHHHHHHHHTTCHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHTTTCHH
T ss_pred             HHHHHHHHHcCc------hHHHHHHHHHcCCHHHHHHHHHHcCChHHHHHHHHHhCCChHHHHHHHHHHHHHHHhccchh
Confidence            544444444332      222333344455555555555444311        123344    44445555666777655


Q ss_pred             HHhh
Q 039637          153 DAYI  156 (159)
Q Consensus       153 ~A~~  156 (159)
                      .|..
T Consensus       801 ~a~~  804 (814)
T 3mkq_A          801 VSER  804 (814)
T ss_dssp             HHTT
T ss_pred             HHHh
Confidence            4443

>3dss_A Geranylgeranyl transferase type-2 subunit alpha; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} PDB: 3dst_A* 3dsu_A* 3dsv_A* 3dsw_A* 3dsx_A* 3hxb_A* 3hxc_A* 3hxd_A* 3hxe_A* 3hxf_A* 3pz1_A* 3pz2_A* 3pz3_A* 3c72_A* 4gtv_A* 4gts_A* 4ehm_A* 4gtt_A*

Probab=97.75  E-value=0.0041  Score=42.88  Aligned_cols=134  Identities=5%  Similarity=-0.065  Sum_probs=100.8

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC--ChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccCh-HHHHHHH
Q 039637           11 FEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTG--DMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKM-YMLAYRT   87 (159)
Q Consensus        11 ~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~--~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~-~~~a~~~   87 (159)
                      +++++.+++.+....++ +..+|+.-...+.+.+  ++++++.+++++.+.. +-|...|+.--......|. ++++++.
T Consensus        90 l~~EL~~~~~~L~~~PK-ny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~d-prNy~AW~~R~~vl~~l~~~~~eel~~  167 (331)
T 3dss_A           90 VKAELGFLESCLRVNPK-SYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAF  167 (331)
T ss_dssp             HHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCC-CHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCcCHHHHHHH
Confidence            67899999999888776 9999998888888887  4899999999999864 3467788877777777787 6899999


Q ss_pred             HHHHHHcCCCCcHHHHHHHHHHHHcc--------------CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 039637           88 MVDMHRKGHQPEEELCSSLIFHLGKM--------------RAHSEALSVYNMLRYSKRSMCKALHEKILHILISG  148 (159)
Q Consensus        88 ~~~m~~~g~~~~~~~~~~li~~~~~~--------------g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  148 (159)
                      +..+.+.. +-|..+|+.....+.+.              +.++++...++..... .|-|...|+.+-..+.+.
T Consensus       168 ~~~~I~~~-p~N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~-~P~d~SaW~Y~r~ll~~~  240 (331)
T 3dss_A          168 TDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFT-DPNDQSAWFYHRWLLGAG  240 (331)
T ss_dssp             HHHHHHHC-SCCHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHH-STTCHHHHHHHHHHHHSS
T ss_pred             HHHHHHHC-CCCHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHhc
Confidence            99999875 34777776655555444              5688899999877753 344666666554444444

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=97.74  E-value=0.0029  Score=46.00  Aligned_cols=117  Identities=11%  Similarity=0.097  Sum_probs=79.8

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHH--HHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHH
Q 039637           33 LNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFH--ILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHL  110 (159)
Q Consensus        33 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~--~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~  110 (159)
                      |...+....+.+..+.|..+|.+. ... .++...|.  +.+.... .++.+.|..+|+...+.. +-++..+...+...
T Consensus       289 w~~y~~~~~r~~~~~~AR~i~~~A-~~~-~~~~~v~i~~A~lE~~~-~~d~~~ar~ife~al~~~-~~~~~~~~~yid~e  364 (493)
T 2uy1_A          289 RINHLNYVLKKRGLELFRKLFIEL-GNE-GVGPHVFIYCAFIEYYA-TGSRATPYNIFSSGLLKH-PDSTLLKEEFFLFL  364 (493)
T ss_dssp             HHHHHHHHHHHHCHHHHHHHHHHH-TTS-CCCHHHHHHHHHHHHHH-HCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHh-hCC-CCChHHHHHHHHHHHHH-CCChHHHHHHHHHHHHHC-CCCHHHHHHHHHHH
Confidence            333444444567788899999988 321 12333333  2222222 236899999999988753 22355667778888


Q ss_pred             HccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637          111 GKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus       111 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      .+.|+.+.|..+|+.+.     .+...|...+..=...|+.+.+..++
T Consensus       365 ~~~~~~~~aR~l~er~~-----k~~~lw~~~~~fE~~~G~~~~~r~v~  407 (493)
T 2uy1_A          365 LRIGDEENARALFKRLE-----KTSRMWDSMIEYEFMVGSMELFRELV  407 (493)
T ss_dssp             HHHTCHHHHHHHHHHSC-----CBHHHHHHHHHHHHHHSCHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHH-----HHHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            88999999999999873     25778888888888889988887765

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.72  E-value=0.0005  Score=38.03  Aligned_cols=58  Identities=10%  Similarity=0.175  Sum_probs=40.1

Q ss_pred             HHHHHHhcCChHHHHHHHHHhHhcCCCCC-hh-hHHHHHHHHHccChHHHHHHHHHHHHHcC
Q 039637           36 MLCAYCRTGDMESVMHVMRKLDELAISPD-YN-TFHILIKYFCKEKMYMLAYRTMVDMHRKG   95 (159)
Q Consensus        36 ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~-~~~~ll~~~~~~~~~~~a~~~~~~m~~~g   95 (159)
                      ....+.+.|++++|...|++..+.  .|+ .. .+..+-.++...|++++|.+.|++..+..
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~   65 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQT--EPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELN   65 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHH--CSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            345566777788888888777764  343 34 66667777777777888877777777653

>3dss_A Geranylgeranyl transferase type-2 subunit alpha; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} PDB: 3dst_A* 3dsu_A* 3dsv_A* 3dsw_A* 3dsx_A* 3hxb_A* 3hxc_A* 3hxd_A* 3hxe_A* 3hxf_A* 3pz1_A* 3pz2_A* 3pz3_A* 3c72_A* 4gtv_A* 4gts_A* 4ehm_A* 4gtt_A*

Probab=97.63  E-value=0.0065  Score=41.90  Aligned_cols=138  Identities=9%  Similarity=0.013  Sum_probs=98.6

Q ss_pred             hcCCH-HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC----------hHHHHHHHHHhHhcCCCCChhhHHHHHHHH
Q 039637            7 RSGCF-EETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGD----------MESVMHVMRKLDELAISPDYNTFHILIKYF   75 (159)
Q Consensus         7 ~~~~~-~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~----------~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~   75 (159)
                      +.|.+ ++|++.++.+...+|. +..+|+.--..+...+.          +++++.+++.+.... +-+..+|+.--..+
T Consensus        41 ~~~e~s~eaL~~t~~~L~~nP~-~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~-PKny~aW~hR~wlL  118 (331)
T 3dss_A           41 QAGELDESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLL  118 (331)
T ss_dssp             HTTCCSHHHHHHHHHHHTTCTT-CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HcCCCCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            34443 4799999999987766 66777755544444333          678899999988753 24677887777777


Q ss_pred             HccC--hHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCC-HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 039637           76 CKEK--MYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRA-HSEALSVYNMLRYSKRSMCKALHEKILHILISG  148 (159)
Q Consensus        76 ~~~~--~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  148 (159)
                      .+.+  .+++++.+++.+.+.. +-|..+|+--.......|. ++++...++++.... +-|...|+.....+.+.
T Consensus       119 ~~l~~~~~~~EL~~~~k~l~~d-prNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~-p~N~SAW~~R~~ll~~l  192 (331)
T 3dss_A          119 SRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQL  192 (331)
T ss_dssp             HHCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHH
T ss_pred             hccCcccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHh
Confidence            7777  4899999999999874 4577888776666777787 689999999888754 33566666665555544

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A*

Probab=97.58  E-value=0.0081  Score=41.71  Aligned_cols=140  Identities=11%  Similarity=-0.026  Sum_probs=107.4

Q ss_pred             hcC-CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc-C-ChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHH-
Q 039637            7 RSG-CFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRT-G-DMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYM-   82 (159)
Q Consensus         7 ~~~-~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~-~-~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~-   82 (159)
                      ..| .+++++++++.+....++ +..+|+.--..+.+. + ++++++++++++.+.. .-|...|+.-.....+.+.++ 
T Consensus       100 ~l~~~l~eEL~~~~~~L~~nPK-ny~aW~hR~wlL~~l~~~~~~~EL~~~~k~L~~d-pkNy~AW~~R~wvl~~l~~~~~  177 (349)
T 3q7a_A          100 SLNKSLEDELRLMNEFAVQNLK-SYQVWHHRLLLLDRISPQDPVSEIEYIHGSLLPD-PKNYHTWAYLHWLYSHFSTLGR  177 (349)
T ss_dssp             HTTCCHHHHHHHHHHHHHTTCC-CHHHHHHHHHHHHHHCCSCCHHHHHHHHHHTSSC-TTCHHHHHHHHHHHHHHHHTTC
T ss_pred             HhhhhHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccccc
Confidence            345 599999999999988877 899999888888776 7 8999999999998753 346677776666665556665 


Q ss_pred             -------HHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCC-------HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 039637           83 -------LAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRA-------HSEALSVYNMLRYSKRSMCKALHEKILHILISG  148 (159)
Q Consensus        83 -------~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~-------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  148 (159)
                             ++++...++.+... -|..+|+-....+.+.+.       ++++...+++.... .+-|...|+.+-..+.+.
T Consensus       178 ~~~~~~~eELe~~~k~I~~dp-~N~SAW~~R~~lL~~l~~~~~~~~~~~eELe~~~~aI~~-~P~n~SaW~Ylr~Ll~~~  255 (349)
T 3q7a_A          178 ISEAQWGSELDWCNEMLRVDG-RNNSAWGWRWYLRVSRPGAETSSRSLQDELIYILKSIHL-IPHNVSAWNYLRGFLKHF  255 (349)
T ss_dssp             CCHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHTTSTTCCCCHHHHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHT
T ss_pred             cchhhHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhccccccchHHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHhc
Confidence                   88999999998753 577888877777777775       78899888877753 344677777766666665


Q ss_pred             Cc
Q 039637          149 KL  150 (159)
Q Consensus       149 g~  150 (159)
                      |+
T Consensus       256 ~~  257 (349)
T 3q7a_A          256 SL  257 (349)
T ss_dssp             TC
T ss_pred             CC
Confidence            54

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=97.56  E-value=0.0047  Score=43.16  Aligned_cols=61  Identities=10%  Similarity=-0.185  Sum_probs=28.3

Q ss_pred             hhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHH
Q 039637           65 YNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLR  127 (159)
Q Consensus        65 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~  127 (159)
                      ..+|..+...+...|++++|...+++....+  |+...|..+...+.-.|++++|...|++..
T Consensus       277 a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~Al  337 (372)
T 3ly7_A          277 SIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAF  337 (372)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            3444444333444455555555555554443  344444444444444555555555554433

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=97.40  E-value=0.0019  Score=39.33  Aligned_cols=81  Identities=11%  Similarity=-0.001  Sum_probs=37.5

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC---ChHHHHHHHHHhHhcCCCC--ChhhHHHHHHHHHccChHHHHH
Q 039637           11 FEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTG---DMESVMHVMRKLDELAISP--DYNTFHILIKYFCKEKMYMLAY   85 (159)
Q Consensus        11 ~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~---~~~~a~~~~~~m~~~~~~~--~~~~~~~ll~~~~~~~~~~~a~   85 (159)
                      ...+.+.|.+-.+.+. ++..+.-.+..++++.+   +.+++..+|....+.. .|  +...+-.+--++.+.|++++|+
T Consensus        14 l~~~~~~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A~   91 (152)
T 1pc2_A           14 LLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKAL   91 (152)
T ss_dssp             HHHHHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHHH
T ss_pred             HHHHHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHHH
Confidence            3344444444444333 34444444555555544   3345555555555432 12  1222223444445555555555


Q ss_pred             HHHHHHHH
Q 039637           86 RTMVDMHR   93 (159)
Q Consensus        86 ~~~~~m~~   93 (159)
                      ++++.+++
T Consensus        92 ~y~~~lL~   99 (152)
T 1pc2_A           92 KYVRGLLQ   99 (152)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            55555554

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=97.40  E-value=0.0038  Score=43.61  Aligned_cols=129  Identities=8%  Similarity=-0.089  Sum_probs=87.4

Q ss_pred             CCCCHHHHHHHHHHHHh--cC---ChHHHHHHHHHhHhcCCCCCh-hhHHHHHHHHHcc---C-----hHHHHHHHHHHH
Q 039637           26 DKYDVVLLNSMLCAYCR--TG---DMESVMHVMRKLDELAISPDY-NTFHILIKYFCKE---K-----MYMLAYRTMVDM   91 (159)
Q Consensus        26 ~~~~~~~~~~ll~~~~~--~~---~~~~a~~~~~~m~~~~~~~~~-~~~~~ll~~~~~~---~-----~~~~a~~~~~~m   91 (159)
                      ++.+...|...+++...  .+   +..+|..+|++..+  +.|+- ..|..+.-++...   +     ........+...
T Consensus       190 ~p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~--lDP~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~  267 (372)
T 3ly7_A          190 LPHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQ--SSPEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNI  267 (372)
T ss_dssp             SCSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHH
Confidence            34577888888876543  33   35789999999998  45763 4555444444311   0     111111122222


Q ss_pred             HH-cCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637           92 HR-KGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus        92 ~~-~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      .. ...+.++.++..+...+...|++++|...+++....+  |+...|..+-..+.-.|++++|.+.|
T Consensus       268 ~a~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~  333 (372)
T 3ly7_A          268 VTLPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAY  333 (372)
T ss_dssp             HTCGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HhcccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            11 1224577888888777888899999999999998765  78878888889999999999998865

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=97.26  E-value=0.0049  Score=34.75  Aligned_cols=63  Identities=6%  Similarity=-0.180  Sum_probs=27.3

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHhHhcC------CCCChhhHHHHHHHHHccChHHHHHHHHHHHHH
Q 039637           31 VLLNSMLCAYCRTGDMESVMHVMRKLDELA------ISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHR   93 (159)
Q Consensus        31 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~------~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~   93 (159)
                      ..+-.|...+.+.+++..|...|+...+.-      -.+....+..+..++.+.|+++.|...+++..+
T Consensus         6 ~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~   74 (104)
T 2v5f_A            6 EDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE   74 (104)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHh
Confidence            334444445555555555555554443320      011233344444444444444444444444443

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.17  E-value=0.0048  Score=46.99  Aligned_cols=102  Identities=12%  Similarity=0.098  Sum_probs=57.4

Q ss_pred             HhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcC-------CCCcHHHHHHHHHHHHcc
Q 039637           41 CRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKG-------HQPEEELCSSLIFHLGKM  113 (159)
Q Consensus        41 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g-------~~~~~~~~~~li~~~~~~  113 (159)
                      .+.|++++|.++.+.      -.+...|..+...+.+.++++.|+++|.++....       ..-+......+.......
T Consensus       663 l~~~~~~~A~~~~~~------~~~~~~W~~la~~al~~~~~~~A~~~y~~~~d~~~l~~l~~~~~~~~~~~~~~~~a~~~  736 (814)
T 3mkq_A          663 LKVGQLTLARDLLTD------ESAEMKWRALGDASLQRFNFKLAIEAFTNAHDLESLFLLHSSFNNKEGLVTLAKDAETT  736 (814)
T ss_dssp             HHHTCHHHHHHHHTT------CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTCHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             hhcCCHHHHHHHHHh------hCcHhHHHHHHHHHHHcCCHHHHHHHHHHccChhhhHHHHHHcCCHHHHHHHHHHHHHc
Confidence            345555555555432      2456788888888888888888888888764210       011222333444444445


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhh
Q 039637          114 RAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIV  157 (159)
Q Consensus       114 g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  157 (159)
                      |+.+.|...+-...         -+...++.|.+.+++++|..+
T Consensus       737 ~~~~~A~~~~~~~g---------~~~~a~~~~~~~~~~~~A~~l  771 (814)
T 3mkq_A          737 GKFNLAFNAYWIAG---------DIQGAKDLLIKSQRFSEAAFL  771 (814)
T ss_dssp             TCHHHHHHHHHHHT---------CHHHHHHHHHHTTCHHHHHHH
T ss_pred             CchHHHHHHHHHcC---------CHHHHHHHHHHcCChHHHHHH
Confidence            55555554443321         124556667777777777654

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.13  E-value=0.0075  Score=33.40  Aligned_cols=66  Identities=11%  Similarity=0.046  Sum_probs=41.8

Q ss_pred             CCHHHHHHHHHHHHhcCC---hHHHHHHHHHhHhcCCCCC-hhhHHHHHHHHHccChHHHHHHHHHHHHHcC
Q 039637           28 YDVVLLNSMLCAYCRTGD---MESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYMLAYRTMVDMHRKG   95 (159)
Q Consensus        28 ~~~~~~~~ll~~~~~~~~---~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g   95 (159)
                      .|+..+..+..++...++   .++|..++++..+.  .|+ ......+-..+.+.|++++|...|+.+++..
T Consensus         4 ~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~--dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~   73 (93)
T 3bee_A            4 VTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQL--EPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSN   73 (93)
T ss_dssp             CCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCC
T ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHH--CcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            356666666666654443   56777777777763  344 4455555566777777777777777777653

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=97.13  E-value=0.013  Score=35.60  Aligned_cols=82  Identities=10%  Similarity=0.005  Sum_probs=64.1

Q ss_pred             hHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccC---hHHHHHHHHHHHHHcCCCC--cHHHHHHHHHHHHccCCHHHHH
Q 039637           46 MESVMHVMRKLDELAISPDYNTFHILIKYFCKEK---MYMLAYRTMVDMHRKGHQP--EEELCSSLIFHLGKMRAHSEAL  120 (159)
Q Consensus        46 ~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~---~~~~a~~~~~~m~~~g~~~--~~~~~~~li~~~~~~g~~~~a~  120 (159)
                      ...+.+-|.+..+.|. ++..+...+-.++++.+   +.++++.+++.+.+.. .|  +...+-.+.-+|.+.|++++|.
T Consensus        14 l~~~~~~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A~   91 (152)
T 1pc2_A           14 LLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKAL   91 (152)
T ss_dssp             HHHHHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHHH
T ss_pred             HHHHHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHHH
Confidence            4556667776666655 67777777888999988   7779999999999875 34  3445556778889999999999


Q ss_pred             HHHHHHHhC
Q 039637          121 SVYNMLRYS  129 (159)
Q Consensus       121 ~~~~~~~~~  129 (159)
                      +.++.+.+.
T Consensus        92 ~y~~~lL~i  100 (152)
T 1pc2_A           92 KYVRGLLQT  100 (152)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHhc
Confidence            999999864

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=97.10  E-value=0.019  Score=35.79  Aligned_cols=101  Identities=9%  Similarity=0.049  Sum_probs=67.6

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHH
Q 039637            4 AFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYML   83 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~   83 (159)
                      ...+.|+++.|.++.+.+      -+...|..|.+...+.|+++-|.+.|.+...         +..+.-.|...|+.++
T Consensus        14 LAL~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~   78 (177)
T 3mkq_B           14 LALEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNK   78 (177)
T ss_dssp             HHHHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHH
T ss_pred             HHHhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHH
Confidence            457889999999997766      2788999999999999999999999988654         3334444555566655


Q ss_pred             HHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHH
Q 039637           84 AYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNM  125 (159)
Q Consensus        84 a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  125 (159)
                      ..++-+.....|.      ++.....+...|+++++.++|.+
T Consensus        79 L~kla~iA~~~g~------~n~af~~~l~lGdv~~~i~lL~~  114 (177)
T 3mkq_B           79 LSKMQNIAQTRED------FGSMLLNTFYNNSTKERSSIFAE  114 (177)
T ss_dssp             HHHHHHHHHHTTC------HHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHCcc------HHHHHHHHHHcCCHHHHHHHHHH
Confidence            5544444444431      23333334455666666665543

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=97.03  E-value=0.015  Score=39.27  Aligned_cols=112  Identities=6%  Similarity=-0.022  Sum_probs=82.1

Q ss_pred             CHHHHHHHHHHH-Hhc--CC------hHHHHHHHHHhHhcCCCCC---hhhHHHHHHHHHcc-----ChHHHHHHHHHHH
Q 039637           29 DVVLLNSMLCAY-CRT--GD------MESVMHVMRKLDELAISPD---YNTFHILIKYFCKE-----KMYMLAYRTMVDM   91 (159)
Q Consensus        29 ~~~~~~~ll~~~-~~~--~~------~~~a~~~~~~m~~~~~~~~---~~~~~~ll~~~~~~-----~~~~~a~~~~~~m   91 (159)
                      ....|..++.+- ...  |+      ...|..++++..+  +.|+   -..|..+...|.+.     |+.++|.+.|++.
T Consensus       153 e~L~W~ai~~ss~a~~~~gg~~Al~~l~~A~a~lerAle--LDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferA  230 (301)
T 3u64_A          153 GTLYWVGTGYVAAFALTPLGSALPDTVHAAVMMLERACD--LWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHL  230 (301)
T ss_dssp             HHHHHHHHHHHHHHTTSCTTSCCHHHHHHHHHHHHHHHH--HCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcCCCChHHHHhHHHHHHHHHHHHH--hCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHH
Confidence            345677666543 332  43      3567777777777  5676   45788888888884     9999999999999


Q ss_pred             HHcCCCCcHHHHHHHHHHHHcc-CCHHHHHHHHHHHHhCCCC--CCHHHHHHHH
Q 039637           92 HRKGHQPEEELCSSLIFHLGKM-RAHSEALSVYNMLRYSKRS--MCKALHEKIL  142 (159)
Q Consensus        92 ~~~g~~~~~~~~~~li~~~~~~-g~~~~a~~~~~~~~~~~~~--~~~~~~~~l~  142 (159)
                      ++.+..-+..++......+++. |+.+++.+.+++.......  |+....+..-
T Consensus       231 L~LnP~~~id~~v~YA~~l~~~~gd~~~a~~~L~kAL~a~p~~~P~~~lan~~~  284 (301)
T 3u64_A          231 TRYCSAHDPDHHITYADALCIPLNNRAGFDEALDRALAIDPESVPHNKLLVILS  284 (301)
T ss_dssp             HHHCCTTCSHHHHHHHHHTTTTTTCHHHHHHHHHHHHHCCGGGCSSCHHHHHHH
T ss_pred             HHhCCCCCchHHHHHHHHHHHhcCCHHHHHHHHHHHHcCCCCCCCChhHHHHHH
Confidence            9864322477888899999995 9999999999999987666  7765544443

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.00  E-value=0.0066  Score=33.63  Aligned_cols=49  Identities=8%  Similarity=-0.092  Sum_probs=44.9

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcC
Q 039637           11 FEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA   60 (159)
Q Consensus        11 ~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~   60 (159)
                      .++|..++++..+..+. ++.....+...+.+.|++++|...|.++.+..
T Consensus        25 ~~~A~~~l~~AL~~dp~-~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~   73 (93)
T 3bee_A           25 TDEVSLLLEQALQLEPY-NEAALSLIANDHFISFRFQEAIDTWVLLLDSN   73 (93)
T ss_dssp             CHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCC
T ss_pred             CHHHHHHHHHHHHHCcC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            79999999999988776 88999999999999999999999999999853

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=96.95  E-value=0.04  Score=37.25  Aligned_cols=95  Identities=11%  Similarity=0.070  Sum_probs=73.2

Q ss_pred             CHHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHHh-----cCChHHHHHHHHHhHhcCCCCC--hhhHHHHHHHHHcc-Ch
Q 039637           10 CFEETKQLAGDFEAKYDK-YDVVLLNSMLCAYCR-----TGDMESVMHVMRKLDELAISPD--YNTFHILIKYFCKE-KM   80 (159)
Q Consensus        10 ~~~~A~~~~~~~~~~~~~-~~~~~~~~ll~~~~~-----~~~~~~a~~~~~~m~~~~~~~~--~~~~~~ll~~~~~~-~~   80 (159)
                      ....|...+++..+..+. .+-..|..+...|.+     .|+.++|.+.|++..+  +.|+  ..++......+++. |+
T Consensus       178 ~l~~A~a~lerAleLDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~--LnP~~~id~~v~YA~~l~~~~gd  255 (301)
T 3u64_A          178 TVHAAVMMLERACDLWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTR--YCSAHDPDHHITYADALCIPLNN  255 (301)
T ss_dssp             HHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHH--HCCTTCSHHHHHHHHHTTTTTTC
T ss_pred             hHHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHH--hCCCCCchHHHHHHHHHHHhcCC
Confidence            356677777777765443 246689999999999     4999999999999999  5674  67777777888884 99


Q ss_pred             HHHHHHHHHHHHHcCCC--CcHHHHHHH
Q 039637           81 YMLAYRTMVDMHRKGHQ--PEEELCSSL  106 (159)
Q Consensus        81 ~~~a~~~~~~m~~~g~~--~~~~~~~~l  106 (159)
                      .+++.+.+++.+.....  |+....+.+
T Consensus       256 ~~~a~~~L~kAL~a~p~~~P~~~lan~~  283 (301)
T 3u64_A          256 RAGFDEALDRALAIDPESVPHNKLLVIL  283 (301)
T ss_dssp             HHHHHHHHHHHHHCCGGGCSSCHHHHHH
T ss_pred             HHHHHHHHHHHHcCCCCCCCChhHHHHH
Confidence            99999999999987655  555444443

>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=0.019  Score=32.20  Aligned_cols=62  Identities=16%  Similarity=0.201  Sum_probs=35.2

Q ss_pred             ChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHH
Q 039637           45 DMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLI  107 (159)
Q Consensus        45 ~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li  107 (159)
                      |..++..-++.+....+.|++......+++|.+.+++.-|.++++-++.+ +.....+|..++
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K-~~~~~~iY~~~l   86 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVI   86 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCchhhHHHHH
Confidence            45556666666666666666666666666666666666666666655543 122233455444

>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=96.87  E-value=0.0053  Score=43.27  Aligned_cols=74  Identities=14%  Similarity=0.013  Sum_probs=57.4

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHH-----cCCCCcHHHHHHH
Q 039637           32 LLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHR-----KGHQPEEELCSSL  106 (159)
Q Consensus        32 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~-----~g~~~~~~~~~~l  106 (159)
                      +...++.++.+.|++.++...+..+.... ..+...|..++.++.+.|+..+|++.|+...+     .|+.|++.+-...
T Consensus       173 a~~~~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~l~  251 (388)
T 2ff4_A          173 AHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRALN  251 (388)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHH
Confidence            45667788888899999988888887642 34677888999999999999999988887753     4888887665433

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.77  E-value=0.024  Score=31.78  Aligned_cols=65  Identities=15%  Similarity=-0.017  Sum_probs=43.4

Q ss_pred             ChhhHHHHHHHHHccChHHHHHHHHHHHHHcC------CCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHh
Q 039637           64 DYNTFHILIKYFCKEKMYMLAYRTMVDMHRKG------HQPEEELCSSLIFHLGKMRAHSEALSVYNMLRY  128 (159)
Q Consensus        64 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g------~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  128 (159)
                      +..-+..|-..+...+++..|..+++...+..      -.+...++..+..+|.+.|+++.|...+++...
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~   74 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE   74 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHh
Confidence            33445556677777777777777777766431      123456777777777777777777777777664

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=96.53  E-value=0.056  Score=32.83  Aligned_cols=115  Identities=10%  Similarity=-0.106  Sum_probs=81.3

Q ss_pred             CCHHHHHHHHHHHHhcCCh------HHHHHHHHHhHhcCCCCChh----hHHHHHH---HHHccChHHHHHHHHHHHHHc
Q 039637           28 YDVVLLNSMLCAYCRTGDM------ESVMHVMRKLDELAISPDYN----TFHILIK---YFCKEKMYMLAYRTMVDMHRK   94 (159)
Q Consensus        28 ~~~~~~~~ll~~~~~~~~~------~~a~~~~~~m~~~~~~~~~~----~~~~ll~---~~~~~~~~~~a~~~~~~m~~~   94 (159)
                      -|..+|=..+...-+.|++      +...++|++.... ++|+..    .|--+.-   .+...++.++|.++|+.++..
T Consensus        11 ~~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~-~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~~   89 (161)
T 4h7y_A           11 NNPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEA-LPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARAN   89 (161)
T ss_dssp             CSHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHH-SCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHc-CCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            3777888888888888888      8888999987764 556531    1111111   123348899999999999876


Q ss_pred             CCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 039637           95 GHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHIL  145 (159)
Q Consensus        95 g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  145 (159)
                      +-.. ...|-.....-.++|+++.|.+++......+.. +.......++-+
T Consensus        90 hKkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k-~~~~le~a~~nl  138 (161)
T 4h7y_A           90 CKKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAV-PLEMLEIALRNL  138 (161)
T ss_dssp             CTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCB-CHHHHHHHHHHH
T ss_pred             hHHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCC-cHHHHHHHHHhh
Confidence            3333 778888888888999999999999998875544 344555555443

>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=96.51  E-value=0.043  Score=32.60  Aligned_cols=64  Identities=8%  Similarity=0.087  Sum_probs=44.0

Q ss_pred             hHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 039637           80 MYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHI  144 (159)
Q Consensus        80 ~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  144 (159)
                      |..+..+-++.+....+.|++.+..+.+++|-+.+++..|.++|+-++.. ..+...+|..+++-
T Consensus        68 D~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K-~~~~~~iY~y~lqE  131 (152)
T 2y69_E           68 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQE  131 (152)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHh-cCCchhhHHHHHHH
Confidence            45566677777777777788888888888888888888888888777642 22334566666653

>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=96.41  E-value=0.048  Score=30.66  Aligned_cols=69  Identities=10%  Similarity=0.121  Sum_probs=50.2

Q ss_pred             HHccC-hHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 039637           75 FCKEK-MYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHI  144 (159)
Q Consensus        75 ~~~~~-~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  144 (159)
                      +-+.. |.-+..+.++.+....+.|++.+..+.+++|-+.+++..|.++|+.++.. ..+...+|..+++-
T Consensus        19 F~~~~iD~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K-~~~~~~iY~~~lqE   88 (109)
T 1v54_E           19 FNKPDIDAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQE   88 (109)
T ss_dssp             HTCTTCCHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHHH
T ss_pred             cCCcCccHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCchhhHHHHHHH
Confidence            33444 56677788888888888888888888888888888888888888877753 22234567766654

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=96.32  E-value=0.14  Score=39.34  Aligned_cols=121  Identities=12%  Similarity=0.053  Sum_probs=74.9

Q ss_pred             HhcCC-HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC-ChHHHHHHHHHhHhc------CCCCCh-h-----hH-HH
Q 039637            6 CRSGC-FEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTG-DMESVMHVMRKLDEL------AISPDY-N-----TF-HI   70 (159)
Q Consensus         6 ~~~~~-~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~-~~~~a~~~~~~m~~~------~~~~~~-~-----~~-~~   70 (159)
                      ...++ .+.|.++|+++.+..+..+......++..+...+ +--+|.+++.+..+.      ...+.. .     .+ ..
T Consensus       259 ~~t~~~~~~a~~~le~L~~~~p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~  338 (754)
T 4gns_B          259 AITPSLVDFTIDYLKGLTKKDPIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDADSARLMNCMSD  338 (754)
T ss_dssp             HTCGGGHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHHHHHHHHHHHH
T ss_pred             cccccHHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhcccccccccccCcchH
Confidence            33444 6889999999988755434333344444443333 223455555544321      121111 0     00 11


Q ss_pred             HH----HHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHH
Q 039637           71 LI----KYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLR  127 (159)
Q Consensus        71 ll----~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~  127 (159)
                      |+    +.|...|+++.|+++-.+....- +.+-.+|-.|..+|...|+++.|+-.++.+.
T Consensus       339 LL~~Qa~FLl~K~~~elAL~~Ak~AV~~a-PseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          339 LLNIQTNFLLNRGDYELALGVSNTSTELA-LDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHHhcC-chhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence            22    33566789999999998887652 3356789999999999999999999988774

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=96.25  E-value=0.081  Score=31.70  Aligned_cols=119  Identities=8%  Similarity=0.052  Sum_probs=82.4

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----------------------cCChHHHHHHHHHhHhcCCC
Q 039637            5 FCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCR----------------------TGDMESVMHVMRKLDELAIS   62 (159)
Q Consensus         5 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~----------------------~~~~~~a~~~~~~m~~~~~~   62 (159)
                      +.-.|.+++..++..+..++.   +..-||-+|.-...                      +|+...+...+-.+-     
T Consensus        17 ~ildG~v~qGveii~k~~~ss---ni~E~NW~ICNiiD~a~C~y~v~vLd~IGkiFDis~C~NlKrVi~C~~~~n-----   88 (172)
T 1wy6_A           17 FLLDGYIDEGVKIVLEITKSS---TKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDLDKCQNLKSVVECGVINN-----   88 (172)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS---CHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCGGGCSCTHHHHHHHHHTT-----
T ss_pred             HHHhhhHHHHHHHHHHHcCCC---CccccceeeeecchhhchhHHHHHHHHHhhhcCcHhhhcHHHHHHHHHHhc-----
Confidence            345688999999998887643   34444444443333                      334444444443321     


Q ss_pred             CChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCC
Q 039637           63 PDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRS  132 (159)
Q Consensus        63 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  132 (159)
                      .+...+...++....+|+.+...+++..+.. +.+|++...-.+..+|.+.|+..+|..++.+.-+.|.+
T Consensus        89 ~~se~vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~k  157 (172)
T 1wy6_A           89 TLNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  157 (172)
T ss_dssp             CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             chHHHHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhhH
Confidence            3445566778888888888888888888654 34678888888999999999999999999988877754

>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=96.12  E-value=0.072  Score=37.52  Aligned_cols=76  Identities=13%  Similarity=0.007  Sum_probs=61.9

Q ss_pred             hHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHh-----CCCCCCHHHHHHH
Q 039637           67 TFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRY-----SKRSMCKALHEKI  141 (159)
Q Consensus        67 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~-----~~~~~~~~~~~~l  141 (159)
                      ....++.++...|++.++...+..+... .+.+...+..++.++.+.|+..+|.+.|+....     -|+.|+..+ ..+
T Consensus       173 a~~~~~~~~l~~g~~~~a~~~l~~~~~~-~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l-~~l  250 (388)
T 2ff4_A          173 AHTAKAEAEIACGRASAVIAELEALTFE-HPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL-RAL  250 (388)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH-STTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH-HHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHH-HHH
Confidence            4556788888999999999999988865 356888999999999999999999999987653     489999876 334


Q ss_pred             HHH
Q 039637          142 LHI  144 (159)
Q Consensus       142 ~~~  144 (159)
                      ...
T Consensus       251 ~~~  253 (388)
T 2ff4_A          251 NER  253 (388)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            333

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=96.12  E-value=0.066  Score=31.42  Aligned_cols=84  Identities=10%  Similarity=0.012  Sum_probs=52.5

Q ss_pred             CChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHH---HHHHHHHHHHcCCCC--cHHHHHHHHHHHHccCCHHH
Q 039637           44 GDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYML---AYRTMVDMHRKGHQP--EEELCSSLIFHLGKMRAHSE  118 (159)
Q Consensus        44 ~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~---a~~~~~~m~~~g~~~--~~~~~~~li~~~~~~g~~~~  118 (159)
                      .....+.+-|.+....|. |+..+-..+..++.+.+....   ++.++..+.+.+ .|  .....-.|.-++.+.|++++
T Consensus        15 ~~l~~~~~~y~~e~~~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~-~p~~~Rd~lY~LAvg~yklg~Y~~   92 (126)
T 1nzn_A           15 EDLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEK   92 (126)
T ss_dssp             HHHHHHHHHHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS-CHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHhccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHHhhhHHH
Confidence            334455555555555444 666665556677777665554   777777777653 23  22233356677788888888


Q ss_pred             HHHHHHHHHhC
Q 039637          119 ALSVYNMLRYS  129 (159)
Q Consensus       119 a~~~~~~~~~~  129 (159)
                      |.+.++.+...
T Consensus        93 A~~~~~~lL~~  103 (126)
T 1nzn_A           93 ALKYVRGLLQT  103 (126)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            88888877753

>2y69_E Cytochrome C oxidase subunit 5A; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}

Probab=95.97  E-value=0.11  Score=30.83  Aligned_cols=66  Identities=15%  Similarity=0.190  Sum_probs=55.5

Q ss_pred             hcC-ChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHH
Q 039637           42 RTG-DMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIF  108 (159)
Q Consensus        42 ~~~-~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~  108 (159)
                      +.. |..+...-++.+....+.|++......+++|-+.+|+.-|.++++-++.+ +.+...+|..++.
T Consensus        64 ~~~iD~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K-~~~~~~iY~y~lq  130 (152)
T 2y69_E           64 KPDIDAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQ  130 (152)
T ss_dssp             CTTCCHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHH
T ss_pred             CcCccHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHh-cCCchhhHHHHHH
Confidence            444 67788888899999999999999999999999999999999999999865 3445667877764

>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=95.82  E-value=0.051  Score=33.00  Aligned_cols=93  Identities=12%  Similarity=0.101  Sum_probs=65.4

Q ss_pred             ChhhHHHHHHHHHccChH------HHHHHHHHHHHHcCCCCcHH-HHHHHHH------HHHccCCHHHHHHHHHHHHhCC
Q 039637           64 DYNTFHILIKYFCKEKMY------MLAYRTMVDMHRKGHQPEEE-LCSSLIF------HLGKMRAHSEALSVYNMLRYSK  130 (159)
Q Consensus        64 ~~~~~~~ll~~~~~~~~~------~~a~~~~~~m~~~g~~~~~~-~~~~li~------~~~~~g~~~~a~~~~~~~~~~~  130 (159)
                      |..+|-..+.-..+.|++      ++.+++|++.... ++|+.. .|...|.      .+...+++++|.++|+.+.+..
T Consensus        12 ~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~-~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~~h   90 (161)
T 4h7y_A           12 NPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEA-LPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARANC   90 (161)
T ss_dssp             SHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHH-SCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHc-CCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh
Confidence            466777777777777777      7788888877764 455421 1112221      2234489999999999887653


Q ss_pred             CCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637          131 RSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus       131 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      -.. ..+|....+.=.+.|+++.|.+++
T Consensus        91 KkF-AKiwi~~AqFEiRqgnl~kARkIL  117 (161)
T 4h7y_A           91 KKF-AFVHISFAQFELSQGNVKKSKQLL  117 (161)
T ss_dssp             TTB-HHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHH-HHHHHHHHHHHHHcccHHHHHHHH
Confidence            333 778888889999999999998875

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=95.57  E-value=0.16  Score=39.01  Aligned_cols=124  Identities=12%  Similarity=0.054  Sum_probs=76.0

Q ss_pred             HHHHHHHHHHhcCC-hHHHHHHHHHhHhcCCCCChhhH--HHHHHHHHccCh-HHHHHHHHHHHHHc------CCCC-cH
Q 039637           32 LLNSMLCAYCRTGD-MESVMHVMRKLDELAISPDYNTF--HILIKYFCKEKM-YMLAYRTMVDMHRK------GHQP-EE  100 (159)
Q Consensus        32 ~~~~ll~~~~~~~~-~~~a~~~~~~m~~~~~~~~~~~~--~~ll~~~~~~~~-~~~a~~~~~~m~~~------g~~~-~~  100 (159)
                      .-..++..+...++ .+.|..+|+++.+..  |...++  ..++......++ --+|.+++.+..+.      ...+ +.
T Consensus       250 L~~~Ll~~~~~t~~~~~~a~~~le~L~~~~--p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~  327 (754)
T 4gns_B          250 LMYSLKSFIAITPSLVDFTIDYLKGLTKKD--PIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDA  327 (754)
T ss_dssp             HHHHHHHHHHTCGGGHHHHHHHHHHHHHHC--GGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCH
T ss_pred             HHHHHHHHHcccccHHHHHHHHHHHHHhhC--CchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhccccc
Confidence            34455555555666 577999999998853  543332  233333333332 22455555444321      1111 11


Q ss_pred             ----------HHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637          101 ----------ELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus       101 ----------~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                                .....=.+.+...|+++.|..+-++.... .|-+-.+|..|..+|++.|+++.|+-.+
T Consensus       328 ~~~~~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~-aPseF~tW~~La~vYi~l~d~e~ALLtL  394 (754)
T 4gns_B          328 DSARLMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTEL-ALDSFESWYNLARCHIKKEEYEKALFAI  394 (754)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CSSCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             ccccccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHhc-CchhhHHHHHHHHHHHHhccHHHHHHHH
Confidence                      12222245566689999999999987752 3445789999999999999999998654

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=95.35  E-value=0.26  Score=30.71  Aligned_cols=104  Identities=18%  Similarity=0.142  Sum_probs=66.9

Q ss_pred             HHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCH
Q 039637           37 LCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAH  116 (159)
Q Consensus        37 l~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~  116 (159)
                      .+...+.|+++.|.++.+.+      .+...|..|-......|+++-|+++|.+...         +..+.-.|.-.|+.
T Consensus        12 F~LAL~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~   76 (177)
T 3mkq_B           12 FDLALEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDV   76 (177)
T ss_dssp             HHHHHHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCH
T ss_pred             HHHHHhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCH
Confidence            34456789999999998765      4678999999999999999999999987653         23344445556666


Q ss_pred             HHHHHHHHHHHhCCCCCCHHH--------HHHHHHHHHhcCcHHHHhh
Q 039637          117 SEALSVYNMLRYSKRSMCKAL--------HEKILHILISGKLLKDAYI  156 (159)
Q Consensus       117 ~~a~~~~~~~~~~~~~~~~~~--------~~~l~~~~~~~g~~~~A~~  156 (159)
                      +.-.++-+.....| ..+...        +..-++.|.+.|++.+|.-
T Consensus        77 e~L~kla~iA~~~g-~~n~af~~~l~lGdv~~~i~lL~~~~r~~eA~~  123 (177)
T 3mkq_B           77 NKLSKMQNIAQTRE-DFGSMLLNTFYNNSTKERSSIFAEGGSLPLAYA  123 (177)
T ss_dssp             HHHHHHHHHHHHTT-CHHHHHHHHHHHTCHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHCc-cHHHHHHHHHHcCCHHHHHHHHHHCCChHHHHH
Confidence            66555544433322 111111        1233455666666666543

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=95.24  E-value=0.24  Score=29.70  Aligned_cols=86  Identities=8%  Similarity=-0.022  Sum_probs=67.8

Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHH
Q 039637            6 CRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAY   85 (159)
Q Consensus         6 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~   85 (159)
                      ..+|+.......+-.+-     .+....+..++.....|+-++..+++..+... ..|++...-.+..+|.+.|+..++.
T Consensus        72 s~C~NlKrVi~C~~~~n-----~~se~vd~ALd~lv~~~KkDqLdki~~~~l~n-~~~~~~~l~kia~Ay~Klg~~r~a~  145 (172)
T 1wy6_A           72 DKCQNLKSVVECGVINN-----TLNEHVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDAT  145 (172)
T ss_dssp             GGCSCTHHHHHHHHHTT-----CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HhhhcHHHHHHHHHHhc-----chHHHHHHHHHHHHHhccHhHHHHHHHHHhcc-CCCChHHHHHHHHHHHHhcchhhHH
Confidence            34567777777764442     35566788899999999999999999996443 4678888888999999999999999


Q ss_pred             HHHHHHHHcCCC
Q 039637           86 RTMVDMHRKGHQ   97 (159)
Q Consensus        86 ~~~~~m~~~g~~   97 (159)
                      +++.+.=+.|.+
T Consensus       146 eLl~~AC~kG~k  157 (172)
T 1wy6_A          146 TLLIEACKKGEK  157 (172)
T ss_dssp             HHHHHHHHTTCH
T ss_pred             HHHHHHHHhhhH
Confidence            999999888863

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=95.13  E-value=0.66  Score=37.44  Aligned_cols=142  Identities=10%  Similarity=0.052  Sum_probs=85.5

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC--------------------
Q 039637            5 FCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD--------------------   64 (159)
Q Consensus         5 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~--------------------   64 (159)
                      +...+..+.|.++...+     +.+...--.+..++...|++++|.+.|.+... |+..+                    
T Consensus       822 l~~~~~~~~~~~l~~~~-----~~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~-~~~~~~~l~~~~~~~~~~~~~~~~~  895 (1139)
T 4fhn_B          822 LFLFKQYNACMQLIGWL-----NSDPIAVYLKALIYLKSKEAVKAVRCFKTTSL-VLYSHTSQFAVLREFQEIAEKYHHQ  895 (1139)
T ss_dssp             HHHHSCTTHHHHHHHHS-----CCCHHHHHHHHHHHHHTTCHHHHHHHHHTCCC-SCTTCCCSCSSHHHHHHHHHTTTSC
T ss_pred             HHHhhhHHHHHHHhhhc-----cCCcHHHHHHHHHHHhcCCHHHHHHHHHHHhh-hhcccchhhhhhccccccccccccc
Confidence            44455555555543332     22444444556677788888888888876421 11110                    


Q ss_pred             ---hhhHHHHHHHHHccChHHHHHHHHHHHHHcCCC--Cc--HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHH
Q 039637           65 ---YNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQ--PE--EELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKAL  137 (159)
Q Consensus        65 ---~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~--~~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  137 (159)
                         ..=|..++..+.+.+.++.+.++-....+...+  ++  ...|..+...+...|++++|...+-.+.....+  ...
T Consensus       896 ~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~r--~~c  973 (1139)
T 4fhn_B          896 NLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPLK--KSC  973 (1139)
T ss_dssp             CSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSSC--HHH
T ss_pred             ccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHHH--HHH
Confidence               112456667777777777777666555543211  11  225677888888888888888888777654433  456


Q ss_pred             HHHHHHHHHhcCcHHHH
Q 039637          138 HEKILHILISGKLLKDA  154 (159)
Q Consensus       138 ~~~l~~~~~~~g~~~~A  154 (159)
                      ...+|..+|..|..+.-
T Consensus       974 Lr~LV~~lce~~~~~~L  990 (1139)
T 4fhn_B          974 LLDFVNQLTKQGKINQL  990 (1139)
T ss_dssp             HHHHHHHHHHHCCHHHH
T ss_pred             HHHHHHHHHhCCChhhh
Confidence            67777777777766543

>3txn_A 26S proteasome regulatory complex subunit P42B; PCI domain, alpha solenoid, regulatory PART LID, hydrolase, protein binding; 2.50A {Drosophila melanogaster} PDB: 3txm_A

Probab=94.99  E-value=0.61  Score=32.99  Aligned_cols=155  Identities=13%  Similarity=0.047  Sum_probs=98.1

Q ss_pred             hhHHHhcCCHHHHHHHHHHHHhC--CC--CCCHHHHHHHHHHHHhcC-ChHHHHHHHHHhHhcCCCCChhhH------HH
Q 039637            2 ISAFCRSGCFEETKQLAGDFEAK--YD--KYDVVLLNSMLCAYCRTG-DMESVMHVMRKLDELAISPDYNTF------HI   70 (159)
Q Consensus         2 l~~~~~~~~~~~A~~~~~~~~~~--~~--~~~~~~~~~ll~~~~~~~-~~~~a~~~~~~m~~~~~~~~~~~~------~~   70 (159)
                      .+.|.+.|+.++..+++.....-  .+  ......-..+++.+.... ..+.-.++..+..+..- -...+|      ..
T Consensus        26 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a~-~~~r~flr~~l~~k  104 (394)
T 3txn_A           26 GELYKQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWAK-QEKRTFLRQSLEAR  104 (394)
T ss_dssp             HHHHHHHTCHHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHH-HTTCHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHH
Confidence            46788899999999988765422  01  113445678888887754 34444455444443211 112344      26


Q ss_pred             HHHHHHccChHHHHHHHHHHHHHcCCC-----CcHHHHHHHHHHHHccCCHHHHHHHHHHHHhC--CCCCCHHHHHHHHH
Q 039637           71 LIKYFCKEKMYMLAYRTMVDMHRKGHQ-----PEEELCSSLIFHLGKMRAHSEALSVYNMLRYS--KRSMCKALHEKILH  143 (159)
Q Consensus        71 ll~~~~~~~~~~~a~~~~~~m~~~g~~-----~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~  143 (159)
                      +...|...|++.+|.+++.++.+.-..     .-..++-.-+..|...+++.++...+......  .+.+++.+ ...+.
T Consensus       105 L~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~~~~~ai~~~p~i-~a~i~  183 (394)
T 3txn_A          105 LIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSARTTANAIYCPPKV-QGALD  183 (394)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHH-HHHHH
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhhccCCCCHHH-HHHHH
Confidence            788899999999999999988864211     12445666778889999999999999866532  23344433 23333


Q ss_pred             -----HHH-hcCcHHHHhhhh
Q 039637          144 -----ILI-SGKLLKDAYIVV  158 (159)
Q Consensus       144 -----~~~-~~g~~~~A~~~~  158 (159)
                           .+. ..+++..|...|
T Consensus       184 ~~~Gi~~l~~~rdyk~A~~~F  204 (394)
T 3txn_A          184 LQSGILHAADERDFKTAFSYF  204 (394)
T ss_dssp             HHHHHHHHHTTSCHHHHHHHH
T ss_pred             HHhhHHHHHhccCHHHHHHHH
Confidence                 333 678888887654

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=94.91  E-value=0.28  Score=28.73  Aligned_cols=87  Identities=8%  Similarity=-0.032  Sum_probs=60.7

Q ss_pred             HHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHH---HHHHHHHHHhCCCC-CCHHHHHHHHHHHH
Q 039637           71 LIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSE---ALSVYNMLRYSKRS-MCKALHEKILHILI  146 (159)
Q Consensus        71 ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~---a~~~~~~~~~~~~~-~~~~~~~~l~~~~~  146 (159)
                      +++.-........+.+-+......|. ++..+--.+..++.+..+.+.   ++.+++.+...+.+ -.....-.+.-++.
T Consensus         7 ~l~~~~~~~~l~~~~~~y~~e~~~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~y   85 (126)
T 1nzn_A            7 VLNELVSVEDLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNY   85 (126)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHH
T ss_pred             HHhccCCHHHHHHHHHHHHHHhccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHH
Confidence            33444444555666677766666554 666666678888888877666   88899988875422 23445567778999


Q ss_pred             hcCcHHHHhhhh
Q 039637          147 SGKLLKDAYIVV  158 (159)
Q Consensus       147 ~~g~~~~A~~~~  158 (159)
                      +.|++++|.+.+
T Consensus        86 klg~Y~~A~~~~   97 (126)
T 1nzn_A           86 RLKEYEKALKYV   97 (126)
T ss_dssp             HTTCHHHHHHHH
T ss_pred             HhhhHHHHHHHH
Confidence            999999998865

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=94.91  E-value=0.62  Score=33.26  Aligned_cols=98  Identities=14%  Similarity=0.032  Sum_probs=70.1

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC--hhhHHHHHHHHHccChHHHHHHHHHHHHH---cCCCCcHHH--H
Q 039637           31 VLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD--YNTFHILIKYFCKEKMYMLAYRTMVDMHR---KGHQPEEEL--C  103 (159)
Q Consensus        31 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~--~~~~~~ll~~~~~~~~~~~a~~~~~~m~~---~g~~~~~~~--~  103 (159)
                      .++..+...|.+.|++++|.+.|.++......+.  ...+-.++..+...+++..+...+.+...   .+..|+...  .
T Consensus       132 ~~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~~~~~~~~d~~~~~~lk  211 (429)
T 4b4t_R          132 QAWINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAVNSMIEKGGDWERRNRYK  211 (429)
T ss_dssp             SCCHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTCCCTHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhhhcCCCHHHHHHHH
Confidence            3677889999999999999999999987644333  46677888899999999999999888753   232333221  1


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHh
Q 039637          104 SSLIFHLGKMRAHSEALSVYNMLRY  128 (159)
Q Consensus       104 ~~li~~~~~~g~~~~a~~~~~~~~~  128 (159)
                      ..-...+...+++..|.+.|-+...
T Consensus       212 ~~~gl~~l~~r~f~~Aa~~f~e~~~  236 (429)
T 4b4t_R          212 TYYGIHCLAVRNFKEAAKLLVDSLA  236 (429)
T ss_dssp             HHHHHGGGGTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhChHHHHHHHHHHHhc
Confidence            1122234456889999888876654

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=94.06  E-value=0.4  Score=29.56  Aligned_cols=99  Identities=13%  Similarity=0.109  Sum_probs=61.9

Q ss_pred             HHHHHHHhcCChHHHHHHHHHhHhcC-CCCCh-------hhHHHHHHHHHccChHHHHHHHHHHHHHc--C---------
Q 039637           35 SMLCAYCRTGDMESVMHVMRKLDELA-ISPDY-------NTFHILIKYFCKEKMYMLAYRTMVDMHRK--G---------   95 (159)
Q Consensus        35 ~ll~~~~~~~~~~~a~~~~~~m~~~~-~~~~~-------~~~~~ll~~~~~~~~~~~a~~~~~~m~~~--g---------   95 (159)
                      .-+..+...+.++.|+-+.+.+.... ..|+.       .++..+.+++...+++..|...|++.++.  .         
T Consensus        25 dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~~k~l~k~~s~~~  104 (167)
T 3ffl_A           25 DHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQKKALSKTSKVRP  104 (167)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHCC--------
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHhcCCCccc
Confidence            44556677778888777776655431 12221       24456667778888888888888775421  0         


Q ss_pred             -------------CCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCC
Q 039637           96 -------------HQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSM  133 (159)
Q Consensus        96 -------------~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~  133 (159)
                                   ...+...---+..+|.+.+++++|+.+++.+....-.|
T Consensus       105 ~~~~~ss~p~s~~~~~e~Elkykia~C~~~l~~~~~Ai~~Le~Ip~k~Rt~  155 (167)
T 3ffl_A          105 STGNSASTPQSQCLPSEIEVKYKLAECYTVLKQDKDAIAILDGIPSRQRTP  155 (167)
T ss_dssp             ------------CCCCHHHHHHHHHHHHHHTTCHHHHHHHHHTSCGGGCCH
T ss_pred             cccccCCCcccccccchHHHHHHHHHHHHHHCCHHHHHHHHhcCCchhcCH
Confidence                         11112333347788888899999999988776544443

>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=93.80  E-value=0.55  Score=27.57  Aligned_cols=21  Identities=19%  Similarity=0.354  Sum_probs=11.2

Q ss_pred             hhHHHhcCCHHHHHHHHHHHH
Q 039637            2 ISAFCRSGCFEETKQLAGDFE   22 (159)
Q Consensus         2 l~~~~~~~~~~~A~~~~~~~~   22 (159)
                      ++-|...|+.++|.+.++++.
T Consensus        14 l~EY~~~~D~~Ea~~cl~eL~   34 (129)
T 2nsz_A           14 LKEYLLSGDISEAEHCLKELE   34 (129)
T ss_dssp             HHHHHHHCCHHHHHHHHHHHT
T ss_pred             HHHHHcCCCHHHHHHHHHHhC
Confidence            344555555555555555554

>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=93.31  E-value=0.48  Score=28.72  Aligned_cols=59  Identities=12%  Similarity=0.258  Sum_probs=27.2

Q ss_pred             hhHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC--hHHHHHHHHHhHhcCC
Q 039637            2 ISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGD--MESVMHVMRKLDELAI   61 (159)
Q Consensus         2 l~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~--~~~a~~~~~~m~~~~~   61 (159)
                      ++-|...|+.++|.+.++++....+. ...+...+..++-+.++  .+.+..++..+...|+
T Consensus        16 L~EY~~~~D~~EA~~cl~EL~~p~f~-~e~V~~~i~~alE~~~~~~re~~~~LL~~L~~~~~   76 (152)
T 2ion_A           16 LKEYLLSGDISEAEHCLKELEVPHFH-HELVYEAIVMVLESTGESAFKMILDLLKSLWKSST   76 (152)
T ss_dssp             HHHHHHHCCHHHHHHHHHHHTCGGGH-HHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHhCCCHHHHHHHHHHhCCCcch-HHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHCCC
Confidence            44555566666666666655421111 22333334444443222  2345555555555444

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=93.24  E-value=1.5  Score=31.22  Aligned_cols=93  Identities=10%  Similarity=0.011  Sum_probs=64.3

Q ss_pred             hhHHHhcCCHHHHHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCC-CCChhhHHHH----HHH
Q 039637            2 ISAFCRSGCFEETKQLAGDFEAKY--DKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAI-SPDYNTFHIL----IKY   74 (159)
Q Consensus         2 l~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~-~~~~~~~~~l----l~~   74 (159)
                      .+.|.+.|+.+.|.+.|.++...-  ...-...+-.+++.+...+++..+...+.+....-. .++...-+.+    ...
T Consensus       138 a~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~~~~~~~~d~~~~~~lk~~~gl~  217 (429)
T 4b4t_R          138 GEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAVNSMIEKGGDWERRNRYKTYYGIH  217 (429)
T ss_dssp             HHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTCCCTHHHHHHHHHHHHG
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhhhcCCCHHHHHHHHHHHHHH
Confidence            356889999999999999998653  333456788888999999999999999988764311 1222222211    112


Q ss_pred             HHccChHHHHHHHHHHHHHc
Q 039637           75 FCKEKMYMLAYRTMVDMHRK   94 (159)
Q Consensus        75 ~~~~~~~~~a~~~~~~m~~~   94 (159)
                      +...+++..|-..|-+....
T Consensus       218 ~l~~r~f~~Aa~~f~e~~~t  237 (429)
T 4b4t_R          218 CLAVRNFKEAAKLLVDSLAT  237 (429)
T ss_dssp             GGGTSCHHHHHHHHHHHHHH
T ss_pred             HHHhChHHHHHHHHHHHhcc
Confidence            34568899888888776654

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=93.21  E-value=1.5  Score=35.38  Aligned_cols=153  Identities=7%  Similarity=-0.040  Sum_probs=97.2

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhC----CC------------------CCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcC
Q 039637            3 SAFCRSGCFEETKQLAGDFEAK----YD------------------KYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA   60 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~----~~------------------~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~   60 (159)
                      .+|...|++++|.+.|.+.-..    +.                  ..-..=|..++..+.+.+.++.+.++-....+..
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            4678899999999999764210    00                  0011236778888888999988888776665542


Q ss_pred             CCCC----hhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHH------------HHHHHHH
Q 039637           61 ISPD----YNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHS------------EALSVYN  124 (159)
Q Consensus        61 ~~~~----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~------------~a~~~~~  124 (159)
                      -.-+    ...|..+++++...|++++|-..+-.+.....+  ......|+...++.|..+            +..+++.
T Consensus       930 ~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~r--~~cLr~LV~~lce~~~~~~L~~lpf~gl~~~Vd~IL~ 1007 (1139)
T 4fhn_B          930 ETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPLK--KSCLLDFVNQLTKQGKINQLLNYSMPTLRQDVDNLLE 1007 (1139)
T ss_dssp             CSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSSC--HHHHHHHHHHHHHHCCHHHHHHHTTTSCHHHHHHHHH
T ss_pred             cCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHHH--HHHHHHHHHHHHhCCChhhhhCCCCccHHHHHHHHHH
Confidence            2111    236889999999999999998888777655433  345566666666666543            3344433


Q ss_pred             H-HHhC-CCCCCHHHHHHHHHHHHhcCcHHHHhhh
Q 039637          125 M-LRYS-KRSMCKALHEKILHILISGKLLKDAYIV  157 (159)
Q Consensus       125 ~-~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~  157 (159)
                      . .+.. .....+.-|..|-..+...|++..|-.+
T Consensus      1008 ~kAr~~~~~~~~p~Yy~iLYs~ri~r~dyR~AA~v 1042 (1139)
T 4fhn_B         1008 RKAFQMINVESQPCWYNILFSWRYKHQNYRDAAAI 1042 (1139)
T ss_dssp             HHHHHHHHHCCSTHHHHHHHHHHHHHHTTSCHHHH
T ss_pred             HHHHhCCccccCCCHHHHhHhhhhccCChHHHHHH
Confidence            1 1111 1111123467777888888888777654

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=91.81  E-value=0.99  Score=25.34  Aligned_cols=77  Identities=12%  Similarity=0.041  Sum_probs=33.2

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHH
Q 039637           11 FEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVD   90 (159)
Q Consensus        11 ~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~   90 (159)
                      .++|.-+-+.+...+.  ...+--+-+..+...|+|++|+.+...+.    .||...|..|-  -.+.|-.+++...+..
T Consensus        22 HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c----~pdlepw~ALc--e~rlGl~s~le~rL~~   93 (115)
T 2uwj_G           22 HEEALCIAEWLERLGQ--DEAARLIRISSLANQGRYQEALAFAHGNP----WPALEPWFALC--EWHLGLGAALDRRLAG   93 (115)
T ss_dssp             HHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHGGGTTCC----CGGGHHHHHHH--HHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCC----CchHHHHHHHH--HHhcccHHHHHHHHHH
Confidence            4445444444443322  22222222333444555555555443332    35555544332  2234445555555555


Q ss_pred             HHHcC
Q 039637           91 MHRKG   95 (159)
Q Consensus        91 m~~~g   95 (159)
                      +..+|
T Consensus        94 la~sg   98 (115)
T 2uwj_G           94 LGGSS   98 (115)
T ss_dssp             HHTCS
T ss_pred             HHhCC
Confidence            55444

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=91.77  E-value=2  Score=28.74  Aligned_cols=113  Identities=18%  Similarity=0.181  Sum_probs=79.5

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChh----hHHHHHHHHHcc
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYN----TFHILIKYFCKE   78 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~----~~~~ll~~~~~~   78 (159)
                      ....+.|++++|++....-++..|. |...-..++..+|-.|+++.|..-++...+  +.|+..    +|..+|.+    
T Consensus         5 ~~ll~~g~L~~al~~~~~~VR~~P~-da~~R~~LfqLLcv~G~w~RA~~QL~~~a~--l~p~~~~~a~~yr~lI~a----   77 (273)
T 1zbp_A            5 KNALSEGQLQQALELLIEAIKASPK-DASLRSSFIELLCIDGDFERADEQLMQSIK--LFPEYLPGASQLRHLVKA----   77 (273)
T ss_dssp             HHHTTTTCHHHHHHHHHHHHHTCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HCGGGHHHHHHHHHHHHH----
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHH--hCchhhHHHHHHHHHHHH----
Confidence            4578899999999999998888776 999999999999999999999999988877  345432    33333333    


Q ss_pred             ChHHHHHHHHHHHHHcCCCCc-----HHHHHHHHHHHHc--cCCHHHHHHHHHHHHh
Q 039637           79 KMYMLAYRTMVDMHRKGHQPE-----EELCSSLIFHLGK--MRAHSEALSVYNMLRY  128 (159)
Q Consensus        79 ~~~~~a~~~~~~m~~~g~~~~-----~~~~~~li~~~~~--~g~~~~a~~~~~~~~~  128 (159)
                            +..-.++...+-.|.     ..-...++.+...  .|+.++|..+-+...+
T Consensus        78 ------E~~R~~vfaG~~~P~~~g~~~~w~~~ll~Al~~~~~G~~~~A~~lr~~A~e  128 (273)
T 1zbp_A           78 ------AQARKDFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEE  128 (273)
T ss_dssp             ------HHHHHHHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             ------HHHHHHHHcCCCCCCCCCCCHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHh
Confidence                  223334444333322     2233455655554  4999999988777653

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=91.30  E-value=2.6  Score=29.16  Aligned_cols=84  Identities=13%  Similarity=-0.024  Sum_probs=51.6

Q ss_pred             HHhcCChHHHHHHH----HHhHhcCCCCChhhHHHHHHHHHccChHH-HHHHHHHHHH----HcC--CCCcHHHHHHHHH
Q 039637           40 YCRTGDMESVMHVM----RKLDELAISPDYNTFHILIKYFCKEKMYM-LAYRTMVDMH----RKG--HQPEEELCSSLIF  108 (159)
Q Consensus        40 ~~~~~~~~~a~~~~----~~m~~~~~~~~~~~~~~ll~~~~~~~~~~-~a~~~~~~m~----~~g--~~~~~~~~~~li~  108 (159)
                      +.+.|+...+-++-    +-+.+.++++|..+...++..+.....-+ .-.++.+.+.    +.|  ..-|+.....+..
T Consensus        65 ll~~~Q~~sg~DL~~llvevy~~~~~~~~~~~~~rL~~L~~~~~~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~  144 (336)
T 3lpz_A           65 LLRSGQGGSGGDLAVLLVDTFRQAGQRVDGASRGKLLGCLRLFQPGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGT  144 (336)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHH
T ss_pred             HHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHH
Confidence            34445554443333    33445678888888888887776654311 1123333332    223  2346778888999


Q ss_pred             HHHccCCHHHHHHHH
Q 039637          109 HLGKMRAHSEALSVY  123 (159)
Q Consensus       109 ~~~~~g~~~~a~~~~  123 (159)
                      .|.+.+++.+|..-|
T Consensus       145 ~~~~e~~~~~Ae~H~  159 (336)
T 3lpz_A          145 LYVEEGEFEAAEKHL  159 (336)
T ss_dssp             HHHHTTCHHHHHHHH
T ss_pred             HHHccCCHHHHHHHH
Confidence            999999999998776

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=91.23  E-value=0.6  Score=28.76  Aligned_cols=93  Identities=8%  Similarity=0.025  Sum_probs=63.3

Q ss_pred             hhHHHhcCCHHHHHHHHHHHHhCC-CCCC-------HHHHHHHHHHHHhcCChHHHHHHHHHhHhcC--C--CC------
Q 039637            2 ISAFCRSGCFEETKQLAGDFEAKY-DKYD-------VVLLNSMLCAYCRTGDMESVMHVMRKLDELA--I--SP------   63 (159)
Q Consensus         2 l~~~~~~~~~~~A~~~~~~~~~~~-~~~~-------~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~--~--~~------   63 (159)
                      ++.+...|.++.|.-+.+.+.... ..|+       ..+...+.+++...+++..|...|++..+..  +  .+      
T Consensus        27 ik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~~k~l~k~~s~~~~~  106 (167)
T 3ffl_A           27 VRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQKKALSKTSKVRPST  106 (167)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHCC----------
T ss_pred             HHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHhcCCCccccc
Confidence            355677889999988888765331 1222       1356777889999999999999999854321  0  00      


Q ss_pred             --------------ChhhHHHHHHHHHccChHHHHHHHHHHHHHc
Q 039637           64 --------------DYNTFHILIKYFCKEKMYMLAYRTMVDMHRK   94 (159)
Q Consensus        64 --------------~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~   94 (159)
                                    +...---+-.|+.+.+++++|+.+++.+-.+
T Consensus       107 ~~~ss~p~s~~~~~e~Elkykia~C~~~l~~~~~Ai~~Le~Ip~k  151 (167)
T 3ffl_A          107 GNSASTPQSQCLPSEIEVKYKLAECYTVLKQDKDAIAILDGIPSR  151 (167)
T ss_dssp             ----------CCCCHHHHHHHHHHHHHHTTCHHHHHHHHHTSCGG
T ss_pred             cccCCCcccccccchHHHHHHHHHHHHHHCCHHHHHHHHhcCCch
Confidence                          0112234778899999999999998876544

>3txn_A 26S proteasome regulatory complex subunit P42B; PCI domain, alpha solenoid, regulatory PART LID, hydrolase, protein binding; 2.50A {Drosophila melanogaster} PDB: 3txm_A

Probab=91.03  E-value=2.2  Score=30.25  Aligned_cols=92  Identities=10%  Similarity=-0.017  Sum_probs=62.2

Q ss_pred             HHHHHHHhcCChHHHHHHHHHhHhcCCCCC-----hhhHHHHHHHHHccChHHHHHHHHHHHHHc--CCCCcHHHHH---
Q 039637           35 SMLCAYCRTGDMESVMHVMRKLDELAISPD-----YNTFHILIKYFCKEKMYMLAYRTMVDMHRK--GHQPEEELCS---  104 (159)
Q Consensus        35 ~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~--g~~~~~~~~~---  104 (159)
                      .++..|...|++.+|..++.++.+.--..|     ...|..-+..|...+++.++...+......  .+.+++.+-.   
T Consensus       104 kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~~~~~ai~~~p~i~a~i~  183 (394)
T 3txn_A          104 RLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSARTTANAIYCPPKVQGALD  183 (394)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhhccCCCCHHHHHHHH
Confidence            678899999999999999999887522222     244566677788999999999988777632  2223332221   


Q ss_pred             -HHHHHHH-ccCCHHHHHHHHHHH
Q 039637          105 -SLIFHLG-KMRAHSEALSVYNML  126 (159)
Q Consensus       105 -~li~~~~-~~g~~~~a~~~~~~~  126 (159)
                       +-.-.+. ..+++..|...|-+.
T Consensus       184 ~~~Gi~~l~~~rdyk~A~~~F~ea  207 (394)
T 3txn_A          184 LQSGILHAADERDFKTAFSYFYEA  207 (394)
T ss_dssp             HHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             HHhhHHHHHhccCHHHHHHHHHHH
Confidence             1122344 778899888776544

>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=90.44  E-value=1.4  Score=24.74  Aligned_cols=77  Identities=18%  Similarity=0.174  Sum_probs=33.2

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHH
Q 039637           11 FEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVD   90 (159)
Q Consensus        11 ~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~   90 (159)
                      .++|.-+-+.+...+.  ...+--+-+..+...|+|++|+.+...+.    .||...|..|-.  .+.|-.+++...+..
T Consensus        23 HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c----~pdlepw~ALce--~rlGl~s~le~rL~~   94 (116)
T 2p58_C           23 HEEANCIAEWLHLKGE--EEAVQLIRLSSLMNRGDYASALQQGNKLA----YPDLEPWLALCE--YRLGLGSALESRLNR   94 (116)
T ss_dssp             HHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHHHHTTSC----CGGGHHHHHHHH--HHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCC----CchHHHHHHHHH--HhcccHHHHHHHHHH
Confidence            4445444444443322  22222222333444555555555544332    355555544322  233444555555544


Q ss_pred             HHHcC
Q 039637           91 MHRKG   95 (159)
Q Consensus        91 m~~~g   95 (159)
                      +..+|
T Consensus        95 la~sg   99 (116)
T 2p58_C           95 LARSQ   99 (116)
T ss_dssp             HTTCC
T ss_pred             HHhCC
Confidence            44444

>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=89.52  E-value=2.2  Score=29.83  Aligned_cols=77  Identities=13%  Similarity=0.194  Sum_probs=43.9

Q ss_pred             ChhHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC-hHHHHHHHHHhHhcCCCCChhhHHHHHHHHHc
Q 039637            1 MISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGD-MESVMHVMRKLDELAISPDYNTFHILIKYFCK   77 (159)
Q Consensus         1 ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~-~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~   77 (159)
                      +|.-|...|++++|.+.++++.....-....++..+..++-+... -+.+..++..+...|+-+.......+...+..
T Consensus        18 ii~EY~~~~D~~Ea~~~l~eL~~p~~~~~~~v~~~i~~aLer~~~~re~~~~LL~~L~~~~~ls~~~~~~Gf~~lle~   95 (364)
T 3l6a_A           18 VVTEYLNSGNANEAVNGVREMRAPKHFLPEMLSKVIILSLDRSDEDKEKASSLISLLKQEGIATSDNFMQAFLNVLDQ   95 (364)
T ss_dssp             HHHHHHHHCCHHHHHHHHHHHTCCGGGHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHT
T ss_pred             HHHHHHhCCCHHHHHHHHHHhCCchhhHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHhh
Confidence            367788999999999999988631000013344444444433321 24467777777776664444444433333333

>2xig_A Ferric uptake regulation protein; hpfur, transcription, homeostasis; HET: CIT; 1.85A {Helicobacter pylori}

Probab=89.00  E-value=2.5  Score=25.40  Aligned_cols=62  Identities=10%  Similarity=0.125  Sum_probs=45.0

Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChH
Q 039637           19 GDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMY   81 (159)
Q Consensus        19 ~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~   81 (159)
                      +.+.+.|.. .+..-..+++.+...+..-.|.++++.+.+.+...+..|.-.-|+.+...|-.
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 MSIKKNGLK-NSKQREEVVSVLYRSGTHLSPEEITHSIRQKDKNTSISSVYRILNFLEKENFI   77 (150)
T ss_dssp             HHHHHCC---CHHHHHHHHHHHHHCSSCBCHHHHHHHHHHHSTTCCHHHHHHHHHHHHHTTSE
T ss_pred             HHHHHcCCC-CCHHHHHHHHHHHhCCCCCCHHHHHHHHHHhCCCCCHhhHHHHHHHHHHCCcE
Confidence            346677776 55666777788777777888999999998887667777777777777776643

>2fe3_A Peroxide operon regulator; oxidative stress regulator, DNA binding protein; 1.75A {Bacillus subtilis} PDB: 3f8n_A 2rgv_A*

Probab=88.97  E-value=2.2  Score=25.44  Aligned_cols=61  Identities=7%  Similarity=-0.002  Sum_probs=43.3

Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChH
Q 039637           20 DFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMY   81 (159)
Q Consensus        20 ~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~   81 (159)
                      .+.+.|..++ ..-..+++.+...+..-.|.++++.+.+.+...+..|...-|+.+...|-.
T Consensus        12 ~l~~~g~r~T-~qR~~Il~~L~~~~~~~sa~ei~~~l~~~~~~is~aTVYR~L~~L~e~Glv   72 (145)
T 2fe3_A           12 TLKETGVRIT-PQRHAILEYLVNSMAHPTADDIYKALEGKFPNMSVATVYNNLRVFRESGLV   72 (145)
T ss_dssp             HHHHTTCCCC-HHHHHHHHHHHHCSSCCCHHHHHHHHGGGCTTCCHHHHHHHHHHHHHTTSE
T ss_pred             HHHHcCCCCC-HHHHHHHHHHHhCCCCCCHHHHHHHHHHhCCCCChhhHHHHHHHHHHCCCE
Confidence            4667777643 455566667666777788999999988877667777777777777776643

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=88.54  E-value=2.5  Score=24.97  Aligned_cols=66  Identities=14%  Similarity=-0.010  Sum_probs=34.3

Q ss_pred             CChhhHHHHHHHHHccC---hHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHh
Q 039637           63 PDYNTFHILIKYFCKEK---MYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRY  128 (159)
Q Consensus        63 ~~~~~~~~ll~~~~~~~---~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  128 (159)
                      |+..|--....++.+.+   +..+++.++..+.+.+..-.....--+.-++.+.|++++|.+..+.+..
T Consensus        38 vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~  106 (134)
T 3o48_A           38 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  106 (134)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHT
T ss_pred             CChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            44444333444444443   3345666666666544111233334555666666777777776666664

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=87.97  E-value=2.9  Score=27.99  Aligned_cols=110  Identities=8%  Similarity=0.087  Sum_probs=67.6

Q ss_pred             HHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCC--CcHHHHHHHHHHHHccC
Q 039637           37 LCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQ--PEEELCSSLIFHLGKMR  114 (159)
Q Consensus        37 l~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~--~~~~~~~~li~~~~~~g  114 (159)
                      +....+.|+++++++....-++.. +-|...=..++.-+|-.|+|++|.+-++...+....  |....|..+|.+     
T Consensus         4 ~~~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            4 WKNALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRHLVKA-----   77 (273)
T ss_dssp             HHHHTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHH-----
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCchhhHHHHHHHHHHHH-----
Confidence            345678899999999888877753 234555567889999999999999988888775311  223344444433     


Q ss_pred             CHHHHHHHHHHHHhCCC-----CCCHHHHHHHHHHHHh--cCcHHHHhhh
Q 039637          115 AHSEALSVYNMLRYSKR-----SMCKALHEKILHILIS--GKLLKDAYIV  157 (159)
Q Consensus       115 ~~~~a~~~~~~~~~~~~-----~~~~~~~~~l~~~~~~--~g~~~~A~~~  157 (159)
                           +..=.+.-..+.     .....-...++.++..  .|+.++|.++
T Consensus        78 -----E~~R~~vfaG~~~P~~~g~~~~w~~~ll~Al~~~~~G~~~~A~~l  122 (273)
T 1zbp_A           78 -----AQARKDFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSEL  122 (273)
T ss_dssp             -----HHHHHHHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             -----HHHHHHHHcCCCCCCCCCCCHHHHHHHHHHHHHhhcCCHHHHHHH
Confidence                 222223333221     1223344666666654  4777776543

>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=87.92  E-value=4  Score=28.51  Aligned_cols=66  Identities=9%  Similarity=0.238  Sum_probs=29.7

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccC--hHHHHHHHHHHHHHcCCCCc
Q 039637           33 LNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEK--MYMLAYRTMVDMHRKGHQPE   99 (159)
Q Consensus        33 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~--~~~~a~~~~~~m~~~g~~~~   99 (159)
                      .+.++.-|...++.++|...++++..-... .......+..+.-+.+  ..+...+++..+...|+-+.
T Consensus       220 i~~lL~EY~~s~D~~EA~~ci~EL~~p~fh-he~V~~av~~aLE~~~~~~re~~~~LL~~L~~~glls~  287 (358)
T 3eiq_C          220 IDMLLKEYLLSGDISEAEHCLKELEVPHFH-HELVYEAIVMVLESTGESAFKMILDLLKSLWKSSTITI  287 (358)
T ss_dssp             HHHHHHHHHHHCCHHHHHHHHHHHCCTTCH-HHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHTTCSCH
T ss_pred             HHHHHHHhccCCCHHHHHHHHHHccCCcch-HHHHHHHHHHHHccCchHHHHHHHHHHHHHHHCCCCCH
Confidence            345555555556666666666555421100 1222333334444322  23344555555555554433

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=87.52  E-value=5.2  Score=27.36  Aligned_cols=85  Identities=11%  Similarity=0.022  Sum_probs=48.5

Q ss_pred             HHHhcCChHHHHHH----HHHhHhcCCCCChhhHHHHHHHHHccChHH-HHHHHHHHHH----HcCC--CCcHHHHHHHH
Q 039637           39 AYCRTGDMESVMHV----MRKLDELAISPDYNTFHILIKYFCKEKMYM-LAYRTMVDMH----RKGH--QPEEELCSSLI  107 (159)
Q Consensus        39 ~~~~~~~~~~a~~~----~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~-~a~~~~~~m~----~~g~--~~~~~~~~~li  107 (159)
                      .+.+.|+...+-++    .+-..+.++.++......++..+.....-+ .-.++++.+.    +.|-  .-++.....+.
T Consensus        62 ~ll~~~Q~~sa~DLa~llvev~~~~~~~~~~~~~~rl~~l~~~~p~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a  141 (312)
T 2wpv_A           62 SFLKAKQGGSGTDLIFYLLEVYDLAEVKVDDISVARLVRLIAELDPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIG  141 (312)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCCCSHHHHHHHHHHHTTCCTTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHH
T ss_pred             HHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHH
Confidence            34455665555443    333444577777777777777765532111 1123333333    4432  13667777888


Q ss_pred             HHHHccCCHHHHHHHH
Q 039637          108 FHLGKMRAHSEALSVY  123 (159)
Q Consensus       108 ~~~~~~g~~~~a~~~~  123 (159)
                      ..|.+.|++.+|..-|
T Consensus       142 ~~~~~e~~~~~A~~H~  157 (312)
T 2wpv_A          142 SKLLEGDFVYEAERYF  157 (312)
T ss_dssp             HHHHHTTCHHHHHHHH
T ss_pred             HHHhhcCCHHHHHHHH
Confidence            8888888888877554

>1mzb_A Ferric uptake regulation protein; ferric uptake regulator, iron, DTXR, gene regulation; 1.80A {Pseudomonas aeruginosa} SCOP: a.4.5.42

Probab=87.20  E-value=2.2  Score=25.09  Aligned_cols=61  Identities=13%  Similarity=0.007  Sum_probs=43.5

Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHhcC-ChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChH
Q 039637           20 DFEAKYDKYDVVLLNSMLCAYCRTG-DMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMY   81 (159)
Q Consensus        20 ~~~~~~~~~~~~~~~~ll~~~~~~~-~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~   81 (159)
                      .+.+.|..++ ..-..+++.+...+ ..-.|.++++.+.+.+...+..|...-|+.+...|-.
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 ELRKAGLKVT-LPRVKILQMLDSAEQRHMSAEDVYKALMEAGEDVGLATVYRVLTQFEAAGLV   69 (136)
T ss_dssp             HHHHTTCCCC-HHHHHHHHHHHCC-CCSBCHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTSE
T ss_pred             HHHHCCCCCC-HHHHHHHHHHHhCCCCCCCHHHHHHHHHhhCCCCCHHHHHHHHHHHHHCCcE
Confidence            3567777644 45556677777666 7788999999998887777777777777777776644

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=86.97  E-value=6.8  Score=28.13  Aligned_cols=90  Identities=8%  Similarity=-0.052  Sum_probs=54.7

Q ss_pred             HHHHHHHHccChHHHHHHHHHHHHHc--CCCCc---HHHHHHHHHHHHccCCHHHHHHHHHHHHh----CCCCCC--HHH
Q 039637           69 HILIKYFCKEKMYMLAYRTMVDMHRK--GHQPE---EELCSSLIFHLGKMRAHSEALSVYNMLRY----SKRSMC--KAL  137 (159)
Q Consensus        69 ~~ll~~~~~~~~~~~a~~~~~~m~~~--g~~~~---~~~~~~li~~~~~~g~~~~a~~~~~~~~~----~~~~~~--~~~  137 (159)
                      ..|...+...|++.+|.+++..+...  |....   ...+-.-++.|...+++..|..+++++..    ...+|+  ...
T Consensus       141 ~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~  220 (445)
T 4b4t_P          141 KDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSILKGDYSQATVLSRKILKKTFKNPKYESLKLEY  220 (445)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHH
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHH
Confidence            35566677778888888888777632  22111   34555667777788888888887776542    122222  123


Q ss_pred             HHHHHHHHHhcCcHHHHhhhh
Q 039637          138 HEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus       138 ~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      |...+..+...+++.+|...|
T Consensus       221 ~~~~~~~~~~e~~y~~a~~~y  241 (445)
T 4b4t_P          221 YNLLVKISLHKREYLEVAQYL  241 (445)
T ss_dssp             HHHHHHHHHHHCCHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHH
Confidence            556666666677776665543

>1mzb_A Ferric uptake regulation protein; ferric uptake regulator, iron, DTXR, gene regulation; 1.80A {Pseudomonas aeruginosa} SCOP: a.4.5.42

Probab=86.97  E-value=3.2  Score=24.38  Aligned_cols=60  Identities=17%  Similarity=0.187  Sum_probs=35.3

Q ss_pred             HHHcCCCCcHHHHHHHHHHHHccC-CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcH
Q 039637           91 MHRKGHQPEEELCSSLIFHLGKMR-AHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLL  151 (159)
Q Consensus        91 m~~~g~~~~~~~~~~li~~~~~~g-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  151 (159)
                      +.+.|..+++.-. .++..+...+ ..-.|..+++.+...+...+..|.-.-+..+.+.|-+
T Consensus         9 l~~~g~r~T~qR~-~Il~~L~~~~~~~~sa~ei~~~l~~~~~~is~aTVYR~L~~L~e~Glv   69 (136)
T 1mzb_A            9 LRKAGLKVTLPRV-KILQMLDSAEQRHMSAEDVYKALMEAGEDVGLATVYRVLTQFEAAGLV   69 (136)
T ss_dssp             HHHTTCCCCHHHH-HHHHHHHCC-CCSBCHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTSE
T ss_pred             HHHCCCCCCHHHH-HHHHHHHhCCCCCCCHHHHHHHHHhhCCCCCHHHHHHHHHHHHHCCcE
Confidence            4456666654433 3455555544 5556777777776666666666666666666666644

>2xig_A Ferric uptake regulation protein; hpfur, transcription, homeostasis; HET: CIT; 1.85A {Helicobacter pylori}

Probab=86.96  E-value=3.3  Score=24.86  Aligned_cols=62  Identities=11%  Similarity=0.199  Sum_probs=38.4

Q ss_pred             HHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcH
Q 039637           89 VDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLL  151 (159)
Q Consensus        89 ~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  151 (159)
                      +.+.+.|..+++.-. .++..+...+..-.|..+++.+...+...+..|.-..+..+.+.|.+
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            345566766654433 45555555556667777777777666666777777777777777654

>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=86.77  E-value=4.1  Score=27.75  Aligned_cols=20  Identities=20%  Similarity=0.325  Sum_probs=10.2

Q ss_pred             hHHHhcCCHHHHHHHHHHHH
Q 039637            3 SAFCRSGCFEETKQLAGDFE   22 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~   22 (159)
                      +-|...|+.++|.+.++++.
T Consensus       174 ~EY~~~~D~~EA~~ci~EL~  193 (307)
T 2zu6_B          174 KEYLLSGDISEAEHCLKELE  193 (307)
T ss_dssp             HHHHHHCCHHHHHHHHHHHC
T ss_pred             HHHHcCCCHHHHHHHHHHcC
Confidence            34444555555555555553

>2w57_A Ferric uptake regulation protein; gene regulation, transcription regulation, transport, iron, repressor, DNA-binding, transcription; 2.60A {Vibrio cholerae}

Probab=86.69  E-value=3.6  Score=24.67  Aligned_cols=61  Identities=13%  Similarity=0.099  Sum_probs=37.9

Q ss_pred             HHHHcCCCCcHHHHHHHHHHHHccC-CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcH
Q 039637           90 DMHRKGHQPEEELCSSLIFHLGKMR-AHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLL  151 (159)
Q Consensus        90 ~m~~~g~~~~~~~~~~li~~~~~~g-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  151 (159)
                      .+.+.|..+++.-. .++..+...+ ..-.|..+++.+...+...+..|.-.-+..+.+.|.+
T Consensus         7 ~l~~~g~r~T~qR~-~Il~~L~~~~~~h~sa~ei~~~l~~~~~~is~aTVYR~L~~L~e~Glv   68 (150)
T 2w57_A            7 ALKDAGLKVTLPRL-KILEVLQQPECQHISAEELYKKLIDLGEEIGLATVYRVLNQFDDAGIV   68 (150)
T ss_dssp             HHHHTTCCCCHHHH-HHHHHHTSGGGSSEEHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTSE
T ss_pred             HHHHcCCCCCHHHH-HHHHHHHhCCCCCCCHHHHHHHHHHhCCCCCHHHHHHHHHHHHHCCcE
Confidence            35556666665443 3455555554 5556777777777666666766666667777776654

>3eyy_A Putative iron uptake regulatory protein; NUR, nickel-uptake regulator, D-domain, dimerization domain, DB-domain, DNA-binding domain; 2.40A {Streptomyces coelicolor}

Probab=86.28  E-value=2.2  Score=25.46  Aligned_cols=61  Identities=8%  Similarity=0.003  Sum_probs=42.4

Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChH
Q 039637           19 GDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMY   81 (159)
Q Consensus        19 ~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~   81 (159)
                      +.+.+.|..++ ..-..+++.+...+ .-.|.++++.+.+.+...+..|.-.-|+.+...|-.
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 SDLRQRGYRLT-PQRQLVLEAVDTLE-HATPDDILGEVRKTASGINISTVYRTLELLEELGLV   68 (145)
T ss_dssp             HHHHTTTCCCC-HHHHHHHHHHHHHS-SBCHHHHHHHHHTTCTTCCHHHHHHHHHHHHHHTSE
T ss_pred             HHHHHcCCCcC-HHHHHHHHHHHhcC-CCCHHHHHHHHHhhCCCCCHhHHHHHHHHHHHCCcE
Confidence            34567777744 34555666666666 778999999998877677777776677777766643

>4ets_A Ferric uptake regulation protein; metal binding protein, transcription factor; 2.10A {Campylobacter jejuni subsp}

Probab=86.08  E-value=2.4  Score=25.87  Aligned_cols=70  Identities=7%  Similarity=0.040  Sum_probs=48.8

Q ss_pred             HHHHHHHHHH-HHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhc--CCCCChhhHHHHHHHHHccChH
Q 039637           11 FEETKQLAGD-FEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDEL--AISPDYNTFHILIKYFCKEKMY   81 (159)
Q Consensus        11 ~~~A~~~~~~-~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~--~~~~~~~~~~~ll~~~~~~~~~   81 (159)
                      .+.+.+-+.. +.+.|..+ +..-..+++.+...+..-.|.++++.+.+.  +...+..|.-.-|+.+...|-.
T Consensus        13 ~~~~~~~~~~~L~~~g~r~-T~qR~~IL~~L~~~~~h~sA~eI~~~l~~~~~~~~is~aTVYRtL~~L~e~Glv   85 (162)
T 4ets_A           13 YDVLLERFKKILRQGGLKY-TKQREVLLKTLYHSDTHYTPESLYMEIKQAEPDLNVGIATVYRTLNLLEEAEMV   85 (162)
T ss_dssp             HHHHHHHHHHHHHHHTCCC-CHHHHHHHHHHHSCCSCBCHHHHHHHHHHHCGGGCCCHHHHHHHHHHHHHTTSE
T ss_pred             HHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhCCCCCCHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHHCCCE
Confidence            3445554443 45667764 455677778888877888899999998887  6666777776677777777654

>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=85.93  E-value=2.9  Score=24.90  Aligned_cols=61  Identities=11%  Similarity=0.167  Sum_probs=35.9

Q ss_pred             HHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcH
Q 039637           89 VDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLL  151 (159)
Q Consensus        89 ~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  151 (159)
                      +.+.+.|..++..-. .++..+...+ .-.|..+++.+...+...+..|.-.-+..+.+.|-+
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 SDLRQRGYRLTPQRQ-LVLEAVDTLE-HATPDDILGEVRKTASGINISTVYRTLELLEELGLV   68 (145)
T ss_dssp             HHHHTTTCCCCHHHH-HHHHHHHHHS-SBCHHHHHHHHHTTCTTCCHHHHHHHHHHHHHHTSE
T ss_pred             HHHHHcCCCcCHHHH-HHHHHHHhcC-CCCHHHHHHHHHhhCCCCCHhHHHHHHHHHHHCCcE
Confidence            344556666655433 3444444444 556777777777666666666666666666666643

>2fe3_A Peroxide operon regulator; oxidative stress regulator, DNA binding protein; 1.75A {Bacillus subtilis} PDB: 3f8n_A 2rgv_A*

Probab=85.75  E-value=4  Score=24.29  Aligned_cols=62  Identities=18%  Similarity=0.150  Sum_probs=40.0

Q ss_pred             HHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcH
Q 039637           89 VDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLL  151 (159)
Q Consensus        89 ~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  151 (159)
                      +.+.+.|..+++.-. .++..+...+..-.|..+++.+...+...+..|....+..+.+.|.+
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            345566776665443 45555555555666777777777666666777777777777777654

>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=85.54  E-value=3.8  Score=23.92  Aligned_cols=68  Identities=9%  Similarity=0.226  Sum_probs=45.6

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccC--hHHHHHHHHHHHHHcCCCCcH
Q 039637           32 LLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEK--MYMLAYRTMVDMHRKGHQPEE  100 (159)
Q Consensus        32 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~--~~~~a~~~~~~m~~~g~~~~~  100 (159)
                      ..+.++.-|...|+.++|...++++..... -.......+..++-+.+  ..+.+.+++..+...|+-+..
T Consensus         9 ki~~ll~EY~~~~D~~Ea~~cl~eL~~p~f-~~e~V~~~i~~alE~~~~~~~e~~~~LL~~L~~~~~is~~   78 (129)
T 2nsz_A            9 EIDMLLKEYLLSGDISEAEHCLKELEVPHF-HHELVYEAIVMVLESTGESAFKMILDLLKSLWKSSTITID   78 (129)
T ss_dssp             HHHHHHHHHHHHCCHHHHHHHHHHHTCGGG-HHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHTTCSCHH
T ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHhCCCcc-HHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHCCCcCHH
Confidence            456788999999999999999999863111 11233445556666653  346677888888877754443

>3esl_A Checkpoint serine/threonine-protein kinase BUB1; mitotic spindle checkpoint, TPR motif, all-alpha domain, MAD3-like domain; HET: NHE; 1.74A {Saccharomyces cerevisiae}

Probab=85.43  E-value=5.3  Score=25.44  Aligned_cols=59  Identities=14%  Similarity=0.015  Sum_probs=47.9

Q ss_pred             ChHHHHHHHHHHHHHcCCCC-cHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHH
Q 039637           79 KMYMLAYRTMVDMHRKGHQP-EEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKAL  137 (159)
Q Consensus        79 ~~~~~a~~~~~~m~~~g~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  137 (159)
                      +...++.++|..|...|+-. .+..|......+...|++.+|..+|+.-.+.+-.|-...
T Consensus        93 ~~~~~p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~GI~~~A~P~~rL  152 (202)
T 3esl_A           93 NNFHESENTFKYMFNKGIGTKLSLFYEEFSKLLENAQFFLEAKVLLELGAENNCRPYNRL  152 (202)
T ss_dssp             TCHHHHHHHHHHHHHHTSSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBSHHHH
T ss_pred             cccCCHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCccHHHH
Confidence            44668899999999887654 456778889999999999999999998888887776543

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=85.38  E-value=8.3  Score=27.67  Aligned_cols=149  Identities=9%  Similarity=-0.007  Sum_probs=92.7

Q ss_pred             cCCHHHHHHHHHHHHhC-----CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhc-CCCCChhhHHHHHHHHH----c
Q 039637            8 SGCFEETKQLAGDFEAK-----YDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDEL-AISPDYNTFHILIKYFC----K   77 (159)
Q Consensus         8 ~~~~~~A~~~~~~~~~~-----~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-~~~~~~~~~~~ll~~~~----~   77 (159)
                      .|+++.|++.+-.+.+.     +...+......++..|.+.++++...+.+.-+... |..+  ...+.+++.+.    .
T Consensus        29 ~~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~qlk--~ai~~~V~~~~~~l~~  106 (445)
T 4b4t_P           29 QNDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQLK--LSIQYMIQKVMEYLKS  106 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTSH--HHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhhH--HHHHHHHHHHHHHHhc
Confidence            36788888887766642     23446777888999999999999998877665543 3322  33334444332    2


Q ss_pred             cChHH--HHHHHHHHHH--HcC-CCC---cHHHHHHHHHHHHccCCHHHHHHHHHHHHhC-CCCCC----HHHHHHHHHH
Q 039637           78 EKMYM--LAYRTMVDMH--RKG-HQP---EEELCSSLIFHLGKMRAHSEALSVYNMLRYS-KRSMC----KALHEKILHI  144 (159)
Q Consensus        78 ~~~~~--~a~~~~~~m~--~~g-~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-~~~~~----~~~~~~l~~~  144 (159)
                      ....+  .-..+.+.+.  ..| ...   .......|...|...|++.+|..++..+... ....+    ...+..-++.
T Consensus       107 ~~~~d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl  186 (445)
T 4b4t_P          107 SKSLDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMEL  186 (445)
T ss_dssp             HCTTHHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHH
T ss_pred             CCchhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            22222  1112222111  111 111   2234467889999999999999999988742 11112    3467778899


Q ss_pred             HHhcCcHHHHhhhh
Q 039637          145 LISGKLLKDAYIVV  158 (159)
Q Consensus       145 ~~~~g~~~~A~~~~  158 (159)
                      |...+++..|..++
T Consensus       187 ~l~~~d~~~a~~~~  200 (445)
T 4b4t_P          187 SILKGDYSQATVLS  200 (445)
T ss_dssp             HHHHTCHHHHHHHH
T ss_pred             HHHCCCHHHHHHHH
Confidence            99999999987654

>2w57_A Ferric uptake regulation protein; gene regulation, transcription regulation, transport, iron, repressor, DNA-binding, transcription; 2.60A {Vibrio cholerae}

Probab=84.65  E-value=3  Score=25.02  Aligned_cols=62  Identities=13%  Similarity=0.030  Sum_probs=43.6

Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHhcC-ChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChH
Q 039637           19 GDFEAKYDKYDVVLLNSMLCAYCRTG-DMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMY   81 (159)
Q Consensus        19 ~~~~~~~~~~~~~~~~~ll~~~~~~~-~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~   81 (159)
                      +.+.+.|..++ ..-..+++.+...+ ..-.|.++++.+.+.+...+..|.-.-|+.+...|-.
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 QALKDAGLKVT-LPRLKILEVLQQPECQHISAEELYKKLIDLGEEIGLATVYRVLNQFDDAGIV   68 (150)
T ss_dssp             HHHHHTTCCCC-HHHHHHHHHHTSGGGSSEEHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTSE
T ss_pred             HHHHHcCCCCC-HHHHHHHHHHHhCCCCCCCHHHHHHHHHHhCCCCCHHHHHHHHHHHHHCCcE
Confidence            34667777644 44556666666666 6778999999998877667777777777777776654

>2b7e_A PRE-mRNA processing protein PRP40; structural protein; NMR {Saccharomyces cerevisiae} SCOP: a.159.2.1

Probab=84.59  E-value=2.2  Score=21.30  Aligned_cols=33  Identities=6%  Similarity=-0.007  Sum_probs=20.8

Q ss_pred             HHHHHHHHHhHhcCCCCChhhHHHHHHHH-HccC
Q 039637           47 ESVMHVMRKLDELAISPDYNTFHILIKYF-CKEK   79 (159)
Q Consensus        47 ~~a~~~~~~m~~~~~~~~~~~~~~ll~~~-~~~~   79 (159)
                      ++|.+.|.+|++..-.++..||...++.. ++-.
T Consensus         3 eEae~aF~~lL~~~~V~s~wsweqamr~i~i~DP   36 (59)
T 2b7e_A            3 MEAEKEFITMLKENQVDSTWSFSRIISELGTRDP   36 (59)
T ss_dssp             THHHHHHHHHHHHTTCCSSCCHHHHHHHHHHHCT
T ss_pred             hHHHHHHHHHHHHcCCCCCCcHHHHHHHhccCCC
Confidence            56677777766655456666777777666 4443

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=84.53  E-value=4.5  Score=23.91  Aligned_cols=73  Identities=11%  Similarity=0.007  Sum_probs=52.6

Q ss_pred             CCCCCHHHHHHHHHHHHhcCC---hHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCc
Q 039637           25 YDKYDVVLLNSMLCAYCRTGD---MESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPE   99 (159)
Q Consensus        25 ~~~~~~~~~~~ll~~~~~~~~---~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~   99 (159)
                      +..|++.+-=.+..++.+..+   ...++.++..+.+.+-.-....+-.|.-++.+.|++++|+++.+.+++.  .|+
T Consensus        35 ~~~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~--eP~  110 (134)
T 3o48_A           35 GPTATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH--ERN  110 (134)
T ss_dssp             GGGSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT--CTT
T ss_pred             CCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhh--CCC
Confidence            556677665556666666654   4568999999888652112444556778899999999999999999974  564

>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=84.01  E-value=5.2  Score=24.16  Aligned_cols=70  Identities=9%  Similarity=0.247  Sum_probs=46.7

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHcc--ChHHHHHHHHHHHHHcCCCCcHHH
Q 039637           32 LLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKE--KMYMLAYRTMVDMHRKGHQPEEEL  102 (159)
Q Consensus        32 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~--~~~~~a~~~~~~m~~~g~~~~~~~  102 (159)
                      ..+.++.-|...|+.++|...++++..... -...+...+..++-+.  ...+.+..++..+...|+-+....
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            456788999999999999999999863111 1123444555666664  234567788888887776544333

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=83.23  E-value=5.5  Score=23.87  Aligned_cols=66  Identities=14%  Similarity=-0.010  Sum_probs=32.1

Q ss_pred             CChhhHHHHHHHHHccC---hHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHh
Q 039637           63 PDYNTFHILIKYFCKEK---MYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRY  128 (159)
Q Consensus        63 ~~~~~~~~ll~~~~~~~---~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  128 (159)
                      |+..+--....++.+..   +..+++.+++.+.+.+..-.....--|.-++.+.|++++|.++.+.+..
T Consensus        37 vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~  105 (144)
T 1y8m_A           37 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  105 (144)
T ss_dssp             SCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            44444333444444443   2335555666655533211222223455566666666666666666654

>4ets_A Ferric uptake regulation protein; metal binding protein, transcription factor; 2.10A {Campylobacter jejuni subsp}

Probab=83.22  E-value=5.8  Score=24.16  Aligned_cols=60  Identities=15%  Similarity=0.193  Sum_probs=36.0

Q ss_pred             HHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhC--CCCCCHHHHHHHHHHHHhcCcH
Q 039637           91 MHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYS--KRSMCKALHEKILHILISGKLL  151 (159)
Q Consensus        91 m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~  151 (159)
                      +.+.|..++..- ..++..+...+..-.|..+++.+...  +...+..|.-.-+..+.+.|.+
T Consensus        24 L~~~g~r~T~qR-~~IL~~L~~~~~h~sA~eI~~~l~~~~~~~~is~aTVYRtL~~L~e~Glv   85 (162)
T 4ets_A           24 LRQGGLKYTKQR-EVLLKTLYHSDTHYTPESLYMEIKQAEPDLNVGIATVYRTLNLLEEAEMV   85 (162)
T ss_dssp             HHHHTCCCCHHH-HHHHHHHHSCCSCBCHHHHHHHHHHHCGGGCCCHHHHHHHHHHHHHTTSE
T ss_pred             HHHcCCCCCHHH-HHHHHHHHhCCCCCCHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHHCCCE
Confidence            345566665433 34555666666666677777777655  5556666666666666666643

>2wvi_A Mitotic checkpoint serine/threonine-protein kinase BUB1 beta; tumor suppressor, TPR, apoptosis, cell division, cell cycle, kinetochore, transferase; 1.80A {Homo sapiens} PDB: 3si5_A

Probab=82.92  E-value=6.2  Score=24.23  Aligned_cols=55  Identities=11%  Similarity=0.004  Sum_probs=44.8

Q ss_pred             HHHHHHHHHHHcCCCC-cHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHH
Q 039637           83 LAYRTMVDMHRKGHQP-EEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKAL  137 (159)
Q Consensus        83 ~a~~~~~~m~~~g~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  137 (159)
                      ...++|..|...|+-. .+..|......+...|++.+|..+|+.-...+-.|-...
T Consensus        78 ~p~~if~~L~~~~IG~~~AlfY~~wA~~lE~~~~~~~A~~Iy~~Gi~~~A~P~~~L  133 (164)
T 2wvi_A           78 EPLDMYSYLHNQGIGVSLAQFYISWAEEYEARENFRKADAIFQEGIQQKAEPLERL  133 (164)
T ss_dssp             CHHHHHHHHHHTTSSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBSHHHH
T ss_pred             CHHHHHHHHHHCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHH
Confidence            3678899999887654 456778888889999999999999999888887777554

>3mwm_A ZUR, putative metal uptake regulation protein; FUR, regulatory metal, graded transcription regulation, transcription; 2.40A {Streptomyces coelicolor}

Probab=82.91  E-value=2.1  Score=25.30  Aligned_cols=59  Identities=7%  Similarity=-0.022  Sum_probs=41.5

Q ss_pred             HhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChH
Q 039637           22 EAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMY   81 (159)
Q Consensus        22 ~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~   81 (159)
                      .+.|.. .+..-..+++.+...+..-.|.++++.+.+.+...+..|.-.-|+.+...|-.
T Consensus         6 r~~g~r-~T~qR~~Il~~L~~~~~h~sa~eI~~~l~~~~~~is~aTVYR~L~~L~e~Glv   64 (139)
T 3mwm_A            6 PPVKGR-ATRQRAAVSAALQEVEEFRSAQELHDMLKHKGDAVGLTTVYRTLQSLADAGEV   64 (139)
T ss_dssp             ----CH-HHHHHHHHHHHHTTCSSCEEHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTSS
T ss_pred             CCCCCc-cCHHHHHHHHHHHhCCCCCCHHHHHHHHHHhCCCCCHHHHHHHHHHHHHCCCE
Confidence            444544 34456677778777777888999999998887777777777778888777654

>2fu4_A Ferric uptake regulation protein; DNA binding domain, helix-turn-helix, DNA binding protein; 1.80A {Escherichia coli}

Probab=80.49  E-value=4.6  Score=21.15  Aligned_cols=58  Identities=10%  Similarity=0.025  Sum_probs=27.4

Q ss_pred             HHhCCCCCCHHHHHHHHHHHHhcC-ChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccC
Q 039637           21 FEAKYDKYDVVLLNSMLCAYCRTG-DMESVMHVMRKLDELAISPDYNTFHILIKYFCKEK   79 (159)
Q Consensus        21 ~~~~~~~~~~~~~~~ll~~~~~~~-~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~   79 (159)
                      +.+.|...+..- ..++..+...+ ..-.+.++++.+.+.+...+..|....++.+...|
T Consensus         8 l~~~g~~~t~~r-~~IL~~l~~~~~~~~s~~el~~~l~~~~~~is~~TVyR~L~~L~~~G   66 (83)
T 2fu4_A            8 LKKAGLKVTLPR-LKILEVLQEPDNHHVSAEDLYKRLIDMGEEIGLATVYRVLNQFDDAG   66 (83)
T ss_dssp             HHHTTCCCCHHH-HHHHHHHTSGGGSSBCHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHT
T ss_pred             HHHcCCCcCHHH-HHHHHHHHhCCCCCCCHHHHHHHHHHhCCCCCHhhHHHHHHHHHHCC
Confidence            444555443322 33444444433 34455566665555544444455554555554443

>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=80.43  E-value=2.2  Score=26.16  Aligned_cols=21  Identities=19%  Similarity=0.381  Sum_probs=13.6

Q ss_pred             hhHHHhcCCHHHHHHHHHHHH
Q 039637            2 ISAFCRSGCFEETKQLAGDFE   22 (159)
Q Consensus         2 l~~~~~~~~~~~A~~~~~~~~   22 (159)
                      |+-|...|+.++|.+.++++.
T Consensus        17 i~EYf~~~D~~Ea~~~l~eL~   37 (165)
T 2rg8_A           17 IQEYFEHGDTNEVAEMLRDLN   37 (165)
T ss_dssp             HHHHHHHCCHHHHHHHHHHHT
T ss_pred             HHHHHcCCCHHHHHHHHHHhC
Confidence            455666677777777766665

>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=80.36  E-value=4.6  Score=27.84  Aligned_cols=63  Identities=10%  Similarity=0.064  Sum_probs=38.0

Q ss_pred             ChhHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC-ChHHHHHHHHHhHhcCCCCC
Q 039637            1 MISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTG-DMESVMHVMRKLDELAISPD   64 (159)
Q Consensus         1 ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~-~~~~a~~~~~~m~~~~~~~~   64 (159)
                      +++-|...|+.++|.+.++++...... ...+...+..++-+.. .-+.+..++..+.+.|+-+.
T Consensus        17 ll~Ey~~~~d~~Ea~~ci~el~~p~~~-~~~v~~~i~~~le~~~~~re~~~~Ll~~L~~~~~is~   80 (339)
T 1ug3_A           17 IIEEYLHLNDMKEAVQCVQELASPSLL-FIFVRHGVESTLERSAIAREHMGQLLHQLLCAGHLST   80 (339)
T ss_dssp             HHHHHHHHCCHHHHHHHHHTTCCGGGH-HHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHTTSSCH
T ss_pred             HHHHHHhCCCHHHHHHHHHHcCCcccH-HHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHCCCCCH
Confidence            356788999999999998887532211 2233334444433322 23457778888887665443

---

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	159
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.53
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.45
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.45
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.4
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.27
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.27
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.25
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	99.19
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.13
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	99.07
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	99.06
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.0
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.95
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.94
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.94
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.9
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.87
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.87
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	98.86
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.8
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.77
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.71
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.71
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.7
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.61
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.6
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	98.59
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	98.58
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.49
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.48
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.48
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.45
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.44
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.42
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.4
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.38
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.38
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.37
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.32
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	98.31
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.28
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.24
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	98.02
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	98.0
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.92
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.78
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.63
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.41
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.41
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.33
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.31
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.02
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	96.72
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	96.7
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	96.55
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	96.42
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	95.94
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	95.86
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	95.71
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	94.96
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	94.58
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	94.03
d2nsza1	129	Programmed cell death 4, PDCD4 {Mouse (Mus musculu	92.32
d1mzba_	134	Ferric uptake regulation protein, FUR {Pseudomonas	87.96
d1mzba_	134	Ferric uptake regulation protein, FUR {Pseudomonas	87.6
d1ug3a1	193	Eukaryotic initiation factor eIF4G {Human (Homo sa	85.76
d2f6ma1	64	Vacuolar protein sorting-associated protein 23, VP	84.14
d2f6ma1	64	Vacuolar protein sorting-associated protein 23, VP	83.12
d2nsza1	129	Programmed cell death 4, PDCD4 {Mouse (Mus musculu	82.98
d1khda1	69	Anthranilate phosphoribosyltransferase (TrpD) {Pec	81.15

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.53  E-value=1.1e-12  Score=88.98  Aligned_cols=151  Identities=14%  Similarity=0.120  Sum_probs=113.4

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC-hhhHHHHHHHHHccChH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMY   81 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~   81 (159)
                      ..+...|++++|...|+.....++. +...+..+...+.+.|++++|...|++..+.  .|+ ..++..+..++...|++
T Consensus       211 ~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~  287 (388)
T d1w3ba_         211 NVLKEARIFDRAVAAYLRALSLSPN-HAVVHGNLACVYYEQGLIDLAIDTYRRAIEL--QPHFPDAYCNLANALKEKGSV  287 (388)
T ss_dssp             HHHHTTTCTTHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--CSSCHHHHHHHHHHHHHHSCH
T ss_pred             hhhhccccHHHHHHHHHHhHHHhhh-HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCH
Confidence            3566677888888888777765544 6667777788888888888888888887763  344 56777777888888888


Q ss_pred             HHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637           82 MLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      ++|.+.+....... +.+...+..+...+.+.|++++|...|++..+. .|-+..++..+...|.+.|++++|...|
T Consensus       288 ~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~-~p~~~~~~~~la~~~~~~g~~~~A~~~~  362 (388)
T d1w3ba_         288 AEAEDCYNTALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRKALEV-FPEFAAAHSNLASVLQQQGKLQEALMHY  362 (388)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTS-CTTCHHHHHHHHHHHHTTTCCHHHHHHH
T ss_pred             HHHHHHHHhhhccC-CccchhhhHHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            88888888777653 456677778888888888888888888887753 2335667788888888888888887765

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.45  E-value=1.1e-11  Score=83.96  Aligned_cols=152  Identities=10%  Similarity=-0.061  Sum_probs=131.0

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYM   82 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   82 (159)
                      ..+...|++++|.+.++...+..+. +..+|..+...+...|++++|...+.+....+. .+...+..+...+.+.|+++
T Consensus       177 ~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~  254 (388)
T d1w3ba_         177 CVFNAQGEIWLAIHHFEKAVTLDPN-FLDAYINLGNVLKEARIFDRAVAAYLRALSLSP-NHAVVHGNLACVYYEQGLID  254 (388)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHH
T ss_pred             ccccccCcHHHHHHHHHHHHHhCcc-cHHHHHHHhhhhhccccHHHHHHHHHHhHHHhh-hHHHHHHHHHHHHHHCCCHH
Confidence            3566789999999999998877655 788999999999999999999999999888542 45667778889999999999


Q ss_pred             HHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637           83 LAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      +|...+++..+.. +-++.++..+...+...|++++|...++.... ..+.+...+..+...+.+.|++++|.+.|
T Consensus       255 ~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~A~~~~  328 (388)
T d1w3ba_         255 LAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALR-LCPTHADSLNNLANIKREQGNIEEAVRLY  328 (388)
T ss_dssp             HHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH-HCTTCHHHHHHHHHHHHTTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhc-cCCccchhhhHHHHHHHHCCCHHHHHHHH
Confidence            9999999998763 34677889999999999999999999998876 34567788899999999999999999876

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.45  E-value=2e-11  Score=81.69  Aligned_cols=151  Identities=14%  Similarity=0.083  Sum_probs=98.4

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC-hhhHHHHHHHHHccChHH
Q 039637            4 AFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYM   82 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~~   82 (159)
                      .+.+.|++++|.+.|+...+..|. +..+|..+..++...|++++|...|.+..+.  .|+ ...+..+..++...|+++
T Consensus        28 ~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~~~~~  104 (323)
T d1fcha_          28 RRLQEGDLPNAVLLFEAAVQQDPK-HMEAWQYLGTTQAENEQELLAISALRRCLEL--KPDNQTALMALAVSFTNESLQR  104 (323)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHSCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCChHHHHHHHHhhhcc--cccccccccccccccccccccc
Confidence            466778888888888888776655 6777888888888888888888888877763  343 455566666677777777


Q ss_pred             HHHHHHHHHHHcC--------------------------------------------------CCCcHHHHHHHHHHHHc
Q 039637           83 LAYRTMVDMHRKG--------------------------------------------------HQPEEELCSSLIFHLGK  112 (159)
Q Consensus        83 ~a~~~~~~m~~~g--------------------------------------------------~~~~~~~~~~li~~~~~  112 (159)
                      +|.+.+.+.....                                                  ..+++.++..+...+..
T Consensus       105 ~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~~~  184 (323)
T d1fcha_         105 QACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNL  184 (323)
T ss_dssp             HHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHH
T ss_pred             ccccchhhHHHhccchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHHHHHH
Confidence            6666665543211                                                  01223445555566666


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637          113 MRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus       113 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      .|++++|...|++..... +-+..+|..+...|.+.|++++|.+.|
T Consensus       185 ~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~  229 (323)
T d1fcha_         185 SGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAY  229 (323)
T ss_dssp             TTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHhhhhcccccccccc-cccccchhhhhhcccccccchhHHHHH
Confidence            677777777777665432 224556666666777777777776654

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.40  E-value=5.7e-11  Score=79.43  Aligned_cols=153  Identities=10%  Similarity=-0.061  Sum_probs=125.6

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcC----------------------
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELA----------------------   60 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~----------------------   60 (159)
                      ..|...|++++|...|.+..+..+. +...|..+...|...|++++|.+.+.+.....                      
T Consensus        61 ~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  139 (323)
T d1fcha_          61 TTQAENEQELLAISALRRCLELKPD-NQTALMALAVSFTNESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPS  139 (323)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTGGGCC--------------
T ss_pred             HHHHHcCChHHHHHHHHhhhccccc-cccccccccccccccccccccccchhhHHHhccchHHHHHhhhhhhhhcccccc
Confidence            5678889999999999998887665 78899999999999999999998888765421                      


Q ss_pred             -------------------------CC---CChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHc
Q 039637           61 -------------------------IS---PDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGK  112 (159)
Q Consensus        61 -------------------------~~---~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~  112 (159)
                                               ..   ++...+..+...+...|++++|+..+++..... +-+..++..+...|.+
T Consensus       140 ~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~  218 (323)
T d1fcha_         140 KRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLAN  218 (323)
T ss_dssp             -CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             hhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHhhhhcccccccccc-cccccchhhhhhcccc
Confidence                                     11   123445666777888999999999999988764 3367788999999999


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637          113 MRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus       113 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      .|++++|.+.|++..... +-+..++..+..+|.+.|++++|.+.|
T Consensus       219 ~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~  263 (323)
T d1fcha_         219 GNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHREAVEHF  263 (323)
T ss_dssp             TTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             cccchhHHHHHHHHHHHh-hccHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            999999999999887643 335778899999999999999999876

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.27  E-value=6.5e-10  Score=74.18  Aligned_cols=152  Identities=12%  Similarity=0.010  Sum_probs=88.9

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHH-HHccChHHH
Q 039637            5 FCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKY-FCKEKMYML   83 (159)
Q Consensus         5 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~-~~~~~~~~~   83 (159)
                      ..+.|++++|..+|+.+.+..+.....+|...+....+.|+.+.|.++|.+..+.+. .+...|...... +...|+.+.
T Consensus       109 ~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~~-~~~~~~~~~a~~e~~~~~~~~~  187 (308)
T d2onda1         109 EESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDAR-TRHHVYVTAALMEYYCSKDKSV  187 (308)
T ss_dssp             HHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTT-CCTHHHHHHHHHHHHTSCCHHH
T ss_pred             HHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHhccCHHH
Confidence            345566777777777666554443345666666666666777777777766665431 122222222221 233466666


Q ss_pred             HHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCC-CCC--CHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637           84 AYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSK-RSM--CKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus        84 a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~-~~~--~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      |..+|+.+.+. .+.++..|...+....+.|+++.|..+|++..... .+|  ....|...+..-...|+.+.+.+++
T Consensus       188 a~~i~e~~l~~-~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~  264 (308)
T d2onda1         188 AFKIFELGLKK-YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVE  264 (308)
T ss_dssp             HHHHHHHHHHH-HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHH
T ss_pred             HHHHHHHHHHh-hhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            77777766654 23345666677777777777777777777655432 232  2346666666666777777766654

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.27  E-value=8.2e-10  Score=73.69  Aligned_cols=151  Identities=7%  Similarity=-0.036  Sum_probs=121.3

Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHH
Q 039637            7 RSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYR   86 (159)
Q Consensus         7 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~   86 (159)
                      ..+..++|..+|++..+..++.+...|...+....+.|+++.|..+|+++.+.........|...+..+.+.|+.+.|++
T Consensus        76 ~~~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~  155 (308)
T d2onda1          76 AKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRM  155 (308)
T ss_dssp             HHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHH
T ss_pred             cccchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHH
Confidence            44567899999999887655557889999999999999999999999999874322234578889999999999999999


Q ss_pred             HHHHHHHcCCCCcHHHHHHHHHH-HHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhhC
Q 039637           87 TMVDMHRKGHQPEEELCSSLIFH-LGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVVK  159 (159)
Q Consensus        87 ~~~~m~~~g~~~~~~~~~~li~~-~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  159 (159)
                      +|....+.+. .+...|...... +...|+.+.|.++|+.+... .+.+...+...+..+.+.|+.+.|..+|+
T Consensus       156 i~~~al~~~~-~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~-~p~~~~~w~~y~~~~~~~g~~~~aR~~fe  227 (308)
T d2onda1         156 IFKKAREDAR-TRHHVYVTAALMEYYCSKDKSVAFKIFELGLKK-YGDIPEYVLAYIDYLSHLNEDNNTRVLFE  227 (308)
T ss_dssp             HHHHHHTSTT-CCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHHHhCC-CcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh-hhhhHHHHHHHHHHHHHcCChHHHHHHHH
Confidence            9999987653 344455444433 34568999999999988864 45578899999999999999999998874

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=99.25  E-value=1.7e-09  Score=69.88  Aligned_cols=114  Identities=10%  Similarity=-0.023  Sum_probs=83.5

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC-hhhHHHHHHHHHccChH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMY   81 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~   81 (159)
                      ..|.+.|++++|.+.|++..+..+. ++.+|+.+..++.+.|++++|++.|++..+.  .|+ ..++..+..++...|++
T Consensus        45 ~~y~~~g~~~~A~~~~~~al~l~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~g~~  121 (259)
T d1xnfa_          45 VLYDSLGLRALARNDFSQALAIRPD-MPEVFNYLGIYLTQAGNFDAAYEAFDSVLEL--DPTYNYAHLNRGIALYYGGRD  121 (259)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCTHHHHHHHHHHHHTTCH
T ss_pred             HHHHHCCCHHHHHHHHHHhhccCCC-CHHHHhhhchHHHHHHHHHHhhhhhhHHHHH--HhhhhhhHHHHHHHHHHHhhH
Confidence            3577889999999999988877665 7888999999999999999999999998884  454 56777788888899999


Q ss_pred             HHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHH
Q 039637           82 MLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEAL  120 (159)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~  120 (159)
                      ++|.+.++...+.. +.+......+..++.+.+..+.+.
T Consensus       122 ~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~  159 (259)
T d1xnfa_         122 KLAQDDLLAFYQDD-PNDPFRSLWLYLAEQKLDEKQAKE  159 (259)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCHHHHHH
T ss_pred             HHHHHHHHHHHhhc-cccHHHHHHHHHHHHHhhhHHHHH
Confidence            99999998887754 223333333333334444433333

>d1hh8a_ a.118.8.1 (A:) Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Neutrophil cytosolic factor 2 (NCF-2, p67-phox)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.19  E-value=1.7e-09  Score=67.48  Aligned_cols=138  Identities=9%  Similarity=0.049  Sum_probs=107.5

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC-hhhHHHHHHHHHccChHH
Q 039637            4 AFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYM   82 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~~   82 (159)
                      .+...|++++|++.|+.+.    +|+..+|..+..+|.+.|++++|++.|++..+.  .|+ ...|..+-.++.+.|+++
T Consensus        14 ~~~~~~d~~~Al~~~~~i~----~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~l--dp~~~~a~~~~g~~~~~~g~~~   87 (192)
T d1hh8a_          14 LAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINR--DKHLAVAYFQRGMLYYQTEKYD   87 (192)
T ss_dssp             HHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHCCCHHHHHHHHHhcC----CCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHH--hhhhhhhHHHHHHHHHhhccHH
Confidence            4677899999999997653    467888999999999999999999999999984  454 678888999999999999


Q ss_pred             HHHHHHHHHHHcCC------------C--C-cHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 039637           83 LAYRTMVDMHRKGH------------Q--P-EEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILIS  147 (159)
Q Consensus        83 ~a~~~~~~m~~~g~------------~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  147 (159)
                      +|.+.|++......            .  + ...++..+..++.+.|++++|...++........+........+..+.+
T Consensus        88 ~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~~~~~~~~~Al~~~~~  167 (192)
T d1hh8a_          88 LAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEPRHSKIDKAMECVWK  167 (192)
T ss_dssp             HHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSGGGGHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcchHHHHHHHHHHHh
Confidence            99999998875311            1  1 1245567788899999999999999988865555544444444544443

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.13  E-value=2.2e-09  Score=71.96  Aligned_cols=142  Identities=9%  Similarity=0.042  Sum_probs=112.9

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC-ChHHHHHHHHHhHhcCCCC-ChhhHHHHHHHHHccChH
Q 039637            4 AFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTG-DMESVMHVMRKLDELAISP-DYNTFHILIKYFCKEKMY   81 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~-~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~~~~   81 (159)
                      .+.+.+.+++|++.+++..+.+|. +...|+....++...| ++++|+..+++..+.  .| +..+|..+-..+.+.|++
T Consensus        52 ~~~~~e~~~~Al~~~~~ai~lnP~-~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~--~p~~~~a~~~~~~~~~~l~~~  128 (315)
T d2h6fa1          52 VLQRDERSERAFKLTRDAIELNAA-NYTVWHFRRVLLKSLQKDLHEEMNYITAIIEE--QPKNYQVWHHRRVLVEWLRDP  128 (315)
T ss_dssp             HHHHTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCC
T ss_pred             HHHhCCchHHHHHHHHHHHHHCCC-ChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHH--HHhhhhHHHHHhHHHHhhccH
Confidence            355678899999999999987766 7888999888888866 589999999998874  34 468888888889999999


Q ss_pred             HHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCc
Q 039637           82 MLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKL  150 (159)
Q Consensus        82 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  150 (159)
                      ++|++.+..+.+.. +-+..+|..+...+.+.|++++|...+++..... +-+...|+.....+.+.+.
T Consensus       129 ~eAl~~~~kal~~d-p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~-p~n~~a~~~r~~~l~~~~~  195 (315)
T d2h6fa1         129 SQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTG  195 (315)
T ss_dssp             TTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHhhhhhhh-hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHC-CccHHHHHHHHHHHHHccc
Confidence            99999999998864 3478888889999999999999999999888643 3355566666555555444

>d1elwa_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.07  E-value=9.7e-09  Score=58.84  Aligned_cols=87  Identities=14%  Similarity=0.072  Sum_probs=43.0

Q ss_pred             HHHHhcCChHHHHHHHHHhHhcCCCC-ChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCH
Q 039637           38 CAYCRTGDMESVMHVMRKLDELAISP-DYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAH  116 (159)
Q Consensus        38 ~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~  116 (159)
                      +.+.+.|++++|+..|.+..+.  .| +...|..+-.++...|++++|+..+....+.. +.++..|..+..++...|++
T Consensus        11 ~~~~~~g~~~eAi~~~~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~~   87 (117)
T d1elwa_          11 NKALSVGNIDDALQCYSEAIKL--DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNRF   87 (117)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhc--CCcchhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccCH
Confidence            3444555555555555555442  22 23444445555555555555555555555432 23444555555555555555


Q ss_pred             HHHHHHHHHHH
Q 039637          117 SEALSVYNMLR  127 (159)
Q Consensus       117 ~~a~~~~~~~~  127 (159)
                      ++|...|++..
T Consensus        88 ~~A~~~~~~a~   98 (117)
T d1elwa_          88 EEAKRTYEEGL   98 (117)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            55555555554

>d1a17a_ a.118.8.1 (A:) Protein phosphatase 5 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Protein phosphatase 5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.06  E-value=8.8e-09  Score=62.12  Aligned_cols=89  Identities=10%  Similarity=0.040  Sum_probs=69.9

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC-hhhHHHHHHHHHccChHH
Q 039637            4 AFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYM   82 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~~   82 (159)
                      .|.+.|++++|...|++..+..+. +...|..+..+|...|++++|.+.|++.++.  .|+ ...|..+..++...|+++
T Consensus        19 ~~~~~~~y~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~--~p~~~~a~~~~g~~~~~~g~~~   95 (159)
T d1a17a_          19 DYFKAKDYENAIKFYSQAIELNPS-NAIYYGNRSLAYLRTECYGYALGDATRAIEL--DKKYIKGYYRRAASNMALGKFR   95 (159)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHcCCHHHHHHHhhhccccchh-hhhhhhhhHHHHHhccccchHHHHHHHHHHH--cccchHHHHHHHHHHHHcCCHH
Confidence            467788888888888888877665 7788888888888888888888888888774  354 467777888888888888


Q ss_pred             HHHHHHHHHHHcC
Q 039637           83 LAYRTMVDMHRKG   95 (159)
Q Consensus        83 ~a~~~~~~m~~~g   95 (159)
                      +|...+.+..+..
T Consensus        96 eA~~~~~~a~~~~  108 (159)
T d1a17a_          96 AALRDYETVVKVK  108 (159)
T ss_dssp             HHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHcC
Confidence            8888888887753

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=99.00  E-value=2.4e-08  Score=64.29  Aligned_cols=141  Identities=11%  Similarity=-0.111  Sum_probs=107.2

Q ss_pred             cCCHHHHHHHHHHHHhCCCC-C--CHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC-hhhHHHHHHHHHccChHHH
Q 039637            8 SGCFEETKQLAGDFEAKYDK-Y--DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYML   83 (159)
Q Consensus         8 ~~~~~~A~~~~~~~~~~~~~-~--~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~~~   83 (159)
                      ..+.+.|+.-+++....... +  ...+|..+...|.+.|++++|.+.|++..+.  .|+ ..+|..+-.++.+.|++++
T Consensus        12 ~~~~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l--~p~~~~a~~~lg~~~~~~g~~~~   89 (259)
T d1xnfa_          12 TLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAI--RPDMPEVFNYLGIYLTQAGNFDA   89 (259)
T ss_dssp             CHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTCHHH
T ss_pred             cHHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhcc--CCCCHHHHhhhchHHHHHHHHHH
Confidence            34566777777777755332 1  2347778889999999999999999999984  454 6888899999999999999


Q ss_pred             HHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHH
Q 039637           84 AYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLK  152 (159)
Q Consensus        84 a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  152 (159)
                      |++.|++..+.. +-+..++..+..+|...|++++|...|++..... +.+......+...+.+.+..+
T Consensus        90 A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~  156 (259)
T d1xnfa_          90 AYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD-PNDPFRSLWLYLAEQKLDEKQ  156 (259)
T ss_dssp             HHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCHHH
T ss_pred             hhhhhhHHHHHH-hhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhc-cccHHHHHHHHHHHHHhhhHH
Confidence            999999999864 2356788889999999999999999999887643 334444444444445544433

>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=98.95  E-value=1.1e-08  Score=63.62  Aligned_cols=88  Identities=11%  Similarity=0.053  Sum_probs=77.6

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC-hhhHHHHHHHHHccChH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMY   81 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~   81 (159)
                      +.|.+.|++++|++.|+...+..|. +...|+.+..+|.+.|++++|+..|.+..+  +.|+ ..+|..+..++...|++
T Consensus        12 n~~~~~g~~~~Ai~~~~kal~~~p~-~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~--l~p~~~~a~~~lg~~~~~l~~~   88 (201)
T d2c2la1          12 NRLFVGRKYPEAAACYGRAITRNPL-VAVYYTNRALCYLKMQQPEQALADCRRALE--LDGQSVKAHFFLGQCQLEMESY   88 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHTT--SCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHhHHHHHhhhhhhhhhhHHHHHHHH--hCCCcHHHHHHHHHHHHHCCCH
Confidence            4678899999999999998887765 889999999999999999999999999887  5565 67888899999999999


Q ss_pred             HHHHHHHHHHHH
Q 039637           82 MLAYRTMVDMHR   93 (159)
Q Consensus        82 ~~a~~~~~~m~~   93 (159)
                      ++|+..|++..+
T Consensus        89 ~~A~~~~~~al~  100 (201)
T d2c2la1          89 DEAIANLQRAYS  100 (201)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999998775

>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=98.94  E-value=3.5e-08  Score=61.37  Aligned_cols=121  Identities=9%  Similarity=-0.044  Sum_probs=97.8

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHH
Q 039637           32 LLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLG  111 (159)
Q Consensus        32 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  111 (159)
                      .|+- ...+...|++++|++.|.++    ..|+..+|..+-.++...|++++|++.|++.++.. +-++..|..+..+|.
T Consensus         8 l~~~-g~~~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~~~   81 (192)
T d1hh8a_           8 LWNE-GVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYY   81 (192)
T ss_dssp             HHHH-HHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHH-HHHHHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh-hhhhhhHHHHHHHHH
Confidence            4543 55667899999999999865    34777888899999999999999999999999875 346789999999999


Q ss_pred             ccCCHHHHHHHHHHHHhCCC--------------CCC-HHHHHHHHHHHHhcCcHHHHhhhh
Q 039637          112 KMRAHSEALSVYNMLRYSKR--------------SMC-KALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus       112 ~~g~~~~a~~~~~~~~~~~~--------------~~~-~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      +.|++++|...|++......              +++ ..++..+..++.+.|++++|.+.|
T Consensus        82 ~~g~~~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l  143 (192)
T d1hh8a_          82 QTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQL  143 (192)
T ss_dssp             HTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             hhccHHHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            99999999999998764211              111 355667788899999999998765

>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=98.94  E-value=1.2e-08  Score=57.96  Aligned_cols=89  Identities=8%  Similarity=0.009  Sum_probs=65.4

Q ss_pred             HHHHHHHhcCChHHHHHHHHHhHhcCCCC-ChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHcc
Q 039637           35 SMLCAYCRTGDMESVMHVMRKLDELAISP-DYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKM  113 (159)
Q Consensus        35 ~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~  113 (159)
                      .+...+.+.|++++|...|++....  .| +...|..+..++.+.|++++|+..+++..+.. +.+...+..+...|...
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            3455667778888888888887774  34 46777777777888888888888888777653 34567777788888888


Q ss_pred             CCHHHHHHHHHHH
Q 039637          114 RAHSEALSVYNML  126 (159)
Q Consensus       114 g~~~~a~~~~~~~  126 (159)
                      |+.++|.+.+++.
T Consensus        98 g~~~~A~~~l~~~  110 (112)
T d1hxia_          98 HNANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHH
Confidence            8888888877764

>d1a17a_ a.118.8.1 (A:) Protein phosphatase 5 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Protein phosphatase 5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.90  E-value=1e-07  Score=57.23  Aligned_cols=120  Identities=13%  Similarity=0.058  Sum_probs=92.2

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHc
Q 039637           33 LNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGK  112 (159)
Q Consensus        33 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~  112 (159)
                      +....+.|.+.|++++|+..|.+..+.. +-+...|..+..++...|++++|...|.+.++.. +-+..+|..+..+|..
T Consensus        13 l~~~gn~~~~~~~y~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~   90 (159)
T d1a17a_          13 LKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMA   90 (159)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHhhhccccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHH
Confidence            3344667889999999999999999853 2346778888899999999999999999999864 3467899999999999


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH--HHhcCcHHHHh
Q 039637          113 MRAHSEALSVYNMLRYSKRSMCKALHEKILHI--LISGKLLKDAY  155 (159)
Q Consensus       113 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~g~~~~A~  155 (159)
                      .|++++|...+++..... +-+...+..+..+  ..+.+.+++|.
T Consensus        91 ~g~~~eA~~~~~~a~~~~-p~~~~~~~~l~~~~~~~~~~~~~~a~  134 (159)
T d1a17a_          91 LGKFRAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAI  134 (159)
T ss_dssp             TTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999888643 3344444444333  33444455554

>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=98.87  E-value=3.7e-07  Score=51.96  Aligned_cols=101  Identities=15%  Similarity=0.061  Sum_probs=85.5

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYM   82 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   82 (159)
                      +.+.+.|++++|...|+...+..+. +...|..+..+|.+.|++++|+..+.+..+.+ +.+...|..+..++...|+++
T Consensus        11 ~~~~~~g~~~eAi~~~~~al~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~~~   88 (117)
T d1elwa_          11 NKALSVGNIDDALQCYSEAIKLDPH-NHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNRFE   88 (117)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCc-chhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccCHH
Confidence            4578899999999999999988776 89999999999999999999999999999864 345788889999999999999


Q ss_pred             HHHHHHHHHHHcCCCCcHHHHHHH
Q 039637           83 LAYRTMVDMHRKGHQPEEELCSSL  106 (159)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~~l  106 (159)
                      +|+..+++..+.. +-++..+..+
T Consensus        89 ~A~~~~~~a~~~~-p~~~~~~~~l  111 (117)
T d1elwa_          89 EAKRTYEEGLKHE-ANNPQLKEGL  111 (117)
T ss_dssp             HHHHHHHHHHTTC-TTCHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHH
Confidence            9999999999753 2244444433

>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=98.87  E-value=6.2e-08  Score=60.05  Aligned_cols=99  Identities=7%  Similarity=-0.188  Sum_probs=85.4

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHH
Q 039637           28 YDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLI  107 (159)
Q Consensus        28 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li  107 (159)
                      |+...+....+.|.+.|++++|+..|.+..+.. +.+...|..+..+|.+.|++++|+..+...++.. +-++.+|..+.
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~-p~~~~a~~~lg   79 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLG   79 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhC-CCcHHHHHHHH
Confidence            677777888899999999999999999998853 2346778899999999999999999999998753 23677899999


Q ss_pred             HHHHccCCHHHHHHHHHHHHh
Q 039637          108 FHLGKMRAHSEALSVYNMLRY  128 (159)
Q Consensus       108 ~~~~~~g~~~~a~~~~~~~~~  128 (159)
                      .+|.+.|++++|...|++...
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHH
Confidence            999999999999999997653

>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=98.86  E-value=9.8e-08  Score=63.72  Aligned_cols=146  Identities=6%  Similarity=-0.019  Sum_probs=111.8

Q ss_pred             HHhcC-CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCC-ChhhHHHHHHHHHccChHH
Q 039637            5 FCRSG-CFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP-DYNTFHILIKYFCKEKMYM   82 (159)
Q Consensus         5 ~~~~~-~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~~~~~   82 (159)
                      +...| ++++|++.++...+..+. +..+|+.+...+.+.|++++|++.+.++.+.  .| +...|..+...+...|+++
T Consensus        87 l~~l~~~~~eal~~~~~al~~~p~-~~~a~~~~~~~~~~l~~~~eAl~~~~kal~~--dp~n~~a~~~~~~~~~~~~~~~  163 (315)
T d2h6fa1          87 LKSLQKDLHEEMNYITAIIEEQPK-NYQVWHHRRVLVEWLRDPSQELEFIADILNQ--DAKNYHAWQHRQWVIQEFKLWD  163 (315)
T ss_dssp             HHHTTCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCCT
T ss_pred             HHHhCcCHHHHHHHHHHHHHHHHh-hhhHHHHHhHHHHhhccHHHHHHHHhhhhhh--hhcchHHHHHHHHHHHHHHhhH
Confidence            34445 589999999999887776 8999999999999999999999999999984  44 4789999999999999999


Q ss_pred             HHHHHHHHHHHcCCCCcHHHHHHHHHHHHccC------CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhh
Q 039637           83 LAYRTMVDMHRKGHQPEEELCSSLIFHLGKMR------AHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYI  156 (159)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g------~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  156 (159)
                      +|++.+++.++.. +-+...|+.+...+.+.+      .+++|...+.+..... |.+...|..+...+...| .+++.+
T Consensus       164 ~Al~~~~~al~~~-p~n~~a~~~r~~~l~~~~~~~~~~~~~~ai~~~~~al~~~-P~~~~~~~~l~~ll~~~~-~~~~~~  240 (315)
T d2h6fa1         164 NELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYNDRAVLEREVQYTLEMIKLV-PHNESAWNYLKGILQDRG-LSKYPN  240 (315)
T ss_dssp             THHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSCSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTTTC-GGGCHH
T ss_pred             HHHHHHHHHHHHC-CccHHHHHHHHHHHHHccccchhhhhHHhHHHHHHHHHhC-CCchHHHHHHHHHHHhcC-hHHHHH
Confidence            9999999999875 346677776665555444      3678888888776533 346666666655555443 344433

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.80  E-value=8.2e-08  Score=63.26  Aligned_cols=156  Identities=8%  Similarity=-0.134  Sum_probs=110.5

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCC---C--ChhhHHHHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAK----YDKY-DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAIS---P--DYNTFHILI   72 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~----~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~---~--~~~~~~~ll   72 (159)
                      +.|-..|++++|.+.|.+..+.    +-.+ -..+|+.+..+|.+.|++++|.+.+++..+.-..   +  ...++..+.
T Consensus        45 ~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~  124 (290)
T d1qqea_          45 TIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELG  124 (290)
T ss_dssp             HHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHHH
Confidence            4677889999999999876542    2222 2358899999999999999999999987653111   1  134555666


Q ss_pred             HHHH-ccChHHHHHHHHHHHHH----cCCCC-cHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCC------HHHHHH
Q 039637           73 KYFC-KEKMYMLAYRTMVDMHR----KGHQP-EEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMC------KALHEK  140 (159)
Q Consensus        73 ~~~~-~~~~~~~a~~~~~~m~~----~g~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~------~~~~~~  140 (159)
                      ..|. ..|++++|.+.+.+..+    .+.++ ...++..+...|.+.|++++|...|+++........      ...+..
T Consensus       125 ~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (290)
T d1qqea_         125 EILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLK  204 (290)
T ss_dssp             HHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHH
T ss_pred             HhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHHHH
Confidence            6664 46999999999988763    22222 234677889999999999999999998875432211      123445


Q ss_pred             HHHHHHhcCcHHHHhhhh
Q 039637          141 ILHILISGKLLKDAYIVV  158 (159)
Q Consensus       141 l~~~~~~~g~~~~A~~~~  158 (159)
                      .+..+...|+.+.|...+
T Consensus       205 ~~~~~l~~~d~~~A~~~~  222 (290)
T d1qqea_         205 KGLCQLAATDAVAAARTL  222 (290)
T ss_dssp             HHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHhccHHHHHHHH
Confidence            566777889999887765

>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=98.77  E-value=3.4e-08  Score=56.95  Aligned_cols=92  Identities=12%  Similarity=0.041  Sum_probs=41.3

Q ss_pred             HHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHcc---ChHHHHHHHHHHHHHcCCCCc-HHHHHHHHHHHH
Q 039637           36 MLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKE---KMYMLAYRTMVDMHRKGHQPE-EELCSSLIFHLG  111 (159)
Q Consensus        36 ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~---~~~~~a~~~~~~m~~~g~~~~-~~~~~~li~~~~  111 (159)
                      +++.+...+++++|.+.|++....+ +.+..++..+..++.+.   ++.++|+.+++++.+....|+ ..++..+..+|.
T Consensus         5 l~n~~~~~~~l~~Ae~~Y~~aL~~~-p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y~   83 (122)
T d1nzna_           5 VLNELVSVEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNY   83 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHHH
Confidence            4444445555555555555554432 12234444444444432   233345555555444332222 123444455555


Q ss_pred             ccCCHHHHHHHHHHHHh
Q 039637          112 KMRAHSEALSVYNMLRY  128 (159)
Q Consensus       112 ~~g~~~~a~~~~~~~~~  128 (159)
                      +.|++++|.+.|++...
T Consensus        84 ~~g~~~~A~~~~~~aL~  100 (122)
T d1nzna_          84 RLKEYEKALKYVRGLLQ  100 (122)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HHhhhHHHHHHHHHHHH
Confidence            55555555555555543

>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=98.71  E-value=7.5e-08  Score=55.87  Aligned_cols=53  Identities=11%  Similarity=0.147  Sum_probs=26.2

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHh
Q 039637            5 FCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDE   58 (159)
Q Consensus         5 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~   58 (159)
                      +.+.|++++|++.|.+..+.++. +..+|..+..+|.+.|++++|+..+.+.++
T Consensus        14 ~~~~~~y~~Ai~~y~~al~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~al~   66 (128)
T d1elra_          14 AYKKKDFDTALKHYDKAKELDPT-NMTYITNQAAVYFEKGDYNKCRELCEKAIE   66 (128)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCcc-cHHHHHhHHHHHHHcCchHHHHHHHHHHHH
Confidence            44445555555555554444433 444555555555555555555555554443

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Trypanosoma brucei [TaxId: 5691]

Probab=98.71  E-value=1.9e-07  Score=52.79  Aligned_cols=83  Identities=10%  Similarity=-0.017  Sum_probs=40.4

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC-hhhHHHHHHHHHccChHHH
Q 039637            5 FCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYML   83 (159)
Q Consensus         5 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~~~   83 (159)
                      +.+.|++++|...|+...+..+. +..+|..+..++.+.|++++|+..|++..+.  .|+ ...+..+..+|...|++++
T Consensus        26 ~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~a~~~la~~y~~~g~~~~  102 (112)
T d1hxia_          26 MLKLANLAEAALAFEAVCQKEPE-REEAWRSLGLTQAENEKDGLAIIALNHARML--DPKDIAVHAALAVSHTNEHNANA  102 (112)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhhhHHHHHHHhhhcccccc-cchhhhhhhhhhhhhhhHHHhhccccccccc--ccccccchHHHHHHHHHCCCHHH
Confidence            34445555555555555444333 4455555555555555555555555554442  232 3444444455555555555


Q ss_pred             HHHHHHH
Q 039637           84 AYRTMVD   90 (159)
Q Consensus        84 a~~~~~~   90 (159)
                      |.+.+++
T Consensus       103 A~~~l~~  109 (112)
T d1hxia_         103 ALASLRA  109 (112)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            5555444

>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=98.70  E-value=8.3e-07  Score=53.85  Aligned_cols=107  Identities=7%  Similarity=0.003  Sum_probs=71.7

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCC--------------CHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCC-Chhh
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKY--------------DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP-DYNT   67 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~--------------~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~   67 (159)
                      +.+.+.|++++|.+.|....+..+..              -..+|+.+..+|.+.|++++|+..+.+....  .| +...
T Consensus        21 ~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~y~k~~~~~~A~~~~~~al~~--~p~~~~a   98 (170)
T d1p5qa1          21 TVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALEL--DSNNEKG   98 (170)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHhhhccccchHHHhhhchhHHHHHHHHHHHHHhhhhcccccchhhhhhhc--cccchhh
Confidence            35778899999999998776442211              1235666777777888888888888877774  35 5677


Q ss_pred             HHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHc
Q 039637           68 FHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGK  112 (159)
Q Consensus        68 ~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~  112 (159)
                      +..+..++...|++++|+..|++..+.. +-+..+...+-....+
T Consensus        99 ~~~~g~~~~~~g~~~~A~~~~~~al~l~-P~n~~~~~~l~~~~~~  142 (170)
T d1p5qa1          99 LSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQQR  142 (170)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHH
Confidence            7777778888888888888888877653 1244444444443333

>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=98.61  E-value=2e-07  Score=53.58  Aligned_cols=97  Identities=9%  Similarity=0.009  Sum_probs=79.1

Q ss_pred             ChhHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC---hHHHHHHHHHhHhcCCCCC-hhhHHHHHHHHH
Q 039637            1 MISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGD---MESVMHVMRKLDELAISPD-YNTFHILIKYFC   76 (159)
Q Consensus         1 ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~---~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~   76 (159)
                      +++.+...+++++|.+.|+...+.++. ++.++..+..++.+.++   +++|+.+|++....+..|+ ..++..+-.+|.
T Consensus         5 l~n~~~~~~~l~~Ae~~Y~~aL~~~p~-~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y~   83 (122)
T d1nzna_           5 VLNELVSVEDLLKFEKKFQSEKAAGSV-SKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNY   83 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHSCC-CHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHHH
Confidence            356788889999999999999988766 88899999999987554   5579999999887543333 246777889999


Q ss_pred             ccChHHHHHHHHHHHHHcCCCCcH
Q 039637           77 KEKMYMLAYRTMVDMHRKGHQPEE  100 (159)
Q Consensus        77 ~~~~~~~a~~~~~~m~~~g~~~~~  100 (159)
                      +.|++++|++.|++.++..  |+.
T Consensus        84 ~~g~~~~A~~~~~~aL~~~--P~~  105 (122)
T d1nzna_          84 RLKEYEKALKYVRGLLQTE--PQN  105 (122)
T ss_dssp             HTTCHHHHHHHHHHHHHHC--TTC
T ss_pred             HHhhhHHHHHHHHHHHHhC--cCC
Confidence            9999999999999999853  543

>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=98.60  E-value=3.6e-06  Score=50.96  Aligned_cols=114  Identities=10%  Similarity=-0.024  Sum_probs=86.6

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHhHhcCC-CC-------------ChhhHHHHHHHHHccChHHHHHHHHHHHHHcCC
Q 039637           31 VLLNSMLCAYCRTGDMESVMHVMRKLDELAI-SP-------------DYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGH   96 (159)
Q Consensus        31 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~-~~-------------~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~   96 (159)
                      ..+....+.+.+.|++++|+..|.+....-- .+             ...+|+.+..+|.+.|++++|+..++..++.. 
T Consensus        14 ~~l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~y~k~~~~~~A~~~~~~al~~~-   92 (170)
T d1p5qa1          14 TIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELD-   92 (170)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhccccchHHHhhhchhHHHHHHHHHHHHHhhhhcccccchhhhhhhcc-
Confidence            3455567789999999999999998876411 11             12456678888999999999999999999864 


Q ss_pred             CCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 039637           97 QPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILI  146 (159)
Q Consensus        97 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  146 (159)
                      +.++.++..+..+|...|++++|...|+...... |-+..+...+-...-
T Consensus        93 p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~-P~n~~~~~~l~~~~~  141 (170)
T d1p5qa1          93 SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQQ  141 (170)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHH
T ss_pred             ccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence            3478899999999999999999999999988643 225555544444433

>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Transcription factor MalT domain III
domain: Transcription factor MalT domain III
species: Escherichia coli [TaxId: 562]

Probab=98.59  E-value=6.1e-06  Score=54.39  Aligned_cols=155  Identities=12%  Similarity=0.002  Sum_probs=110.1

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCC----HHHHHHHHHHHHhcCChHHHHHHHHHhHhcCC-CCC----hhhHHHHHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYD----VVLLNSMLCAYCRTGDMESVMHVMRKLDELAI-SPD----YNTFHILIK   73 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~-~~~----~~~~~~ll~   73 (159)
                      ..+...|++++|.++++...+..+..+    ...++.+...+...|++++|...|.+..+... .++    ..++..+..
T Consensus        20 ~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~   99 (366)
T d1hz4a_          20 QVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSE   99 (366)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHH
Confidence            356789999999999999877644322    34677888999999999999999998775321 111    244556677


Q ss_pred             HHHccChHHHHHHHHHHHHH----cCCC--C-cHHHHHHHHHHHHccCCHHHHHHHHHHHHhC----CCCCCHHHHHHHH
Q 039637           74 YFCKEKMYMLAYRTMVDMHR----KGHQ--P-EEELCSSLIFHLGKMRAHSEALSVYNMLRYS----KRSMCKALHEKIL  142 (159)
Q Consensus        74 ~~~~~~~~~~a~~~~~~m~~----~g~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~~~~~~~~~l~  142 (159)
                      .+...|++..+...+.....    .+..  + ....+..+...+...|+++.+...++.....    +.......+....
T Consensus       100 ~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  179 (366)
T d1hz4a_         100 ILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLI  179 (366)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHH
Confidence            78889999999998887653    2221  1 1235556778888999999999999877642    2223344556666


Q ss_pred             HHHHhcCcHHHHhhh
Q 039637          143 HILISGKLLKDAYIV  157 (159)
Q Consensus       143 ~~~~~~g~~~~A~~~  157 (159)
                      ..+...++..++...
T Consensus       180 ~~~~~~~~~~~a~~~  194 (366)
T d1hz4a_         180 QCSLARGDLDNARSQ  194 (366)
T ss_dssp             HHHHHHTCHHHHHHH
T ss_pred             HHHHhhhhHHHHHHH
Confidence            777777777776654

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=98.58  E-value=1.5e-07  Score=61.34  Aligned_cols=123  Identities=12%  Similarity=0.020  Sum_probs=85.0

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCCh-hhHHHHHHHHHccChHH
Q 039637            4 AFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDY-NTFHILIKYFCKEKMYM   82 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~-~~~~~ll~~~~~~~~~~   82 (159)
                      ...+.|++++|++.++...+..|. |...+..+...++..|++++|...|+...+  ..|+. ..+..+...+...+...
T Consensus         5 ~aL~~G~l~eAl~~l~~al~~~P~-d~~ar~~La~lL~~~G~~e~A~~~l~~a~~--l~P~~~~~~~~l~~ll~a~~~~~   81 (264)
T d1zbpa1           5 NALSEGQLQQALELLIEAIKASPK-DASLRSSFIELLCIDGDFERADEQLMQSIK--LFPEYLPGASQLRHLVKAAQARK   81 (264)
T ss_dssp             HHTTTTCHHHHHHHHHHHHHTCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HCGGGHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCCCcHHHHHHHHHHHHhccccH
Confidence            356789999999999999998876 999999999999999999999999999988  45654 33433333333333333


Q ss_pred             HHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 039637           83 LAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYS  129 (159)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  129 (159)
                      ++......-...+.+++..........+.+.|+.++|...++.+.+.
T Consensus        82 ~a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~  128 (264)
T d1zbpa1          82 DFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  128 (264)
T ss_dssp             HHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc
Confidence            22211111111122223344445567788889999999999987653

>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=98.49  E-value=5.8e-06  Score=50.50  Aligned_cols=71  Identities=13%  Similarity=-0.031  Sum_probs=57.4

Q ss_pred             hhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHh-----CCCCCCHHH
Q 039637           66 NTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRY-----SKRSMCKAL  137 (159)
Q Consensus        66 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~-----~~~~~~~~~  137 (159)
                      ..+..+..++.+.|++++|+..+++..+.. +.+...|..++.+|.+.|+.++|.+.|++...     -|+.|+..+
T Consensus        68 ~a~~~la~~~~~~g~~~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          68 LAHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHHHHCCCchHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            356677888888899999999998888763 45778888999999999999999999887643     478888765

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.48  E-value=6.5e-06  Score=53.92  Aligned_cols=156  Identities=6%  Similarity=-0.078  Sum_probs=104.0

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhC----C-CCCCHHHHHHHHHHHHh-cCChHHHHHHHHHhHhc----CCCC-ChhhHHHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAK----Y-DKYDVVLLNSMLCAYCR-TGDMESVMHVMRKLDEL----AISP-DYNTFHIL   71 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~----~-~~~~~~~~~~ll~~~~~-~~~~~~a~~~~~~m~~~----~~~~-~~~~~~~l   71 (159)
                      ..|.+.|++++|.+.++...+.    | ......++..+...|.. .|++++|++.|.+..+.    +-.+ ...++..+
T Consensus        85 ~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~l  164 (290)
T d1qqea_          85 KCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKC  164 (290)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHH
Confidence            4677899999999999975432    1 11224566677777754 69999999999887642    2111 13557788


Q ss_pred             HHHHHccChHHHHHHHHHHHHHcCCCCc-----H-HHHHHHHHHHHccCCHHHHHHHHHHHHhCCCC-CC---HHHHHHH
Q 039637           72 IKYFCKEKMYMLAYRTMVDMHRKGHQPE-----E-ELCSSLIFHLGKMRAHSEALSVYNMLRYSKRS-MC---KALHEKI  141 (159)
Q Consensus        72 l~~~~~~~~~~~a~~~~~~m~~~g~~~~-----~-~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~-~~---~~~~~~l  141 (159)
                      ...+...|++++|.+.+++.........     . ..+...+..+...|+++.|...+++....... ++   ......+
T Consensus       165 a~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l  244 (290)
T d1qqea_         165 ADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSL  244 (290)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHH
T ss_pred             HHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHH
Confidence            8999999999999999999886532211     1 22344555677889999999999988754321 11   2244566


Q ss_pred             HHHHHh--cCcHHHHhhhh
Q 039637          142 LHILIS--GKLLKDAYIVV  158 (159)
Q Consensus       142 ~~~~~~--~g~~~~A~~~~  158 (159)
                      +.++-.  .+.+++|..-|
T Consensus       245 ~~a~~~~d~e~~~eai~~y  263 (290)
T d1qqea_         245 IDAVNEGDSEQLSEHCKEF  263 (290)
T ss_dssp             HHHHHTTCTTTHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHH
Confidence            666655  23477776544

>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=98.48  E-value=8.5e-06  Score=48.35  Aligned_cols=107  Identities=8%  Similarity=-0.020  Sum_probs=77.3

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHhHhcCC----CC-----------ChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCC
Q 039637           33 LNSMLCAYCRTGDMESVMHVMRKLDELAI----SP-----------DYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQ   97 (159)
Q Consensus        33 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~----~~-----------~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~   97 (159)
                      +..-.+.+.+.|++.+|+..|.+....-.    .+           ...+|+.+..+|.+.|++++|++.+.+.++.. +
T Consensus        20 ~~~~G~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Al~~~~~al~~~-p   98 (153)
T d2fbna1          20 IKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID-K   98 (153)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-T
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHHHhhhhHHHHHHhhHHHHHHHhcccchhhhhhhcccccc-c
Confidence            34445566777777777777777664210    01           12466778888999999999999999988764 4


Q ss_pred             CcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 039637           98 PEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKI  141 (159)
Q Consensus        98 ~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l  141 (159)
                      .++.+|..+..++...|++++|...|++..... |-+..+...+
T Consensus        99 ~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~-P~n~~~~~~l  141 (153)
T d2fbna1          99 NNVKALYKLGVANMYFGFLEEAKENLYKAASLN-PNNLDIRNSY  141 (153)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHH
T ss_pred             hhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHH
Confidence            578899999999999999999999999888643 2244444433

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.45  E-value=6.8e-06  Score=49.52  Aligned_cols=119  Identities=11%  Similarity=0.052  Sum_probs=85.5

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHhHhc--------------CCCC-ChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCC
Q 039637           34 NSMLCAYCRTGDMESVMHVMRKLDEL--------------AISP-DYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQP   98 (159)
Q Consensus        34 ~~ll~~~~~~~~~~~a~~~~~~m~~~--------------~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~   98 (159)
                      ......+.+.|++++|+..|.+..+.              .+.| +...|..+..++.+.|++++|+..+.+.++.. +.
T Consensus        31 ~~~~~~~~~~~~y~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~-p~  109 (169)
T d1ihga1          31 KNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID-PS  109 (169)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhhhhhhhhhhhHHHHHhChhhHHHHHHHHHHHHhhcccchhhhhhhhhhhhh-hh
Confidence            34455667788888888887766431              0112 23456677888999999999999999999864 35


Q ss_pred             cHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHH
Q 039637           99 EEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDA  154 (159)
Q Consensus        99 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  154 (159)
                      ++.+|..+..+|...|++++|...|++..... +.+..+...+..+..+.....++
T Consensus       110 ~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~-p~n~~~~~~l~~~~~~l~~~~~~  164 (169)
T d1ihga1         110 NTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLKVKQKIKAQKDK  164 (169)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhHHHhHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHH
Confidence            77889999999999999999999999888643 33566666666655554444433

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.44  E-value=4.6e-06  Score=50.30  Aligned_cols=109  Identities=10%  Similarity=0.063  Sum_probs=82.8

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhC--------------CCC-CCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCC-Chh
Q 039637            3 SAFCRSGCFEETKQLAGDFEAK--------------YDK-YDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISP-DYN   66 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~--------------~~~-~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~   66 (159)
                      ..+.+.|++++|++.|.+..+.              ... .+...|..+..++.+.|++++|+..+.+..+.  .| +..
T Consensus        35 ~~~~~~~~y~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~--~p~~~~  112 (169)
T d1ihga1          35 NTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEI--DPSNTK  112 (169)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhhhhhhhhhhhHHHHHhChhhHHHHHHHHHHHHhhcccchhhhhhhhhhhh--hhhhhh
Confidence            4567889999999999876431              011 24456788889999999999999999999884  45 467


Q ss_pred             hHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccC
Q 039637           67 TFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMR  114 (159)
Q Consensus        67 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g  114 (159)
                      .|..+..++...|++++|+..|+..++.. +.+..+...+..+..+..
T Consensus       113 a~~~~g~~~~~l~~~~~A~~~~~~al~l~-p~n~~~~~~l~~~~~~l~  159 (169)
T d1ihga1         113 ALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLKVKQKIK  159 (169)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHH
Confidence            88899999999999999999999999864 235556655555444333

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.42  E-value=9.4e-06  Score=54.00  Aligned_cols=146  Identities=9%  Similarity=-0.054  Sum_probs=106.0

Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH----------hcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHcc
Q 039637            9 GCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYC----------RTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKE   78 (159)
Q Consensus         9 ~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~----------~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~   78 (159)
                      +..++|+++++...+..|. +...|+..-..+.          ..|.+.+|+.+++...+.. +-+...|..+..++...
T Consensus        43 ~~~~~al~~~~~~l~~~P~-~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~-pk~~~~~~~~~~~~~~~  120 (334)
T d1dcea1          43 ELDESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRL  120 (334)
T ss_dssp             CCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTC
T ss_pred             cccHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhC-CCcHHHHHHhhHHHHHh
Confidence            3458999999999887665 5666654433322          3345788999999988753 23456666666666665


Q ss_pred             C--hHHHHHHHHHHHHHcCCCCcHHHHH-HHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHh
Q 039637           79 K--MYMLAYRTMVDMHRKGHQPEEELCS-SLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAY  155 (159)
Q Consensus        79 ~--~~~~a~~~~~~m~~~g~~~~~~~~~-~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  155 (159)
                      +  +++++...+....+.. +++...+. .....+...+..++|...++...... +-+...|..+...+.+.|+.++|.
T Consensus       121 ~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~-p~~~~a~~~l~~~~~~~~~~~~A~  198 (334)
T d1dcea1         121 PEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSG  198 (334)
T ss_dssp             SSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHHHHHHSCCCCSS
T ss_pred             ccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCHHHHH
Confidence            5  5889999999998864 34555554 44567778899999999999888654 346778899999999999988876


Q ss_pred             hhh
Q 039637          156 IVV  158 (159)
Q Consensus       156 ~~~  158 (159)
                      ..+
T Consensus       199 ~~~  201 (334)
T d1dcea1         199 PQG  201 (334)
T ss_dssp             SCC
T ss_pred             HHH
Confidence            544

>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=98.40  E-value=5.5e-06  Score=47.67  Aligned_cols=97  Identities=11%  Similarity=0.063  Sum_probs=77.3

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCC-Cc-----HHHHHH
Q 039637           32 LLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQ-PE-----EELCSS  105 (159)
Q Consensus        32 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~-~~-----~~~~~~  105 (159)
                      .+..+.+.+.+.|++++|+..|.+..+.+ +.+...+..+-.+|.+.|++++|+..+.+.++.... +.     ..+|..
T Consensus         6 ~~k~~G~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~   84 (128)
T d1elra_           6 KEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYAR   84 (128)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHH
Confidence            34567788999999999999999999853 234778888999999999999999999998753210 11     246677


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHhC
Q 039637          106 LIFHLGKMRAHSEALSVYNMLRYS  129 (159)
Q Consensus       106 li~~~~~~g~~~~a~~~~~~~~~~  129 (159)
                      +...+...+++++|...|++....
T Consensus        85 lg~~~~~~~~~~~A~~~~~kal~~  108 (128)
T d1elra_          85 IGNSYFKEEKYKDAIHFYNKSLAE  108 (128)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHhc
Confidence            788888899999999999977653

>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=98.38  E-value=1.2e-05  Score=49.10  Aligned_cols=99  Identities=15%  Similarity=0.056  Sum_probs=80.2

Q ss_pred             HHHhcCCHHHHHHHHHHHHhC--CC-CCC------------------HHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCC
Q 039637            4 AFCRSGCFEETKQLAGDFEAK--YD-KYD------------------VVLLNSMLCAYCRTGDMESVMHVMRKLDELAIS   62 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~--~~-~~~------------------~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~   62 (159)
                      .....|++++|.+.|....+.  |. .++                  ...+..+..++.+.|++++|+..+++..+.. .
T Consensus        20 ~~~~~g~~e~A~~~~~~AL~l~rG~~l~~~~~~~w~~~~r~~l~~~~~~a~~~la~~~~~~g~~~~Al~~~~~al~~~-P   98 (179)
T d2ff4a2          20 HAAAAGRFEQASRHLSAALREWRGPVLDDLRDFQFVEPFATALVEDKVLAHTAKAEAEIACGRASAVIAELEALTFEH-P   98 (179)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTTCCSSTTGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-T
T ss_pred             HHHHCCCHHHHHHHHHHHHhhCcccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCchHHHHHHHHHHHhC-C
Confidence            456789999999999987764  21 111                  1357888899999999999999999999853 2


Q ss_pred             CChhhHHHHHHHHHccChHHHHHHHHHHHH-----HcCCCCcHHHH
Q 039637           63 PDYNTFHILIKYFCKEKMYMLAYRTMVDMH-----RKGHQPEEELC  103 (159)
Q Consensus        63 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~-----~~g~~~~~~~~  103 (159)
                      -+...|..++.++.+.|+.++|++.|+++.     +.|+.|+..+-
T Consensus        99 ~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l~  144 (179)
T d2ff4a2          99 YREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLR  144 (179)
T ss_dssp             TCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHH
T ss_pred             ccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHHH
Confidence            467899999999999999999999999985     36899987653

>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=98.38  E-value=1.5e-05  Score=47.28  Aligned_cols=101  Identities=10%  Similarity=0.019  Sum_probs=79.1

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCC----CCC-----------HHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhh
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYD----KYD-----------VVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNT   67 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~----~~~-----------~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~   67 (159)
                      +.+.+.|++++|...|......-.    .++           ..+|+.+..+|.+.|++++|++.+.+..+.. +.+..+
T Consensus        25 ~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Al~~~~~al~~~-p~~~ka  103 (153)
T d2fbna1          25 NEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKA  103 (153)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHHHhhhhHHHHHHhhHHHHHHHhcccchhhhhhhcccccc-chhhhh
Confidence            356789999999999998764311    111           2467778899999999999999999998853 235789


Q ss_pred             HHHHHHHHHccChHHHHHHHHHHHHHcCCCC-cHHHHHHH
Q 039637           68 FHILIKYFCKEKMYMLAYRTMVDMHRKGHQP-EEELCSSL  106 (159)
Q Consensus        68 ~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~-~~~~~~~l  106 (159)
                      |..+..++...|++++|...|+...+..  | +..+...+
T Consensus       104 ~~~~g~~~~~lg~~~~A~~~~~~al~l~--P~n~~~~~~l  141 (153)
T d2fbna1         104 LYKLGVANMYFGFLEEAKENLYKAASLN--PNNLDIRNSY  141 (153)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHS--TTCHHHHHHH
T ss_pred             hHHhHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHH
Confidence            9999999999999999999999999864  4 44444433

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=98.37  E-value=1.3e-05  Score=48.29  Aligned_cols=60  Identities=13%  Similarity=-0.061  Sum_probs=32.2

Q ss_pred             HHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHh
Q 039637           68 FHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRY  128 (159)
Q Consensus        68 ~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  128 (159)
                      |+.+..+|.+.|++++|+..++..++.. +.+..+|..+..+|...|++++|...|++...
T Consensus        67 ~~Nla~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~  126 (168)
T d1kt1a1          67 FLNLAMCYLKLREYTKAVECCDKALGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLE  126 (168)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHhHHHHHHHhhhcccchhhhhhhhhcc-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3344445555555555555555555442 23445555555555555555555555555554

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=98.32  E-value=2.1e-05  Score=47.28  Aligned_cols=122  Identities=8%  Similarity=0.053  Sum_probs=86.8

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhC---CCCCC-----------HHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAK---YDKYD-----------VVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTF   68 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~---~~~~~-----------~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~   68 (159)
                      ..+.+.|++++|...|......   ...++           ..+|+.+..+|.+.|++++|+..+.+..+.. +.+...|
T Consensus        23 ~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~  101 (168)
T d1kt1a1          23 TVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD-SANEKGL  101 (168)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHhhccchhhhhhcchhHHHHHHhHHHHHHHhhhcccchhhhhhhhhcc-cchHHHH
Confidence            3577899999999999875532   11111           2346667788899999999999999998853 3457888


Q ss_pred             HHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHH-HHHHHHHHH
Q 039637           69 HILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHS-EALSVYNML  126 (159)
Q Consensus        69 ~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~-~a~~~~~~~  126 (159)
                      ..+..++...|++++|...|.+.++.. +.+..+...+-....+.+... ...+++..|
T Consensus       102 ~~~~~~~~~l~~~~~A~~~~~~al~l~-P~n~~~~~~l~~~~~~~~~~~e~~kk~~~~~  159 (168)
T d1kt1a1         102 YRRGEAQLLMNEFESAKGDFEKVLEVN-PQNKAARLQIFMCQKKAKEHNERDRRTYANM  159 (168)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            889999999999999999999999753 335556555555544444333 233444433

>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Transcription factor MalT domain III
domain: Transcription factor MalT domain III
species: Escherichia coli [TaxId: 562]

Probab=98.31  E-value=1.9e-05  Score=51.95  Aligned_cols=156  Identities=11%  Similarity=0.013  Sum_probs=111.4

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhC----CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhc----CCCCC--hhhHHHHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAK----YDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDEL----AISPD--YNTFHILI   72 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~----~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----~~~~~--~~~~~~ll   72 (159)
                      ..+...|+++.+...+......    +.......+......+...+++..+...+.+....    +..+.  ...+..+.
T Consensus       141 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  220 (366)
T d1hz4a_         141 QLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRV  220 (366)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHH
T ss_pred             HHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHH
Confidence            3567789999999999887643    22334566777778888899999988888766543    11111  23445566


Q ss_pred             HHHHccChHHHHHHHHHHHHHcCCCC---cHHHHHHHHHHHHccCCHHHHHHHHHHHHh----CCCCCC-HHHHHHHHHH
Q 039637           73 KYFCKEKMYMLAYRTMVDMHRKGHQP---EEELCSSLIFHLGKMRAHSEALSVYNMLRY----SKRSMC-KALHEKILHI  144 (159)
Q Consensus        73 ~~~~~~~~~~~a~~~~~~m~~~g~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~~~~----~~~~~~-~~~~~~l~~~  144 (159)
                      ..+...|++++|...+....+.....   ....+..+...+...|++++|...++....    .+..|+ ..++..+...
T Consensus       221 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~  300 (366)
T d1hz4a_         221 IYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQL  300 (366)
T ss_dssp             HHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHH
Confidence            67888899999999988876543222   234556678889999999999999987752    233333 4467778899


Q ss_pred             HHhcCcHHHHhhhh
Q 039637          145 LISGKLLKDAYIVV  158 (159)
Q Consensus       145 ~~~~g~~~~A~~~~  158 (159)
                      |.+.|++++|.+.+
T Consensus       301 ~~~~g~~~~A~~~l  314 (366)
T d1hz4a_         301 YWQAGRKSDAQRVL  314 (366)
T ss_dssp             HHHHTCHHHHHHHH
T ss_pred             HHHCCCHHHHHHHH
Confidence            99999999998876

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=98.28  E-value=8.8e-06  Score=47.90  Aligned_cols=99  Identities=14%  Similarity=0.080  Sum_probs=66.1

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC----------ChHHHHHHHHHhHhcCCCCC-hhhHHHHH
Q 039637            4 AFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTG----------DMESVMHVMRKLDELAISPD-YNTFHILI   72 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~----------~~~~a~~~~~~m~~~~~~~~-~~~~~~ll   72 (159)
                      .|-+.+.+++|.+.|+...+..|. +..++..+..++...+          .+++|+..|++..+  +.|+ ..+|..+-
T Consensus         6 ~~~r~~~fe~A~~~~e~al~~~P~-~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~--l~P~~~~a~~~lG   82 (145)
T d1zu2a1           6 EFDRILLFEQIRQDAENTYKSNPL-DADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALL--IDPKKDEAVWCIG   82 (145)
T ss_dssp             SHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHH
T ss_pred             HHHHHccHHHHHHHHHHHHhhCCc-chHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHH--hcchhhHHHhhHH
Confidence            356677899999999999888766 7888888888877543          34677778877776  3454 56666676


Q ss_pred             HHHHccCh-----------HHHHHHHHHHHHHcCCCCcHHHHHHHH
Q 039637           73 KYFCKEKM-----------YMLAYRTMVDMHRKGHQPEEELCSSLI  107 (159)
Q Consensus        73 ~~~~~~~~-----------~~~a~~~~~~m~~~g~~~~~~~~~~li  107 (159)
                      .+|...|+           +++|.+.|+...+.  .|+...+..-+
T Consensus        83 ~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~l--~P~~~~~~~~L  126 (145)
T d1zu2a1          83 NAYTSFAFLTPDETEAKHNFDLATQFFQQAVDE--QPDNTHYLKSL  126 (145)
T ss_dssp             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHH
T ss_pred             HHHHHcccchhhHHHHHHhHHHhhhhhhccccc--CCCHHHHHHHH
Confidence            66665543           45666666666653  34444444333

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.24  E-value=1.6e-05  Score=52.89  Aligned_cols=105  Identities=4%  Similarity=-0.085  Sum_probs=64.4

Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC--ChHHHHHHHHHhHhcCCCCChhhHH-HHHHHHHccChHHH
Q 039637            7 RSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTG--DMESVMHVMRKLDELAISPDYNTFH-ILIKYFCKEKMYML   83 (159)
Q Consensus         7 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~--~~~~a~~~~~~m~~~~~~~~~~~~~-~ll~~~~~~~~~~~   83 (159)
                      ..|++++|+.+++...+..+. +...|..+..++...+  ++++|...+.+..+.. .++...+. .....+...+.+++
T Consensus        85 ~~~~~~~al~~~~~~l~~~pk-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~  162 (334)
T d1dcea1          85 SAALVKAELGFLESCLRVNPK-SYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAE  162 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHH
T ss_pred             HHHHHHHHHHHHHHHHHhCCC-cHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHH
Confidence            445577788888877766554 6777777766666654  4677777777777642 12344443 33355666777777


Q ss_pred             HHHHHHHHHHcCCCCcHHHHHHHHHHHHccC
Q 039637           84 AYRTMVDMHRKGHQPEEELCSSLIFHLGKMR  114 (159)
Q Consensus        84 a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g  114 (159)
                      |+..++...+... -+...|+.+...+.+.|
T Consensus       163 Al~~~~~~i~~~p-~~~~a~~~l~~~~~~~~  192 (334)
T d1dcea1         163 ELAFTDSLITRNF-SNYSSWHYRSCLLPQLH  192 (334)
T ss_dssp             HHHHHHTTTTTTC-CCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHcCC-CCHHHHHHHHHHHHHhc
Confidence            7777777665532 34555555555444444

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=98.02  E-value=0.00012  Score=43.23  Aligned_cols=97  Identities=10%  Similarity=0.028  Sum_probs=71.0

Q ss_pred             HHHHHH--HHHHHhcCChHHHHHHHHHhHhcCC-CCC----------hhhHHHHHHHHHccChHHHHHHHHHHHHHc---
Q 039637           31 VLLNSM--LCAYCRTGDMESVMHVMRKLDELAI-SPD----------YNTFHILIKYFCKEKMYMLAYRTMVDMHRK---   94 (159)
Q Consensus        31 ~~~~~l--l~~~~~~~~~~~a~~~~~~m~~~~~-~~~----------~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~---   94 (159)
                      .+|..+  ...+.+.|++++|+..|.+..+..- .|+          ...|+.+-.+|...|++++|...+++.++.   
T Consensus         8 ~a~~~l~~g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~   87 (156)
T d2hr2a1           8 GAYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNR   87 (156)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccc
Confidence            355555  4556678999999999999876311 121          356788889999999999999988887642   


Q ss_pred             --CCCCc-----HHHHHHHHHHHHccCCHHHHHHHHHHHH
Q 039637           95 --GHQPE-----EELCSSLIFHLGKMRAHSEALSVYNMLR  127 (159)
Q Consensus        95 --g~~~~-----~~~~~~li~~~~~~g~~~~a~~~~~~~~  127 (159)
                        ...++     ..++..+..+|...|++++|...|++..
T Consensus        88 ~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al  127 (156)
T d2hr2a1          88 RGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVV  127 (156)
T ss_dssp             HCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             cccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHH
Confidence              11121     2356678899999999999999998765

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=98.00  E-value=5.9e-06  Score=53.61  Aligned_cols=115  Identities=10%  Similarity=0.064  Sum_probs=78.3

Q ss_pred             HHhcCChHHHHHHHHHhHhcCCCC-ChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCc-HHHHHHHHHHHHccCCHH
Q 039637           40 YCRTGDMESVMHVMRKLDELAISP-DYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPE-EELCSSLIFHLGKMRAHS  117 (159)
Q Consensus        40 ~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~-~~~~~~li~~~~~~g~~~  117 (159)
                      ..+.|++++|+..+.+.++.  .| |...+..+...++..|++++|.+.++...+..  |+ ...+..+...+...+..+
T Consensus         6 aL~~G~l~eAl~~l~~al~~--~P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~--P~~~~~~~~l~~ll~a~~~~~   81 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAIKA--SPKDASLRSSFIELLCIDGDFERADEQLMQSIKLF--PEYLPGASQLRHLVKAAQARK   81 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHHT--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--GGGHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHhccccH
Confidence            35679999999999999984  45 46888899999999999999999999998863  43 445544544444444444


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcHHHHhhhh
Q 039637          118 EALSVYNMLRYSKRSMCKALHEKILHILISGKLLKDAYIVV  158 (159)
Q Consensus       118 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (159)
                      ++..-...-...+.+++...+......+.+.|+.++|.+.+
T Consensus        82 ~a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~  122 (264)
T d1zbpa1          82 DFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELA  122 (264)
T ss_dssp             HHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHH
Confidence            33222111111122333444455567788899999998765

>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=97.92  E-value=0.00019  Score=42.36  Aligned_cols=90  Identities=9%  Similarity=-0.039  Sum_probs=68.8

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCC-C----------CHHHHHHHHHHHHhcCChHHHHHHHHHhHhc-----CCCCC---
Q 039637            4 AFCRSGCFEETKQLAGDFEAKYDK-Y----------DVVLLNSMLCAYCRTGDMESVMHVMRKLDEL-----AISPD---   64 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~~~-~----------~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-----~~~~~---   64 (159)
                      .+.+.|++++|++.|++..+-.+. |          ...+|+.+..+|.+.|++++|...+.+..+.     ...++   
T Consensus        18 ~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~   97 (156)
T d2hr2a1          18 RQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGK   97 (156)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccc
Confidence            456779999999999987753221 1          1467899999999999999999998887652     12222   


Q ss_pred             --hhhHHHHHHHHHccChHHHHHHHHHHHHH
Q 039637           65 --YNTFHILIKYFCKEKMYMLAYRTMVDMHR   93 (159)
Q Consensus        65 --~~~~~~ll~~~~~~~~~~~a~~~~~~m~~   93 (159)
                        ...+..+-.+|...|++++|...|++..+
T Consensus        98 ~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          98 LWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence              22466778899999999999999988764

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.78  E-value=3.9e-05  Score=54.01  Aligned_cols=116  Identities=8%  Similarity=-0.120  Sum_probs=71.0

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHH
Q 039637           29 DVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIF  108 (159)
Q Consensus        29 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~  108 (159)
                      +...+..+...+.+.|+.++|...+.+....  .| ..++..+-..+...+++++|+.+|.+..+.. +-+...|+.+..
T Consensus       119 ~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~~-~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~-P~~~~~~~~Lg~  194 (497)
T d1ya0a1         119 CRVKSSQLGIISNKQTHTSAIVKPQSSSCSY--IC-QHCLVHLGDIARYRNQTSQAESYYRHAAQLV-PSNGQPYNQLAI  194 (497)
T ss_dssp             ------------------------CCHHHHH--HH-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTBSHHHHHHHH
T ss_pred             hHHHHHHhHHHHHhCCCHHHHHHHHHHHhCC--CH-HHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCchHHHHHHHH
Confidence            4556677777777788888887776655441  11 3566778888899999999999999988764 346679999999


Q ss_pred             HHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 039637          109 HLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGK  149 (159)
Q Consensus       109 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  149 (159)
                      .+...|+..+|...|.+..... +|...++..+...+.+..
T Consensus       195 ~~~~~~~~~~A~~~y~ral~~~-~~~~~a~~nL~~~~~~~~  234 (497)
T d1ya0a1         195 LASSKGDHLTTIFYYCRSIAVK-FPFPAASTNLQKALSKAL  234 (497)
T ss_dssp             HHHHTTCHHHHHHHHHHHHSSS-BCCHHHHHHHHHHHHHHT
T ss_pred             HHHHcCCHHHHHHHHHHHHhCC-CCCHHHHHHHHHHHHHhh
Confidence            9999999999999999888643 567778888887776654

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=97.63  E-value=0.0002  Score=41.81  Aligned_cols=102  Identities=9%  Similarity=-0.062  Sum_probs=73.3

Q ss_pred             HHhcCChHHHHHHHHHhHhcCCCCC-hhhHHHHHHHHHcc----------ChHHHHHHHHHHHHHcCCCCcHHHHHHHHH
Q 039637           40 YCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKE----------KMYMLAYRTMVDMHRKGHQPEEELCSSLIF  108 (159)
Q Consensus        40 ~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~----------~~~~~a~~~~~~m~~~g~~~~~~~~~~li~  108 (159)
                      |-+.+.+++|...|++..+.  .|+ ...+..+-.++...          +.+++|+..+++.++.. +-+..+|..+..
T Consensus         7 ~~r~~~fe~A~~~~e~al~~--~P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~-P~~~~a~~~lG~   83 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYKS--NPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGN   83 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHccHHHHHHHHHHHHhh--CCcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhc-chhhHHHhhHHH
Confidence            44567799999999999884  465 56666666666543          55678999999998764 346778888888


Q ss_pred             HHHccCC-----------HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 039637          109 HLGKMRA-----------HSEALSVYNMLRYSKRSMCKALHEKILHILI  146 (159)
Q Consensus       109 ~~~~~g~-----------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  146 (159)
                      +|...|.           +++|...|++....  .|+...|...+..+.
T Consensus        84 ~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~l--~P~~~~~~~~L~~~~  130 (145)
T d1zu2a1          84 AYTSFAFLTPDETEAKHNFDLATQFFQQAVDE--QPDNTHYLKSLEMTA  130 (145)
T ss_dssp             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHcccchhhHHHHHHhHHHhhhhhhccccc--CCCHHHHHHHHHHHH
Confidence            8877653           68888999888753  455556555554443

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.41  E-value=0.002  Score=34.44  Aligned_cols=60  Identities=8%  Similarity=-0.118  Sum_probs=30.8

Q ss_pred             HHHHHHHhcCChHHHHHHHHHhHhcC-----CCCC-hhhHHHHHHHHHccChHHHHHHHHHHHHHc
Q 039637           35 SMLCAYCRTGDMESVMHVMRKLDELA-----ISPD-YNTFHILIKYFCKEKMYMLAYRTMVDMHRK   94 (159)
Q Consensus        35 ~ll~~~~~~~~~~~a~~~~~~m~~~~-----~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~   94 (159)
                      -+...+.+.|++.+|...|++..+..     ..++ ..++..+-.++.+.|++++|++.+++.++.
T Consensus        10 ~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l   75 (95)
T d1tjca_          10 ELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (95)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHh
Confidence            44555556666666666555544320     0111 234555555555556666666665555553

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.41  E-value=0.002  Score=34.42  Aligned_cols=75  Identities=13%  Similarity=-0.017  Sum_probs=55.9

Q ss_pred             hhHHHHHHHHHccChHHHHHHHHHHHHHcC-----CCC-cHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHH
Q 039637           66 NTFHILIKYFCKEKMYMLAYRTMVDMHRKG-----HQP-EEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHE  139 (159)
Q Consensus        66 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g-----~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  139 (159)
                      ..+-.+-..+.+.|++.+|..+|++.++..     ..+ ...++..+..+|.+.|++++|...+++..... |-+..++.
T Consensus         6 ddc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~-P~~~~a~~   84 (95)
T d1tjca_           6 EDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELD-PEHQRANG   84 (95)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhC-cCCHHHHH
Confidence            344457888999999999999999887531     112 25678899999999999999999999988643 22344444


Q ss_pred             HH
Q 039637          140 KI  141 (159)
Q Consensus       140 ~l  141 (159)
                      .+
T Consensus        85 Nl   86 (95)
T d1tjca_          85 NL   86 (95)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.33  E-value=0.0084  Score=39.82  Aligned_cols=139  Identities=11%  Similarity=0.126  Sum_probs=79.6

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHH
Q 039637            5 FCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLA   84 (159)
Q Consensus         5 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a   84 (159)
                      +.+.++++.|.+.+.+.      -+..+|..+..++.+......+     .+.......+......++..|...|.+++.
T Consensus        50 ~v~l~~~~~avd~~~k~------~~~~~~k~~~~~l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~L  118 (336)
T d1b89a_          50 LVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEEL  118 (336)
T ss_dssp             HHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHhhccHHHHHHHHHHc------CCHHHHHHHHHHHHhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHH
Confidence            34444444444443322      1455666666666655544332     222233445566667888999999999999


Q ss_pred             HHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHH--------HHHHHHHHHHhcCcHHHHhh
Q 039637           85 YRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKA--------LHEKILHILISGKLLKDAYI  156 (159)
Q Consensus        85 ~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~--------~~~~l~~~~~~~g~~~~A~~  156 (159)
                      ..+++..... -+.+...++-++..|++.+. ++-...++... ....+...        .|.-++..|.+.|++++|..
T Consensus       119 i~~Le~~~~~-~~~~~~~~~~L~~lyak~~~-~kl~e~l~~~s-~~y~~~k~~~~c~~~~l~~elv~Ly~~~~~~~~A~~  195 (336)
T d1b89a_         119 ITMLEAALGL-ERAHMGMFTELAILYSKFKP-QKMREHLELFW-SRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAII  195 (336)
T ss_dssp             HHHHHHHTTS-TTCCHHHHHHHHHHHHTTCH-HHHHHHHHHHS-TTSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHcC-CccchHHHHHHHHHHHHhCh-HHHHHHHHhcc-ccCCHHHHHHHHHHcCChHHHHHHHHhcCCHHHHHH
Confidence            9999887643 24577788889999998753 33333332221 12222211        14556666666666666654


Q ss_pred             h
Q 039637          157 V  157 (159)
Q Consensus       157 ~  157 (159)
                      +
T Consensus       196 ~  196 (336)
T d1b89a_         196 T  196 (336)
T ss_dssp             H
T ss_pred             H
Confidence            3

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.31  E-value=0.0088  Score=39.71  Aligned_cols=128  Identities=11%  Similarity=0.057  Sum_probs=89.7

Q ss_pred             hHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHH
Q 039637            3 SAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYM   82 (159)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~   82 (159)
                      +.|.+.|.++.|..+|..+.         -|..++..+.+.++++.|.+++.+.      -+..+|..+..+|.......
T Consensus        22 ~~c~~~~lye~A~~lY~~~~---------d~~rl~~~~v~l~~~~~avd~~~k~------~~~~~~k~~~~~l~~~~e~~   86 (336)
T d1b89a_          22 DRCYDEKMYDAAKLLYNNVS---------NFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFR   86 (336)
T ss_dssp             -------CTTTHHHHHHHTT---------CHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHCCCHHHHHHHHHhCC---------CHHHHHHHHHhhccHHHHHHHHHHc------CCHHHHHHHHHHHHhCcHHH
Confidence            34556777777777775443         2667788888899999998887654      34568888888888776554


Q ss_pred             HHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcH
Q 039637           83 LAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLL  151 (159)
Q Consensus        83 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  151 (159)
                      -+     ++...+...++.....++..|...|.+++...+++.... ..+.+...++.++..|++.+.-
T Consensus        87 la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~-~~~~~~~~~~~L~~lyak~~~~  149 (336)
T d1b89a_          87 LA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALG-LERAHMGMFTELAILYSKFKPQ  149 (336)
T ss_dssp             HH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTT-STTCCHHHHHHHHHHHHTTCHH
T ss_pred             HH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHc-CCccchHHHHHHHHHHHHhChH
Confidence            32     233334445667778899999999999999999998764 3456777888999999987653

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.02  E-value=0.0017  Score=45.51  Aligned_cols=100  Identities=8%  Similarity=-0.087  Sum_probs=61.3

Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCC-hhhHHHHHHHHHccChHHHHH
Q 039637            7 RSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPD-YNTFHILIKYFCKEKMYMLAY   85 (159)
Q Consensus         7 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~   85 (159)
                      +.|+.++|...+......  . ...++..+.+.+...+++++|...|.+..+  +.|+ ...|+.|-..+...|+..+|.
T Consensus       132 ~~~~~~~A~~~~~~al~~--~-~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~--l~P~~~~~~~~Lg~~~~~~~~~~~A~  206 (497)
T d1ya0a1         132 KQTHTSAIVKPQSSSCSY--I-CQHCLVHLGDIARYRNQTSQAESYYRHAAQ--LVPSNGQPYNQLAILASSKGDHLTTI  206 (497)
T ss_dssp             -----------CCHHHHH--H-HHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTBSHHHHHHHHHHHHTTCHHHHH
T ss_pred             hCCCHHHHHHHHHHHhCC--C-HHHHHHHHHHHHHHcccHHHHHHHHHHHHH--HCCCchHHHHHHHHHHHHcCCHHHHH
Confidence            444555555544433321  1 124566777788888888888888888777  4465 467888888888888888888


Q ss_pred             HHHHHHHHcCCCCcHHHHHHHHHHHHc
Q 039637           86 RTMVDMHRKGHQPEEELCSSLIFHLGK  112 (159)
Q Consensus        86 ~~~~~m~~~g~~~~~~~~~~li~~~~~  112 (159)
                      ..|.+.+... +|.+.++..|...+.+
T Consensus       207 ~~y~ral~~~-~~~~~a~~nL~~~~~~  232 (497)
T d1ya0a1         207 FYYCRSIAVK-FPFPAASTNLQKALSK  232 (497)
T ss_dssp             HHHHHHHSSS-BCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCC-CCCHHHHHHHHHHHHH
Confidence            8888777654 3566666666666554

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=96.72  E-value=0.016  Score=32.71  Aligned_cols=113  Identities=11%  Similarity=0.031  Sum_probs=76.7

Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHc----cChHHH
Q 039637            8 SGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCK----EKMYML   83 (159)
Q Consensus         8 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~----~~~~~~   83 (159)
                      ..++++|.++|++..+.|...   ....|.  .....+.++|...+++..+.|.   ......|-..|..    ..+.++
T Consensus         6 ~kd~~~A~~~~~kaa~~g~~~---a~~~l~--~~~~~~~~~a~~~~~~aa~~g~---~~a~~~Lg~~y~~g~~~~~d~~~   77 (133)
T d1klxa_           6 KKDLKKAIQYYVKACELNEMF---GCLSLV--SNSQINKQKLFQYLSKACELNS---GNGCRFLGDFYENGKYVKKDLRK   77 (133)
T ss_dssp             HHHHHHHHHHHHHHHHTTCTT---HHHHHH--TCTTSCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHCSSSCCCHHH
T ss_pred             ccCHHHHHHHHHHHHHCCChh---hhhhhc--cccccCHHHHHHHHhhhhcccc---hhhhhhHHHhhhhccccchhhHH
Confidence            357889999999988776432   222222  2345678899999999888653   3444444444443    467899


Q ss_pred             HHHHHHHHHHcCCCCcHHHHHHHHHHHHc----cCCHHHHHHHHHHHHhCCC
Q 039637           84 AYRTMVDMHRKGHQPEEELCSSLIFHLGK----MRAHSEALSVYNMLRYSKR  131 (159)
Q Consensus        84 a~~~~~~m~~~g~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~~  131 (159)
                      |.++|++..+.|.   +.....|...|..    ..+.++|.++|++....|.
T Consensus        78 A~~~~~~aa~~g~---~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G~  126 (133)
T d1klxa_          78 AAQYYSKACGLND---QDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  126 (133)
T ss_dssp             HHHHHHHHHHTTC---HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHhhhhccCc---chHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCCC
Confidence            9999999988774   3344455555554    4689999999998876654

>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=96.70  E-value=0.013  Score=31.36  Aligned_cols=62  Identities=16%  Similarity=0.201  Sum_probs=35.4

Q ss_pred             ChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHH
Q 039637           45 DMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLI  107 (159)
Q Consensus        45 ~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li  107 (159)
                      |..++.+-++.+....+.|++....+.+++|.+.+++.-|.++++.++.+ +.++...|..++
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K-~~~~k~~y~yil   82 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVI   82 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCcHHHHHHHH
Confidence            45556666666666666666666666666666666666666666665543 222334454443

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=96.55  E-value=0.022  Score=32.19  Aligned_cols=124  Identities=8%  Similarity=0.090  Sum_probs=85.6

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhc-CC----------------CCChhh
Q 039637            5 FCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDEL-AI----------------SPDYNT   67 (159)
Q Consensus         5 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-~~----------------~~~~~~   67 (159)
                      +.-.|.+++..++..+...+   .+..-||-+|.-....-+-+.+..+++..-+. .+                ..+...
T Consensus        12 ~ildG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~FDls~C~Nlk~vv~C~~~~n~~se~   88 (161)
T d1wy6a1          12 FLLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDLDKCQNLKSVVECGVINNTLNEH   88 (161)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCGGGCSCTHHHHHHHHHTTCCCHH
T ss_pred             HHHhhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHHhhhcCchhhhcHHHHHHHHHHhcchHHH
Confidence            45678999999999888764   24455665555555544444455555444331 01                123344


Q ss_pred             HHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCC
Q 039637           68 FHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRS  132 (159)
Q Consensus        68 ~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  132 (159)
                      +...++....+|+-+...++++.+.+.+ +|++...-.+..+|.+.|...++..++.+.-+.|.+
T Consensus        89 vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~ACe~G~K  152 (161)
T d1wy6a1          89 VNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKKGEK  152 (161)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhHH
Confidence            5667788888888888888988888754 678888888999999999999999999888776654

>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=96.42  E-value=0.021  Score=30.50  Aligned_cols=64  Identities=8%  Similarity=0.087  Sum_probs=44.6

Q ss_pred             hHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 039637           80 MYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKRSMCKALHEKILHI  144 (159)
Q Consensus        80 ~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  144 (159)
                      |..+..+-++.+......|++.+..+.+++|-+.+++..|.++|+.++.. ..++...|..+++-
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K-~~~~k~~y~yilqe   84 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQE   84 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCcHHHHHHHHHH
Confidence            55667777777777777788888888888888888888888888877642 22234466655543

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=95.94  E-value=0.051  Score=30.47  Aligned_cols=104  Identities=12%  Similarity=-0.070  Sum_probs=69.6

Q ss_pred             CChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHc----cCCHHHH
Q 039637           44 GDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGK----MRAHSEA  119 (159)
Q Consensus        44 ~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~----~g~~~~a  119 (159)
                      .|+++|...|.+..+.|-.   .....|.  .....+.++|.+++.+..+.|.   +..+..|...|..    ..+.++|
T Consensus         7 kd~~~A~~~~~kaa~~g~~---~a~~~l~--~~~~~~~~~a~~~~~~aa~~g~---~~a~~~Lg~~y~~g~~~~~d~~~A   78 (133)
T d1klxa_           7 KDLKKAIQYYVKACELNEM---FGCLSLV--SNSQINKQKLFQYLSKACELNS---GNGCRFLGDFYENGKYVKKDLRKA   78 (133)
T ss_dssp             HHHHHHHHHHHHHHHTTCT---THHHHHH--TCTTSCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             cCHHHHHHHHHHHHHCCCh---hhhhhhc--cccccCHHHHHHHHhhhhcccc---hhhhhhHHHhhhhccccchhhHHH
Confidence            3678899999998887632   2233332  3345688999999999888774   3444455555543    4678999


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCcHHHHhhhh
Q 039637          120 LSVYNMLRYSKRSMCKALHEKILHILIS----GKLLKDAYIVV  158 (159)
Q Consensus       120 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~  158 (159)
                      .++|++..+.+.   ......|-..|..    ..+.++|...|
T Consensus        79 ~~~~~~aa~~g~---~~a~~~Lg~~y~~G~gv~~d~~~A~~~~  118 (133)
T d1klxa_          79 AQYYSKACGLND---QDGCLILGYKQYAGKGVVKNEKQAVKTF  118 (133)
T ss_dssp             HHHHHHHHHTTC---HHHHHHHHHHHHHTSSSCCCHHHHHHHH
T ss_pred             HHHHhhhhccCc---chHHHHHHHHHHcCCccCCCHHHHHHHH
Confidence            999999887653   3344455555555    45788887765

>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=95.86  E-value=0.039  Score=31.18  Aligned_cols=86  Identities=8%  Similarity=-0.013  Sum_probs=67.8

Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChHHHHH
Q 039637            6 CRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMYMLAY   85 (159)
Q Consensus         6 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~   85 (159)
                      ..+++.......+-.+-     .+....+..++.....|+-+...++++.+.+.+ .|++...-.+..+|-+.|...++-
T Consensus        67 s~C~Nlk~vv~C~~~~n-----~~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~n  140 (161)
T d1wy6a1          67 DKCQNLKSVVECGVINN-----TLNEHVNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDAT  140 (161)
T ss_dssp             GGCSCTHHHHHHHHHTT-----CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             hhhhcHHHHHHHHHHhc-----chHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHH
Confidence            45667777777764442     355677888999999999999999999977754 577788888999999999999999


Q ss_pred             HHHHHHHHcCCC
Q 039637           86 RTMVDMHRKGHQ   97 (159)
Q Consensus        86 ~~~~~m~~~g~~   97 (159)
                      +++.+.=+.|..
T Consensus       141 ell~~ACe~G~K  152 (161)
T d1wy6a1         141 TLLIEACKKGEK  152 (161)
T ss_dssp             HHHHHHHHTTCH
T ss_pred             HHHHHHHHHhHH
Confidence            999998888864

>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=95.71  E-value=0.011  Score=33.17  Aligned_cols=78  Identities=9%  Similarity=0.020  Sum_probs=54.1

Q ss_pred             HHHHhC-CCCCCHHHHHHHHHHHHhcC---ChHHHHHHHHHhHhcCCCCC--hhhHHHHHHHHHccChHHHHHHHHHHHH
Q 039637           19 GDFEAK-YDKYDVVLLNSMLCAYCRTG---DMESVMHVMRKLDELAISPD--YNTFHILIKYFCKEKMYMLAYRTMVDMH   92 (159)
Q Consensus        19 ~~~~~~-~~~~~~~~~~~ll~~~~~~~---~~~~a~~~~~~m~~~~~~~~--~~~~~~ll~~~~~~~~~~~a~~~~~~m~   92 (159)
                      +...+. +..|++.+-=...-++++..   +.++++.+|.+....+  |.  ...+-.|--+|.+.|++++|++.++.++
T Consensus        23 ~q~~~e~~~~~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~--p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L  100 (124)
T d2pqrb1          23 QQVVSEGGPTATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEA--ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLF  100 (124)
T ss_dssp             HHHHHTTGGGSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHC--GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHhCCCCCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcC--chhHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            344444 35566665555555555543   5678999999988753  43  2455567888999999999999999999


Q ss_pred             HcCCCCcH
Q 039637           93 RKGHQPEE  100 (159)
Q Consensus        93 ~~g~~~~~  100 (159)
                      +.  .|+.
T Consensus       101 ~i--eP~n  106 (124)
T d2pqrb1         101 EH--ERNN  106 (124)
T ss_dssp             HH--CTTC
T ss_pred             cc--CCCc
Confidence            85  4543

>d1ouva_ a.118.18.1 (A:) Cysteine rich protein C (HcpC) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein C (HcpC)
species: Helicobacter pylori [TaxId: 210]

Probab=94.96  E-value=0.2  Score=31.08  Aligned_cols=132  Identities=11%  Similarity=-0.019  Sum_probs=84.8

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHH---
Q 039637            4 AFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCR----TGDMESVMHVMRKLDELAISPDYNTFHILIKYFC---   76 (159)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~---   76 (159)
                      .+.+.++.++|.+.|++..+.|   +...+-.|-..|..    ..++..+...+......+.   ......+...+.   
T Consensus        11 ~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~~---~~a~~~l~~~~~~~~   84 (265)
T d1ouva_          11 KSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLNY---SNGCHLLGNLYYSGQ   84 (265)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHTS
T ss_pred             HHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhcccccccc---cchhhcccccccccc
Confidence            4556789999999999988765   45566666777765    5688889999888777542   233333333333   


Q ss_pred             -ccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHH----ccCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 039637           77 -KEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLG----KMRAHSEALSVYNMLRYSKRSMCKALHEKILHILIS  147 (159)
Q Consensus        77 -~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~----~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  147 (159)
                       ...+.+.|...+.+....|.. .  ....+...+.    .......+...+......   .+...+..+...|..
T Consensus        85 ~~~~~~~~a~~~~~~a~~~g~~-~--a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~L~~~~~~  154 (265)
T d1ouva_          85 GVSQNTNKALQYYSKACDLKYA-E--GCASLGGIYHDGKVVTRDFKKAVEYFTKACDL---NDGDGCTILGSLYDA  154 (265)
T ss_dssp             SSCCCHHHHHHHHHHHHHTTCH-H--HHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHH
T ss_pred             ccchhhHHHHHHHhhhhhhhhh-h--HHHhhcccccCCCcccchhHHHHHHhhhhhcc---cccchhhhhhhhhcc
Confidence             246778899999988887642 2  2222322332    345677777777766653   344556666666665

>d1ouva_ a.118.18.1 (A:) Cysteine rich protein C (HcpC) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein C (HcpC)
species: Helicobacter pylori [TaxId: 210]

Probab=94.58  E-value=0.26  Score=30.56  Aligned_cols=142  Identities=11%  Similarity=-0.036  Sum_probs=77.5

Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCChHHHHHHHHHhHhcCCCC--------------------
Q 039637            8 SGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCR----TGDMESVMHVMRKLDELAISP--------------------   63 (159)
Q Consensus         8 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~m~~~~~~~--------------------   63 (159)
                      ..+...|...+..-.+.+   +......+...+..    ..+.+.|...+....+.|...                    
T Consensus        51 ~~d~~~a~~~~~~a~~~~---~~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~~~a~~~l~~~~~~~~~~~~~~~  127 (265)
T d1ouva_          51 EKNLKKAASFYAKACDLN---YSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLKYAEGCASLGGIYHDGKVVTRDFK  127 (265)
T ss_dssp             CCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHH
T ss_pred             chhHHHHHHhhccccccc---ccchhhccccccccccccchhhHHHHHHHhhhhhhhhhhHHHhhcccccCCCcccchhH
Confidence            567888888887777654   33334444444332    456677777777665544211                    


Q ss_pred             -------------ChhhHHHHHHHHHc----cChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHc----cCCHHHHHHH
Q 039637           64 -------------DYNTFHILIKYFCK----EKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGK----MRAHSEALSV  122 (159)
Q Consensus        64 -------------~~~~~~~ll~~~~~----~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~----~g~~~~a~~~  122 (159)
                                   +...+..|...+..    ..+...+..++....+.|   ++.....+...|..    ..+.++|..+
T Consensus       128 ~a~~~~~~~~~~~~~~~~~~L~~~~~~~~~~~~~~~~~~~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~  204 (265)
T d1ouva_         128 KAVEYFTKACDLNDGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALAR  204 (265)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHH
T ss_pred             HHHHHhhhhhcccccchhhhhhhhhccCCCcccccccchhhhhcccccc---ccccccchhhhcccCcccccchhhhhhh
Confidence                         12222333333332    234445555555555443   33344444444443    4678888888


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHh----cCcHHHHhhhh
Q 039637          123 YNMLRYSKRSMCKALHEKILHILIS----GKLLKDAYIVV  158 (159)
Q Consensus       123 ~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~  158 (159)
                      |++....|   +...+..|-..|.+    ..+.++|.+.|
T Consensus       205 ~~~aa~~g---~~~a~~~LG~~y~~G~g~~~n~~~A~~~~  241 (265)
T d1ouva_         205 YSKACELE---NGGGCFNLGAMQYNGEGVTRNEKQAIENF  241 (265)
T ss_dssp             HHHHHHTT---CHHHHHHHHHHHHTTSSSSCCSTTHHHHH
T ss_pred             Hhhhhccc---CHHHHHHHHHHHHcCCCCccCHHHHHHHH
Confidence            88887665   33455556666654    33677777665

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.03  E-value=0.23  Score=27.67  Aligned_cols=66  Identities=14%  Similarity=0.004  Sum_probs=47.2

Q ss_pred             CChhhHHHHHHHHHcc---ChHHHHHHHHHHHHHcCCCCcH-HHHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 039637           63 PDYNTFHILIKYFCKE---KMYMLAYRTMVDMHRKGHQPEE-ELCSSLIFHLGKMRAHSEALSVYNMLRYS  129 (159)
Q Consensus        63 ~~~~~~~~ll~~~~~~---~~~~~a~~~~~~m~~~g~~~~~-~~~~~li~~~~~~g~~~~a~~~~~~~~~~  129 (159)
                      |+..|--....++.+.   .+..+++.+++++.+.+ +.+. ..+--|.-+|.+.|++++|.+.++.+...
T Consensus        33 ~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~-p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~i  102 (124)
T d2pqrb1          33 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEA-ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH  102 (124)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             CCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcC-chhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHcc
Confidence            4444444444555544   56779999999998754 2233 45556788899999999999999999864

>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=92.32  E-value=0.47  Score=26.48  Aligned_cols=59  Identities=12%  Similarity=0.234  Sum_probs=27.0

Q ss_pred             hhHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChH--HHHHHHHHhHhcCC
Q 039637            2 ISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGDME--SVMHVMRKLDELAI   61 (159)
Q Consensus         2 l~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~--~a~~~~~~m~~~~~   61 (159)
                      ++-|...|+.++|...++++...... ...++..+..+.-+.+.-.  .+..++..+...|+
T Consensus        14 l~EY~~~~D~~Ea~~~l~eL~~p~~~-~e~V~~~i~~ale~~~~~r~~~~~~Ll~~L~~~~~   74 (129)
T d2nsza1          14 LKEYLLSGDISEAEHCLKELEVPHFH-HELVYEAIVMVLESTGESAFKMILDLLKSLWKSST   74 (129)
T ss_dssp             HHHHHHHCCHHHHHHHHHHHTCGGGH-HHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHhCCCHHHHHHHHHHcCCchhh-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHCCC
Confidence            44555666666666666555421111 2233333333333333332  23445566655544

>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=87.96  E-value=0.88  Score=25.32  Aligned_cols=61  Identities=13%  Similarity=0.006  Sum_probs=45.0

Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHhc-CChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChH
Q 039637           20 DFEAKYDKYDVVLLNSMLCAYCRT-GDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMY   81 (159)
Q Consensus        20 ~~~~~~~~~~~~~~~~ll~~~~~~-~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~   81 (159)
                      ++.+.|..++. .-..+++.+.+. +.+-.|.++++.+.+.+..++..|.-.-|+.+...|-.
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            36788887554 667778887776 45788999999999888888877766677777665543

>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=87.60  E-value=1.3  Score=24.60  Aligned_cols=60  Identities=17%  Similarity=0.188  Sum_probs=34.9

Q ss_pred             HHHcCCCCcHHHHHHHHHHHHcc-CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcH
Q 039637           91 MHRKGHQPEEELCSSLIFHLGKM-RAHSEALSVYNMLRYSKRSMCKALHEKILHILISGKLL  151 (159)
Q Consensus        91 m~~~g~~~~~~~~~~li~~~~~~-g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  151 (159)
                      +.+.|..++..- ..++..+... +..-.|.++++.+...+..++..|.-..+..+.+.|-+
T Consensus         7 Lr~~GlR~T~qR-~~Il~~L~~~~~~h~sa~ei~~~l~~~~~~i~~aTVYR~L~~l~e~gli   67 (134)
T d1mzba_           7 LRKAGLKVTLPR-VKILQMLDSAEQRHMSAEDVYKALMEAGEDVGLATVYRVLTQFEAAGLV   67 (134)
T ss_dssp             HHHTTCCCCHHH-HHHHHHHHCC-CCSBCHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTSE
T ss_pred             HHHcCCCCCHHH-HHHHHHHHhCCCCCCCHHHHHHHHHHhCCCccHHHHHHHHHHHHhccEE
Confidence            556666666533 3455555544 33556666677666666666666655556666655543

>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=85.76  E-value=0.83  Score=27.33  Aligned_cols=62  Identities=8%  Similarity=-0.014  Sum_probs=35.6

Q ss_pred             hhHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC--hHHHHHHHHHhHhcCCCCCh
Q 039637            2 ISAFCRSGCFEETKQLAGDFEAKYDKYDVVLLNSMLCAYCRTGD--MESVMHVMRKLDELAISPDY   65 (159)
Q Consensus         2 l~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~--~~~a~~~~~~m~~~~~~~~~   65 (159)
                      ++-|...|+.++|...++++...... ...+.. ++......++  -+.+..++..+.+.|+-+..
T Consensus        17 l~Ey~~~~D~~Ea~~~l~el~~p~~~-~~~V~~-~i~~~le~~~~~re~~~~Ll~~L~~~~~is~~   80 (193)
T d1ug3a1          17 IEEYLHLNDMKEAVQCVQELASPSLL-FIFVRH-GVESTLERSAIAREHMGQLLHQLLCAGHLSTA   80 (193)
T ss_dssp             HHHHHHHCCHHHHHHHHHTTCCGGGH-HHHHHH-HHHHHTTTCHHHHHHHHHHHHHHHHTTSSCHH
T ss_pred             HHHHHhCCCHHHHHHHHHHcCCchhH-HHHHHH-HHHHHHcCCHHHHHHHHHHHHHHHHCCCCCHH
Confidence            56788889999999998877522111 222222 3333333332  34467777778777664443

>d2f6ma1 a.2.17.1 (A:322-385) Vacuolar protein sorting-associated protein 23, VPS23 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: Long alpha-hairpin
superfamily: Endosomal sorting complex assembly domain
family: VPS23 C-terminal domain
domain: Vacuolar protein sorting-associated protein 23, VPS23
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=84.14  E-value=1.3  Score=21.25  Aligned_cols=49  Identities=8%  Similarity=0.033  Sum_probs=30.3

Q ss_pred             hHHHHHHHHHccChHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCH
Q 039637           67 TFHILIKYFCKEKMYMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAH  116 (159)
Q Consensus        67 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~  116 (159)
                      .+|.|+..+++..-.+.++.++++..+.|. .+..+|---++.+++..-+
T Consensus         3 a~nQl~~l~Aed~AieDaiy~L~~aL~~G~-I~~d~ylK~vR~LaReQF~   51 (64)
T d2f6ma1           3 GLNQLYNLVAQDYALTDTIEALSRMLHRGT-IPLDTFVKQGRELARQQFL   51 (64)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHTS-SCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHcCC-cCHHHHHHHHHHHHHHHHH
Confidence            456666666666666677777777776663 4556666666665554433

>d2f6ma1 a.2.17.1 (A:322-385) Vacuolar protein sorting-associated protein 23, VPS23 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: Long alpha-hairpin
superfamily: Endosomal sorting complex assembly domain
family: VPS23 C-terminal domain
domain: Vacuolar protein sorting-associated protein 23, VPS23
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=83.12  E-value=1.5  Score=21.06  Aligned_cols=44  Identities=9%  Similarity=0.125  Sum_probs=23.2

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHc
Q 039637           33 LNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCK   77 (159)
Q Consensus        33 ~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~   77 (159)
                      +|-|++.+++..-.++++..+.+..+.|. .+..+|---++..++
T Consensus         4 ~nQl~~l~Aed~AieDaiy~L~~aL~~G~-I~~d~ylK~vR~LaR   47 (64)
T d2f6ma1           4 LNQLYNLVAQDYALTDTIEALSRMLHRGT-IPLDTFVKQGRELAR   47 (64)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHTS-SCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHcCC-cCHHHHHHHHHHHHH
Confidence            45555555555555555555555555553 345555544544444

>d2nsza1 a.118.1.14 (A:322-450) Programmed cell death 4, PDCD4 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: MIF4G domain-like
domain: Programmed cell death 4, PDCD4
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=82.98  E-value=2.4  Score=23.39  Aligned_cols=67  Identities=9%  Similarity=0.180  Sum_probs=45.4

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHhHhcCCCCChhhHHHHHHHHHccChH--HHHHHHHHHHHHcCCCCc
Q 039637           32 LLNSMLCAYCRTGDMESVMHVMRKLDELAISPDYNTFHILIKYFCKEKMY--MLAYRTMVDMHRKGHQPE   99 (159)
Q Consensus        32 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~--~~a~~~~~~m~~~g~~~~   99 (159)
                      -...++.-|...++.++|...++++...... ....+..+..+.-+.+.-  +.+.+++..+...|+-+.
T Consensus         9 k~~~ll~EY~~~~D~~Ea~~~l~eL~~p~~~-~e~V~~~i~~ale~~~~~r~~~~~~Ll~~L~~~~~is~   77 (129)
T d2nsza1           9 EIDMLLKEYLLSGDISEAEHCLKELEVPHFH-HELVYEAIVMVLESTGESAFKMILDLLKSLWKSSTITI   77 (129)
T ss_dssp             HHHHHHHHHHHHCCHHHHHHHHHHHTCGGGH-HHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHTTCSCH
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHcCCchhh-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHCCCCCH
Confidence            4578899999999999999999998542111 234444555556565544  335778899988875443

>d1khda1 a.46.2.1 (A:12-80) Anthranilate phosphoribosyltransferase (TrpD) {Pectobacterium carotovorum [TaxId: 554]}

class: All alpha proteins
fold: Methionine synthase domain-like
superfamily: Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain
family: Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain
domain: Anthranilate phosphoribosyltransferase (TrpD)
species: Pectobacterium carotovorum [TaxId: 554]

Probab=81.15  E-value=1.9  Score=20.84  Aligned_cols=63  Identities=11%  Similarity=0.073  Sum_probs=33.0

Q ss_pred             HHHHHHHHHccCh--HHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCC
Q 039637           68 FHILIKYFCKEKM--YMLAYRTMVDMHRKGHQPEEELCSSLIFHLGKMRAHSEALSVYNMLRYSKR  131 (159)
Q Consensus        68 ~~~ll~~~~~~~~--~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  131 (159)
                      |..++.-....++  .+++..+++.+... ..++...-..|+....+.-..++...+.+.|.+++.
T Consensus         2 ~~~il~kl~~g~~Ls~ee~~~~~~~i~~g-~~~d~qiaafL~al~~kg~t~dEi~g~~~am~~~~~   66 (69)
T d1khda1           2 HQPILEKLFKSQSMTQEESHQLFAAIVRG-ELEDSQLAAALISMKMRGERPEEIAGAASALLADAQ   66 (69)
T ss_dssp             CHHHHHHHHTTCCCCHHHHHHHHHHHTTT-CSCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHTSC
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCC
Confidence            4444554444332  34555666666543 234555555555555555556666666666665443